LOW QUALITY PROTEIN: chromodomain Y-like protein [Centrocercus urophasianus]
Protein Classification
enoyl-CoA hydratase/isomerase family protein( domain architecture ID 13036092)
enoyl-CoA hydratase/isomerase family protein similar to enoyl-CoA hydratase, which catalyzes the second step in the beta-oxidation pathway of fatty acid metabolism, the syn-addition of a water molecule across the double bond of a trans-2-enoyl-CoA thioester, resulting in the formation of a beta-hydroxyacyl-CoA thioester
List of domain hits
| Name | Accession | Description | Interval | E-value | ||||
| crotonase-like | cd06558 | Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse ... |
619-815 | 8.56e-47 | ||||
Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. Many of these play important roles in fatty acid metabolism. In addition to a conserved structural core and the formation of trimers (or dimers of trimers), a common feature in this superfamily is the stabilization of an enolate anion intermediate derived from an acyl-CoA substrate. This is accomplished by two conserved backbone NH groups in active sites that form an oxyanion hole. : Pssm-ID: 119339 [Multi-domain] Cd Length: 195 Bit Score: 165.43 E-value: 8.56e-47
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| CD_CDY | cd18634 | chromodomain of the Chromodomain Y-like protein family; This group includes the chromodomain ... |
335-386 | 2.10e-32 | ||||
chromodomain of the Chromodomain Y-like protein family; This group includes the chromodomain found in the mammalian chromodomain Y-like (CDY) protein family, and similar proteins. The human CDY family includes 6 proteins: the genes encoding four of these: two copies of CDY1 (CDY1a, CDY1a) and two copies of CDY2(CDY2a and CDY2b), are located on chromosome Y, and the genes encoding the other two members (CDYL and CDYL2) are located on autosomes. The chromosomal genes are only present in primates, whereas the CDYL and CDYL2 genes exist in most mammalian species. The CDY family proteins contain two functional domains: a chromodomain involved in chromatin binding and a catalytic domain found in many coenzyme A (CoA)- dependent acylation enzymes. CDYL is ubiquitously expressed, whereas CDYL2 shows selective expression in tissues of testis, prostate, spleen, and leukocyte. The CDYL genes are ubiquitously expressed, the CDY genes are only expressed in the testis. Deletion of the CDY1b gene has been shown to be a risk factor for male infertility. Impairments in CDY2 expression could be implicated in the pathogenesis of maturation arrest (a failure of germ cell development). : Pssm-ID: 349284 Cd Length: 52 Bit Score: 119.47 E-value: 2.10e-32
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| Name | Accession | Description | Interval | E-value | |||||
| crotonase-like | cd06558 | Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse ... |
619-815 | 8.56e-47 | |||||
Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. Many of these play important roles in fatty acid metabolism. In addition to a conserved structural core and the formation of trimers (or dimers of trimers), a common feature in this superfamily is the stabilization of an enolate anion intermediate derived from an acyl-CoA substrate. This is accomplished by two conserved backbone NH groups in active sites that form an oxyanion hole. Pssm-ID: 119339 [Multi-domain] Cd Length: 195 Bit Score: 165.43 E-value: 8.56e-47
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| CaiD | COG1024 | Enoyl-CoA hydratase/carnithine racemase [Lipid transport and metabolism]; Enoyl-CoA hydratase ... |
619-869 | 1.32e-42 | |||||
Enoyl-CoA hydratase/carnithine racemase [Lipid transport and metabolism]; Enoyl-CoA hydratase/carnithine racemase is part of the Pathway/BioSystem: Fatty acid biosynthesis Pssm-ID: 440647 [Multi-domain] Cd Length: 249 Bit Score: 155.71 E-value: 1.32e-42
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| PRK06688 | PRK06688 | enoyl-CoA hydratase; Provisional |
617-848 | 3.98e-36 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 235852 [Multi-domain] Cd Length: 259 Bit Score: 137.31 E-value: 3.98e-36
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| CD_CDY | cd18634 | chromodomain of the Chromodomain Y-like protein family; This group includes the chromodomain ... |
335-386 | 2.10e-32 | |||||
chromodomain of the Chromodomain Y-like protein family; This group includes the chromodomain found in the mammalian chromodomain Y-like (CDY) protein family, and similar proteins. The human CDY family includes 6 proteins: the genes encoding four of these: two copies of CDY1 (CDY1a, CDY1a) and two copies of CDY2(CDY2a and CDY2b), are located on chromosome Y, and the genes encoding the other two members (CDYL and CDYL2) are located on autosomes. The chromosomal genes are only present in primates, whereas the CDYL and CDYL2 genes exist in most mammalian species. The CDY family proteins contain two functional domains: a chromodomain involved in chromatin binding and a catalytic domain found in many coenzyme A (CoA)- dependent acylation enzymes. CDYL is ubiquitously expressed, whereas CDYL2 shows selective expression in tissues of testis, prostate, spleen, and leukocyte. The CDYL genes are ubiquitously expressed, the CDY genes are only expressed in the testis. Deletion of the CDY1b gene has been shown to be a risk factor for male infertility. Impairments in CDY2 expression could be implicated in the pathogenesis of maturation arrest (a failure of germ cell development). Pssm-ID: 349284 Cd Length: 52 Bit Score: 119.47 E-value: 2.10e-32
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| Chromo | pfam00385 | Chromo (CHRromatin organization MOdifier) domain; |
336-387 | 2.98e-23 | |||||
Chromo (CHRromatin organization MOdifier) domain; Pssm-ID: 459793 [Multi-domain] Cd Length: 52 Bit Score: 93.03 E-value: 2.98e-23
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| CHROMO | smart00298 | Chromatin organization modifier domain; |
336-389 | 4.86e-21 | |||||
Chromatin organization modifier domain; Pssm-ID: 214605 [Multi-domain] Cd Length: 55 Bit Score: 86.88 E-value: 4.86e-21
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| ECH_1 | pfam00378 | Enoyl-CoA hydratase/isomerase; This family contains a diverse set of enzymes including: ... |
639-868 | 1.15e-19 | |||||
Enoyl-CoA hydratase/isomerase; This family contains a diverse set of enzymes including: enoyl-CoA hydratase, napthoate synthase, carnitate racemase, 3-hydroxybutyryl-CoA dehydratase and dodecanoyl-CoA delta-isomerase. Pssm-ID: 395302 [Multi-domain] Cd Length: 251 Bit Score: 89.34 E-value: 1.15e-19
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| fa_ox_alpha_mit | TIGR02441 | fatty acid oxidation complex, alpha subunit, mitochondrial; Members represent alpha subunit of ... |
619-801 | 7.13e-09 | |||||
fatty acid oxidation complex, alpha subunit, mitochondrial; Members represent alpha subunit of mitochondrial multifunctional fatty acid degradation enzyme complex. Subunit activities include: enoyl-CoA hydratase (EC 4.2.1.17) _ 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35). Some characterization in human (SP:P40939), pig (SP:Q29554), and rat (SP:Q64428). The beta subunit has activity: acetyl-CoA C-acyltransferase (EC 2.3.1.16). Pssm-ID: 131494 [Multi-domain] Cd Length: 737 Bit Score: 59.47 E-value: 7.13e-09
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| Name | Accession | Description | Interval | E-value | |||||
| crotonase-like | cd06558 | Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse ... |
619-815 | 8.56e-47 | |||||
Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. Many of these play important roles in fatty acid metabolism. In addition to a conserved structural core and the formation of trimers (or dimers of trimers), a common feature in this superfamily is the stabilization of an enolate anion intermediate derived from an acyl-CoA substrate. This is accomplished by two conserved backbone NH groups in active sites that form an oxyanion hole. Pssm-ID: 119339 [Multi-domain] Cd Length: 195 Bit Score: 165.43 E-value: 8.56e-47
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| CaiD | COG1024 | Enoyl-CoA hydratase/carnithine racemase [Lipid transport and metabolism]; Enoyl-CoA hydratase ... |
619-869 | 1.32e-42 | |||||
Enoyl-CoA hydratase/carnithine racemase [Lipid transport and metabolism]; Enoyl-CoA hydratase/carnithine racemase is part of the Pathway/BioSystem: Fatty acid biosynthesis Pssm-ID: 440647 [Multi-domain] Cd Length: 249 Bit Score: 155.71 E-value: 1.32e-42
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| PRK06688 | PRK06688 | enoyl-CoA hydratase; Provisional |
617-848 | 3.98e-36 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 235852 [Multi-domain] Cd Length: 259 Bit Score: 137.31 E-value: 3.98e-36
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| CD_CDY | cd18634 | chromodomain of the Chromodomain Y-like protein family; This group includes the chromodomain ... |
335-386 | 2.10e-32 | |||||
chromodomain of the Chromodomain Y-like protein family; This group includes the chromodomain found in the mammalian chromodomain Y-like (CDY) protein family, and similar proteins. The human CDY family includes 6 proteins: the genes encoding four of these: two copies of CDY1 (CDY1a, CDY1a) and two copies of CDY2(CDY2a and CDY2b), are located on chromosome Y, and the genes encoding the other two members (CDYL and CDYL2) are located on autosomes. The chromosomal genes are only present in primates, whereas the CDYL and CDYL2 genes exist in most mammalian species. The CDY family proteins contain two functional domains: a chromodomain involved in chromatin binding and a catalytic domain found in many coenzyme A (CoA)- dependent acylation enzymes. CDYL is ubiquitously expressed, whereas CDYL2 shows selective expression in tissues of testis, prostate, spleen, and leukocyte. The CDYL genes are ubiquitously expressed, the CDY genes are only expressed in the testis. Deletion of the CDY1b gene has been shown to be a risk factor for male infertility. Impairments in CDY2 expression could be implicated in the pathogenesis of maturation arrest (a failure of germ cell development). Pssm-ID: 349284 Cd Length: 52 Bit Score: 119.47 E-value: 2.10e-32
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| PRK08260 | PRK08260 | enoyl-CoA hydratase; Provisional |
616-834 | 1.19e-23 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 236206 [Multi-domain] Cd Length: 296 Bit Score: 102.01 E-value: 1.19e-23
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| CD_CSD | cd00024 | CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains; Members of this ... |
336-386 | 1.48e-23 | |||||
CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains; Members of this group are chromodomains or chromo shadow domains; these are SH3-fold-beta-barrel domains of the chromo-like superfamily. Chromodomains lack the first strand of the SH3-fold-beta-barrel, this first strand is altered by insertion in the chromo shadow domains. The chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. Chromodomain-containing proteins include: i) those having an N-terminal chromodomain followed by a related chromo shadow domain, such as Drosophila and human heterochromatin protein Su(var)205 (HP1), and mammalian modifier 1 and 2; ii) those having a single chromodomain, such as Drosophila protein Polycomb (Pc), mammalian modifier 3, human Mi-2 autoantigen, and several yeast and Caenorhabditis elegans proteins of unknown function; iii) those having paired tandem chromodomains, such as mammalian DNA-binding/helicase proteins CHD-1 to CHD-4 and yeast protein CHD1; (iv) and elongation factor eEF3, a member of the ATP-binding cassette (ABC) family of proteins, that serves an essential function in the translation cycle of fungi. eEF3 is a soluble factor lacking a transmembrane domain and having two ABC domains arranged in tandem, with a unique chromodomain inserted within the ABC2 domain. Pssm-ID: 349274 [Multi-domain] Cd Length: 50 Bit Score: 94.08 E-value: 1.48e-23
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| Chromo | pfam00385 | Chromo (CHRromatin organization MOdifier) domain; |
336-387 | 2.98e-23 | |||||
Chromo (CHRromatin organization MOdifier) domain; Pssm-ID: 459793 [Multi-domain] Cd Length: 52 Bit Score: 93.03 E-value: 2.98e-23
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| PRK05809 | PRK05809 | short-chain-enoyl-CoA hydratase; |
616-873 | 1.26e-22 | |||||
short-chain-enoyl-CoA hydratase; Pssm-ID: 180270 [Multi-domain] Cd Length: 260 Bit Score: 98.28 E-value: 1.26e-22
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| PRK07511 | PRK07511 | enoyl-CoA hydratase; Provisional |
640-845 | 2.65e-21 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 181009 [Multi-domain] Cd Length: 260 Bit Score: 94.29 E-value: 2.65e-21
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| CHROMO | smart00298 | Chromatin organization modifier domain; |
336-389 | 4.86e-21 | |||||
Chromatin organization modifier domain; Pssm-ID: 214605 [Multi-domain] Cd Length: 55 Bit Score: 86.88 E-value: 4.86e-21
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| PRK05981 | PRK05981 | enoyl-CoA hydratase/isomerase; |
640-873 | 3.77e-20 | |||||
enoyl-CoA hydratase/isomerase; Pssm-ID: 235661 Cd Length: 266 Bit Score: 91.33 E-value: 3.77e-20
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| ECH_1 | pfam00378 | Enoyl-CoA hydratase/isomerase; This family contains a diverse set of enzymes including: ... |
639-868 | 1.15e-19 | |||||
Enoyl-CoA hydratase/isomerase; This family contains a diverse set of enzymes including: enoyl-CoA hydratase, napthoate synthase, carnitate racemase, 3-hydroxybutyryl-CoA dehydratase and dodecanoyl-CoA delta-isomerase. Pssm-ID: 395302 [Multi-domain] Cd Length: 251 Bit Score: 89.34 E-value: 1.15e-19
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| PRK06023 | PRK06023 | crotonase/enoyl-CoA hydratase family protein; |
640-831 | 4.13e-19 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 168351 Cd Length: 251 Bit Score: 87.93 E-value: 4.13e-19
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| PRK09245 | PRK09245 | crotonase/enoyl-CoA hydratase family protein; |
618-803 | 4.74e-19 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 181723 Cd Length: 266 Bit Score: 88.10 E-value: 4.74e-19
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| PRK06210 | PRK06210 | enoyl-CoA hydratase; Provisional |
640-801 | 7.97e-18 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 180472 Cd Length: 272 Bit Score: 84.37 E-value: 7.97e-18
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| PRK07659 | PRK07659 | enoyl-CoA hydratase; Provisional |
619-845 | 3.29e-17 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 236073 [Multi-domain] Cd Length: 260 Bit Score: 82.39 E-value: 3.29e-17
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| PLN02600 | PLN02600 | enoyl-CoA hydratase |
640-846 | 3.49e-17 | |||||
enoyl-CoA hydratase Pssm-ID: 178210 [Multi-domain] Cd Length: 251 Bit Score: 82.16 E-value: 3.49e-17
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| CD_MMP8 | cd18633 | chromodomain of M-phase phosphoprotein 8; The chromodomain of M-phase phosphoprotein 8 (MPP8), ... |
335-386 | 6.39e-17 | |||||
chromodomain of M-phase phosphoprotein 8; The chromodomain of M-phase phosphoprotein 8 (MPP8), a component of the RanBPM-containing large protein complex, binds methylated H3K9. This may in turn recruit the H3K9 methyltransferases GLP and ESET, and DNA methyltransferase 3A to the promoter of the E-cadherin gene, mediating the E-cadherin gene silencing and promoting tumor cell motility and invasion. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349283 Cd Length: 51 Bit Score: 75.40 E-value: 6.39e-17
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| PLN02664 | PLN02664 | enoyl-CoA hydratase/delta3,5-delta2,4-dienoyl-CoA isomerase |
614-799 | 6.90e-17 | |||||
enoyl-CoA hydratase/delta3,5-delta2,4-dienoyl-CoA isomerase Pssm-ID: 178269 [Multi-domain] Cd Length: 275 Bit Score: 81.87 E-value: 6.90e-17
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| PRK08140 | PRK08140 | enoyl-CoA hydratase; Provisional |
640-798 | 7.72e-17 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 236163 Cd Length: 262 Bit Score: 81.50 E-value: 7.72e-17
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| PLN02888 | PLN02888 | enoyl-CoA hydratase |
619-847 | 1.17e-16 | |||||
enoyl-CoA hydratase Pssm-ID: 215480 Cd Length: 265 Bit Score: 80.95 E-value: 1.17e-16
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| PRK09674 | PRK09674 | enoyl-CoA hydratase-isomerase; Provisional |
618-873 | 1.53e-16 | |||||
enoyl-CoA hydratase-isomerase; Provisional Pssm-ID: 182026 [Multi-domain] Cd Length: 255 Bit Score: 80.20 E-value: 1.53e-16
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| PRK07657 | PRK07657 | enoyl-CoA hydratase; Provisional |
640-839 | 1.80e-16 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 181069 [Multi-domain] Cd Length: 260 Bit Score: 80.16 E-value: 1.80e-16
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| PRK07468 | PRK07468 | crotonase/enoyl-CoA hydratase family protein; |
640-869 | 2.42e-16 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 180987 [Multi-domain] Cd Length: 262 Bit Score: 79.72 E-value: 2.42e-16
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| PRK06494 | PRK06494 | enoyl-CoA hydratase; Provisional |
640-841 | 2.44e-16 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 180591 [Multi-domain] Cd Length: 259 Bit Score: 79.70 E-value: 2.44e-16
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| PRK07854 | PRK07854 | enoyl-CoA hydratase; Provisional |
640-855 | 2.78e-16 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 236115 [Multi-domain] Cd Length: 243 Bit Score: 79.30 E-value: 2.78e-16
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| chromodomain | cd18968 | CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain ... |
336-384 | 3.40e-15 | |||||
CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Chromodomains belong to the chromo-like superfamily of SH3-fold-beta-barrel domains which includes chromo shadow domains and chromo barrel domains. Chromodomains differ from these in that they lack the first strand of the SH3-fold-beta-barrel. This first strand is altered by insertion in the chromo shadow domains, and chromo barrel domains are typical SH3-fold-beta-barrel domains with sequence similarity to the canonical chromo domain. Pssm-ID: 349324 Cd Length: 57 Bit Score: 70.45 E-value: 3.40e-15
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| PRK07658 | PRK07658 | enoyl-CoA hydratase; Provisional |
640-858 | 9.60e-15 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 181070 [Multi-domain] Cd Length: 257 Bit Score: 75.06 E-value: 9.60e-15
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| PRK07799 | PRK07799 | crotonase/enoyl-CoA hydratase family protein; |
623-803 | 1.46e-14 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 181122 [Multi-domain] Cd Length: 263 Bit Score: 74.75 E-value: 1.46e-14
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| CD_CMT3_like | cd18635 | chromodomain of chromomethylase 3, and similar proteins; CHRomatin Organization Modifier ... |
336-384 | 2.14e-14 | |||||
chromodomain of chromomethylase 3, and similar proteins; CHRomatin Organization Modifier (chromo) domain of DNA (cytosine-5)-methyltransferase chromomethylase 3 (CMT3, EC:2.1.1.37), and similar proteins. CMT3 is primarily a CHG (where H is either A, T or C) methyltransferase and is predominantly expressed in actively replicating cells. The protein is involved in preferentially methylating transposon-related sequences, reducing their mobility. Studies suggest that in order to target DNA methylation, CMT3 associates with H3K9me2-containing nucleosomes through binding of its BAH- and chromo-domains to H3K9me2. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349285 Cd Length: 57 Bit Score: 68.11 E-value: 2.14e-14
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| CD_HP1_like | cd18631 | chromodomain of heterochromatin protein 1 proteins, including HP1alpha, HP1beta, and HP1gamma; ... |
336-384 | 2.45e-14 | |||||
chromodomain of heterochromatin protein 1 proteins, including HP1alpha, HP1beta, and HP1gamma; CHRomatin Organization Modifier (chromo) domain of mammalian HP1alpha (Cbx5), HP1beta (Cbx1), HP1gamma (Cbx5), and similar proteins. HP1 has diverse functions in heterochromatin formation and impacts both gene expression and gene silencing. HP1 has two conserved protein-protein interaction domains, a single N-terminal chromodomain (CD) which can bind to histone proteins via methylated lysine residues, and a related C-terminal chromo shadow domain (CSD) which is responsible for the homodimerization and interaction with a number of chromatin-associated non-histone proteins; a flexible hinge region separates the CD and CSD and may bind nucleic acid. HP1 is a highly conserved non-histone chromosomal protein that is evolutionarily conserved from fission yeast to plants and animals. There are three human homologs of HP1 proteins: HP1alpha (also known as Cbx5), HP1beta (also known as Cbx1), and HP1gamma (also known as Cbx3). Pssm-ID: 349281 Cd Length: 50 Bit Score: 67.85 E-value: 2.45e-14
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| PRK03580 | PRK03580 | crotonobetainyl-CoA hydratase; |
714-841 | 4.43e-14 | |||||
crotonobetainyl-CoA hydratase; Pssm-ID: 179599 [Multi-domain] Cd Length: 261 Bit Score: 73.19 E-value: 4.43e-14
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| CD_DDE_transposase_like | cd18978 | chromodomain of Rhizopus microsporus putative DDE transposases, and similar proteins; This ... |
333-386 | 1.02e-13 | |||||
chromodomain of Rhizopus microsporus putative DDE transposases, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in Rhizopus microsporus putative DDE transposases, and similar proteins. The chromodomain, is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349334 Cd Length: 52 Bit Score: 66.19 E-value: 1.02e-13
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| CD_EhHp1_like | cd18638 | chromodomain of Entamoeba histolytica heterochromatin protein 1, and similar proteins; This ... |
336-386 | 1.17e-13 | |||||
chromodomain of Entamoeba histolytica heterochromatin protein 1, and similar proteins; This subgroup includes the N-terminal CHRomatin Organization Modifier (chromo) domain of heterochromatin protein 1 (HP1)-like protein from Entamoeba histolytica, and similar proteins. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349288 Cd Length: 52 Bit Score: 66.13 E-value: 1.17e-13
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| PRK06190 | PRK06190 | enoyl-CoA hydratase; Provisional |
640-798 | 1.52e-13 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 235733 Cd Length: 258 Bit Score: 71.54 E-value: 1.52e-13
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| PRK05862 | PRK05862 | enoyl-CoA hydratase; Provisional |
640-809 | 3.05e-13 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 180295 [Multi-domain] Cd Length: 257 Bit Score: 70.46 E-value: 3.05e-13
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| PRK07260 | PRK07260 | enoyl-CoA hydratase; Provisional |
640-798 | 4.62e-13 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 180910 [Multi-domain] Cd Length: 255 Bit Score: 70.15 E-value: 4.62e-13
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| PRK05995 | PRK05995 | enoyl-CoA hydratase; Provisional |
640-841 | 4.75e-13 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 235664 [Multi-domain] Cd Length: 262 Bit Score: 69.95 E-value: 4.75e-13
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| CD_Chp1_like | cd18636 | chromodomain of chromodomain-containing protein 1, and similar proteins; CHRomatin ... |
335-386 | 6.70e-13 | |||||
chromodomain of chromodomain-containing protein 1, and similar proteins; CHRomatin Organization Modifier (chromo) domain of chromodomain-containing protein 1 (CHp1), and similar proteins. Chp1 is needed for RNA interference-dependent heterochromatin formation in fission yeast. Chp1 is a member of the RNA-induced transcriptional silencing (RITS) complex which maintains the heterochromatin regions. The chromodomain of the Chp1 component binds the histone H3 lysine 9 methylated tail (H3K9me) and the core of the nucleosome. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349286 Cd Length: 52 Bit Score: 64.01 E-value: 6.70e-13
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| PRK06495 | PRK06495 | enoyl-CoA hydratase/isomerase family protein; |
640-833 | 1.16e-12 | |||||
enoyl-CoA hydratase/isomerase family protein; Pssm-ID: 168580 [Multi-domain] Cd Length: 257 Bit Score: 68.95 E-value: 1.16e-12
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| CD_Clr4_like | cd18632 | N-terminal chromodomain of the fission yeast histone methyltransferase Clr4, and similar ... |
336-387 | 1.29e-12 | |||||
N-terminal chromodomain of the fission yeast histone methyltransferase Clr4, and similar proteins; N-terminal CHRomatin Organization Modifier (chromo) domain of cryptic loci regulator 4 (Clr4), a histone H3 lysine methyltransferase which targets H3K9. Clr4 regulates silencing and switching at the mating-type loci and affects chromatin structure at centromeres. Clr4 is a catalytic component of the rik1-associated E3 ubiquitin ligase complex that shows ubiquitin ligase activity and is required for histone H3K9 methylation. H3K9me represents a specific tag for epigenetic transcriptional repression by recruiting swi6/HP1 to methylated histones which leads to transcriptional silencing within centromeric heterochromatin, telomeric regions and at the silent mating-type loci. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349282 Cd Length: 55 Bit Score: 63.29 E-value: 1.29e-12
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| CD_HP1beta_Cbx1 | cd18650 | chromodomain of heterochromatin protein 1 homolog beta; CHRomatin Organization Modifier ... |
336-384 | 1.76e-12 | |||||
chromodomain of heterochromatin protein 1 homolog beta; CHRomatin Organization Modifier (chromo) domain of heterochromatin protein 1 homolog beta (also known as HP1beta, CBX1, and chromobox 1), and related proteins. HP1beta is a highly conserved non-histone protein, which is a member of the heterochromatin protein family, and is enriched in the heterochromatin and associated with centromeres. HP1 has two conserved protein-protein interaction domains, a single N-terminal chromodomain (CD) which can bind to histone proteins via methylated lysine residues, and a related C-terminal chromo shadow domain (CSD) which is responsible for the homodimerization and interaction with a number of chromatin-associated non-histone proteins; a flexible hinge region separates the CD and CSD and may bind nucleic acid. HP1 is a highly conserved non-histone chromosomal protein that is evolutionarily conserved from fission yeast to plants and animals. There are three human homologs of HP1 proteins: HP1alpha (also known as Cbx5), HP1beta, and HP1gamma (also known as Cbx3). Pssm-ID: 349297 Cd Length: 50 Bit Score: 62.65 E-value: 1.76e-12
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| CD_Tf2-1_POL_like | cd18973 | chromodomain of Rhizoctonia solani AG-1 IB retrotransposable element Tf2 155 kDa protein type ... |
336-384 | 2.19e-12 | |||||
chromodomain of Rhizoctonia solani AG-1 IB retrotransposable element Tf2 155 kDa protein type 1, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in Rhizoctonia solani AG-1 IB retrotransposable element Tf2 155 kDa protein type 1 (Tf2-1), and similar proteins. It belongs to the Ty3/gypsy family of long terminal repeat (LTR) retrotransposons. The pol gene in TY3/gypsy elements generally encodes domains in the following order: an aspartyl protease, a reverse transcriptase, RNase H, and an integrase, here the chromodomain is found at the C-terminus of the integrase domain. The chromodomain, is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349329 Cd Length: 50 Bit Score: 62.26 E-value: 2.19e-12
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| PRK05864 | PRK05864 | enoyl-CoA hydratase; Provisional |
640-796 | 2.30e-12 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 168278 [Multi-domain] Cd Length: 276 Bit Score: 68.32 E-value: 2.30e-12
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| PRK05980 | PRK05980 | crotonase/enoyl-CoA hydratase family protein; |
618-798 | 2.53e-12 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 180335 [Multi-domain] Cd Length: 260 Bit Score: 67.86 E-value: 2.53e-12
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| PRK05870 | PRK05870 | enoyl-CoA hydratase; Provisional |
640-798 | 2.54e-12 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 180298 Cd Length: 249 Bit Score: 67.83 E-value: 2.54e-12
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| PRK08139 | PRK08139 | enoyl-CoA hydratase; Validated |
640-808 | 2.68e-12 | |||||
enoyl-CoA hydratase; Validated Pssm-ID: 181249 Cd Length: 266 Bit Score: 68.04 E-value: 2.68e-12
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| CD_polycomb | cd18644 | chromodomain of polycomb; CHRomatin Organization Modifier (chromo) domain of the PcG ... |
333-387 | 3.25e-12 | |||||
chromodomain of polycomb; CHRomatin Organization Modifier (chromo) domain of the PcG (polycomb-group) chromodomain protein Polycomb (Pc) from Drosophila melanogaster, anthropod, worm, and sea cucumber, and similar proteins. Pc is a component of the Polycomb-group (PcG) multiprotein PRC1 complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. The core subunits of PRC1 are polycomb (Pc), polyhomeotic (Ph), posterior sex combs (Psc), and sex comb extra (Sce, also known as dRing). Polycomb (Pc) plays a role in modulating life span in flies, it negatively regulates longevity. Pssm-ID: 349291 Cd Length: 54 Bit Score: 62.10 E-value: 3.25e-12
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| CD_POL_like | cd18974 | chromodomain of Penicillium solitum protein PENSOL_c198G03123; This subgroup includes the ... |
336-386 | 3.33e-12 | |||||
chromodomain of Penicillium solitum protein PENSOL_c198G03123; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in Penicillium solitum protein PENSOL_c198G03123 a putative polyprotein from a Ty3/Gypsy long terminal repeat (LTR) retroelement. The pol gene in TY3/gypsy elements generally encodes domains in the following order: an aspartyl protease, a reverse transcriptase, RNase H, and an integrase, here the chromodomain is found at the C-terminus of the integrase domain. The chromodomain, is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349330 Cd Length: 50 Bit Score: 61.73 E-value: 3.33e-12
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| CD_HP1a_insect | cd18653 | chromodomain of insect HP1a; CHRomatin Organization Modifier (chromo) domain of insect HP1a. ... |
336-384 | 3.70e-12 | |||||
chromodomain of insect HP1a; CHRomatin Organization Modifier (chromo) domain of insect HP1a. HP1a is a member of the heterochromatin protein family, and is enriched in the heterochromatin and associated with centromeres. HP1 has diverse functions in heterochromatin formation and impacts both gene expression and gene silencing. HP1 has two conserved protein-protein interaction domains, a single N-terminal chromodomain (CD) which can bind to histone proteins via methylated lysine residues, and a related C-terminal chromo shadow domain (CSD) which is responsible for the homodimerization and interaction with a number of chromatin-associated non-histone proteins; a flexible hinge region separates the CD and CSD and may bind nucleic acid. HP1 is a highly conserved non-histone chromosomal protein that is evolutionarily conserved from fission yeast to plants and animals. In Drosophila, there are at least five HP1 family proteins, this subgroup includes the CD of Drosophila melanogaster HP1a. Pssm-ID: 349300 Cd Length: 50 Bit Score: 61.59 E-value: 3.70e-12
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| CD_NC-like | cd18980 | chromodomain of a Tasahii var. asahii CBS 8904 retrotransposon nucleocapsid protein, and ... |
336-384 | 5.48e-12 | |||||
chromodomain of a Tasahii var. asahii CBS 8904 retrotransposon nucleocapsid protein, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in Trichosporon asahii var. asahii CBS 8904 retrotransposon nucleocapsid protein, and similar proteins. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349336 Cd Length: 56 Bit Score: 61.43 E-value: 5.48e-12
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| CD_HP1_like | cd18960 | chromodomain of heterochromatin protein 1 proteins, including HP1alpha, HP1beta, and HP1gamma; ... |
335-386 | 1.19e-11 | |||||
chromodomain of heterochromatin protein 1 proteins, including HP1alpha, HP1beta, and HP1gamma; uncharacterized subgroup; CHRomatin Organization Modifier (chromo) domain of mammalian HP1alpha (Cbx5), HP1beta (Cbx1), HP1gamma (Cbx5), and similar proteins. HP1 has diverse functions in heterochromatin formation and impacts both gene expression and gene silencing. HP1 has two conserved protein-protein interaction domains, a single N-terminal chromodomain (CD) which can bind to histone proteins via methylated lysine residues, and a related C-terminal chromo shadow domain (CSD) which is responsible for the homodimerization and interaction with a number of chromatin-associated non-histone proteins; a flexible hinge region separates the CD and CSD and may bind nucleic acid. HP1 is a highly conserved non-histone chromosomal protein that is evolutionarily conserved from fission yeast to plants and animals. There are three human homologs of HP1 proteins: HP1alpha (also known as Cbx5), HP1beta (also known as Cbx1), and HP1gamma (also known as Cbx3). Pssm-ID: 349316 Cd Length: 51 Bit Score: 60.26 E-value: 1.19e-11
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| CD_HP1alpha_Cbx5 | cd18651 | chromodomain of heterochromatin protein 1 homolog alpha; CHRomatin Organization Modifier ... |
336-384 | 1.95e-11 | |||||
chromodomain of heterochromatin protein 1 homolog alpha; CHRomatin Organization Modifier (chromo) domain of heterochromatin protein 1 homolog alpha (also known as HP1alpha, Cbx5, and Chromobox 5), and related proteins. HP1alpha has diverse functions in heterochromatin formation, gene regulation, and mitotic progression, and forms complex networks of gene, RNA, and protein interactions. HP1 has two conserved protein-protein interaction domains, a single N-terminal chromodomain (CD) which can bind to histone proteins via methylated lysine residues, and a related C-terminal chromo shadow domain (CSD) which is responsible for the homodimerization and interaction with a number of chromatin-associated non-histone proteins; a flexible hinge region separates the CD and CSD and may bind nucleic acid. HP1 is a highly conserved non-histone chromosomal protein that is evolutionarily conserved from fission yeast to plants and animals. There are three human homologs of HP1 proteins: HP1alpha, HP1beta (also known as Cbx1), and HP1gamma (also known as Cbx3). Pssm-ID: 349298 Cd Length: 50 Bit Score: 59.62 E-value: 1.95e-11
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| PRK07827 | PRK07827 | enoyl-CoA hydratase family protein; |
625-869 | 2.51e-11 | |||||
enoyl-CoA hydratase family protein; Pssm-ID: 236109 [Multi-domain] Cd Length: 260 Bit Score: 65.09 E-value: 2.51e-11
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| PRK06072 | PRK06072 | enoyl-CoA hydratase; Provisional |
619-795 | 3.82e-11 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 168377 [Multi-domain] Cd Length: 248 Bit Score: 64.41 E-value: 3.82e-11
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| PRK08258 | PRK08258 | enoyl-CoA hydratase family protein; |
659-798 | 5.36e-11 | |||||
enoyl-CoA hydratase family protein; Pssm-ID: 181329 Cd Length: 277 Bit Score: 64.22 E-value: 5.36e-11
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| CD_Chro-like | cd18640 | chromodomain of Drosophila melanogaster chromator chromodomain protein, and similar proteins; ... |
336-384 | 7.54e-11 | |||||
chromodomain of Drosophila melanogaster chromator chromodomain protein, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in chromodomain of Drosophila melanogaster chromator (also known as Chriz/Chro) chromodomain protein, and similar proteins. Chromator is a nuclear protein that plays a role in proper spindle dynamics during mitosis. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349290 Cd Length: 52 Bit Score: 58.07 E-value: 7.54e-11
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| chromodomain | cd18966 | CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain ... |
336-374 | 8.68e-11 | |||||
CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Chromodomains belong to the chromo-like superfamily of SH3-fold-beta-barrel domains which includes chromo shadow domains and chromo barrel domains. Chromodomains differ from these in that they lack the first strand of the SH3-fold-beta-barrel. This first strand is altered by insertion in the chromo shadow domains, and chromo barrel domains are typical SH3-fold-beta-barrel domains with sequence similarity to the canonical chromo domain. Pssm-ID: 349322 Cd Length: 49 Bit Score: 57.68 E-value: 8.68e-11
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| PRK08138 | PRK08138 | enoyl-CoA hydratase; Provisional |
640-798 | 8.89e-11 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 236162 [Multi-domain] Cd Length: 261 Bit Score: 63.53 E-value: 8.89e-11
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| CD_POL_like | cd18970 | chromodomain of Hypsizygus marmoreus TY3B-I_0 protein, and similar proteins; This subgroup ... |
336-378 | 9.66e-11 | |||||
chromodomain of Hypsizygus marmoreus TY3B-I_0 protein, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in Hypsizygus marmoreus TY3B-I_0 protein, a putative TY3/gypsy retrotransposon polyprotein, and similar proteins. The pol gene in TY3/gypsy elements generally encodes domains in the following order: an aspartyl protease, a reverse transcriptase, RNase H, and an integrase, here the chromodomain is found at the C-terminus of the integrase domain. The chromodomain, is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349326 Cd Length: 49 Bit Score: 57.45 E-value: 9.66e-11
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| PRK07327 | PRK07327 | enoyl-CoA hydratase/isomerase family protein; |
615-796 | 1.13e-10 | |||||
enoyl-CoA hydratase/isomerase family protein; Pssm-ID: 235991 Cd Length: 268 Bit Score: 63.12 E-value: 1.13e-10
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| PRK08150 | PRK08150 | crotonase/enoyl-CoA hydratase family protein; |
640-803 | 1.47e-10 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 181254 Cd Length: 255 Bit Score: 62.73 E-value: 1.47e-10
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| chromodomain | cd18964 | CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain ... |
336-384 | 1.61e-10 | |||||
CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Chromodomains belong to the chromo-like superfamily of SH3-fold-beta-barrel domains which includes chromo shadow domains and chromo barrel domains. Chromodomains differ from these in that they lack the first strand of the SH3-fold-beta-barrel. This first strand is altered by insertion in the chromo shadow domains, and chromo barrel domains are typical SH3-fold-beta-barrel domains with sequence similarity to the canonical chromo domain. Pssm-ID: 349320 Cd Length: 54 Bit Score: 56.96 E-value: 1.61e-10
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| PLN02921 | PLN02921 | naphthoate synthase |
611-816 | 2.00e-10 | |||||
naphthoate synthase Pssm-ID: 178509 [Multi-domain] Cd Length: 327 Bit Score: 63.27 E-value: 2.00e-10
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| PRK08290 | PRK08290 | enoyl-CoA hydratase; Provisional |
639-799 | 2.21e-10 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 236220 [Multi-domain] Cd Length: 288 Bit Score: 62.67 E-value: 2.21e-10
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| chromodomain | cd18969 | CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; for most members ... |
333-384 | 4.02e-10 | |||||
CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; for most members of this subgroup, the chromodomain is followed by a chromo shadow domain; The chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Chromodomains belong to the chromo-like superfamily of SH3-fold-beta-barrel domains which includes chromo shadow domains and chromo barrel domains. Chromodomains differ from these in that they lack the first strand of the SH3-fold-beta-barrel. This first strand is altered by insertion in the chromo shadow domains, and chromo barrel domains are typical SH3-fold-beta-barrel domains with sequence similarity to the canonical chromo domain. For the majority of members of this subgroup, the chromodomain is followed by a chromo shadow domain (CSD). Pssm-ID: 349325 Cd Length: 56 Bit Score: 55.99 E-value: 4.02e-10
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| PRK06127 | PRK06127 | enoyl-CoA hydratase; Provisional |
619-835 | 5.34e-10 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 235705 Cd Length: 269 Bit Score: 61.26 E-value: 5.34e-10
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| PRK06142 | PRK06142 | crotonase/enoyl-CoA hydratase family protein; |
616-799 | 5.82e-10 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 235714 Cd Length: 272 Bit Score: 61.14 E-value: 5.82e-10
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| CD_polycomb_like | cd18627 | chromodomain of polycomb and chromobox family proteins; CHRomatin Organization Modifier ... |
336-376 | 6.10e-10 | |||||
chromodomain of polycomb and chromobox family proteins; CHRomatin Organization Modifier (chromo) domain of Polycomb and Polycomb-group (PcG) chromobox (CBX) family proteins such as CBX2, CBX4, CBX6, CBX7, and CBX8. These CBX proteins are components of the PcG repressive complex PRC1, one of the two classes of PRCs. PcG proteins form large multiprotein complexes (PcG bodies) which are involved in the stable repression of genes involved in development, signaling or cancer via chromatin-based epigenetic modifications. Mammalian PRC1 includes canonical (cPRC1) and non-canonical complexes; cPRC1, contains four core subunits including one CBX protein (CBX2, CBX4, and CBX6-CBX8) that binds H3K27me3. CBX family members have different affinity for H3K27me3, with CBX7 having the highest binding capability. The human CBX proteins show distinct nuclear localizations and contribute differently to transcriptional repression. Some CBX proteins of the PRC1 complex have been implicated in transcriptional activation as well as in PRC1-independent roles in embryonic stem cells and in somatic cells. Pssm-ID: 349277 Cd Length: 49 Bit Score: 55.48 E-value: 6.10e-10
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| CD_POL_like | cd18977 | chromodomain of a Rhizoctonia solani AG-3 Rhs1AP polyprotein, and similar proteins; This ... |
336-384 | 7.48e-10 | |||||
chromodomain of a Rhizoctonia solani AG-3 Rhs1AP polyprotein, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in a Rhizoctonia solani AG-3 Rhs1AP, a putative Ty3/Gypsy polyprotein/retrotransposon which includes a protease, a reverse transcriptase, a ribonuclease H, and an integrase domain, in that order, with a chromodomain at the C-terminus of the integrase domain. The chromodomain, is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349333 Cd Length: 57 Bit Score: 55.18 E-value: 7.48e-10
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| PRK08252 | PRK08252 | crotonase/enoyl-CoA hydratase family protein; |
640-869 | 1.09e-09 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 181325 [Multi-domain] Cd Length: 254 Bit Score: 60.00 E-value: 1.09e-09
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| CD_SUV39H1_like | cd18639 | chromodomain of histone methyltransferase SUV39H1, and similar proteins; CHRomatin ... |
336-384 | 2.03e-09 | |||||
chromodomain of histone methyltransferase SUV39H1, and similar proteins; CHRomatin Organization Modifier (chromo) domain of human SUV39H1, a histone lysine methyltransferase (HMT) which catalyzes di- and tri-methylation of lysine 9 of histone H3 (H3K9me2/3), leading to heterochromatin formation and gene silencing. H3K9me2/3 represents a specific mark for epigenetic transcriptional repression by recruiting HP1 (CBX1, CBX3, and/or CBX5) proteins to methylated histones. SUV39H1 mainly functions in heterochromatin regions. The human SUV39H1/2, histone H3K9 methyltransferases, are the mammalian homologs of Drosophila Su(var)3-9 and Schizosaccharomyces pombe Clr4. SUV39H1 contains a chromodomain at its N-terminus and a SET domain at its C-terminus. Although the SET domain performs the catalytic activity, the chromodomain of SUV39H1 is essential for the catalytic activity of SUV39H1. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349289 Cd Length: 49 Bit Score: 53.67 E-value: 2.03e-09
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| CD_HP1gamma_Cbx3 | cd18652 | chromodomain of heterochromatin protein 1 homolog gamma; CHRomatin Organization Modifier ... |
336-384 | 2.04e-09 | |||||
chromodomain of heterochromatin protein 1 homolog gamma; CHRomatin Organization Modifier (chromo) domain of heterochromatin protein 1 homolog gamma (also known as HP1gamma, Cbx3, and Chromobox 3), and related proteins. HP1gamma is a highly conserved non-histone protein, which is a member of the heterochromatin protein family, and is enriched in the heterochromatin and associated with centromeres. HP1 has two conserved protein-protein interaction domains, a single N-terminal chromodomain (CD) which can bind to histone proteins via methylated lysine residues, and a related C-terminal chromo shadow domain (CSD) which is responsible for the homodimerization and interaction with a number of chromatin-associated non-histone proteins; a flexible hinge region separates the CD and CSD and may bind nucleic acid. In addition to being involved in transcriptional silencing in heterochromatin-like complexes, HP1gamma also binds lamin B receptor, an integral membrane protein found in the inner nuclear membrane. The dual binding functions of the protein may explain the association of heterochromatin with the inner nuclear membrane. HP1gamma is also recruited to sites of ultraviolet-induced DNA damage and double-strand breaks. HP1 is a highly conserved non-histone chromosomal protein that is evolutionarily conserved from fission yeast to plants and animals. There are three human homologs of HP1 proteins: HP1alpha (also known as Cbx5), HP1beta (also known as Cbx1), and HP1gamma. Pssm-ID: 349299 Cd Length: 50 Bit Score: 53.86 E-value: 2.04e-09
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| CD_POL_like | cd18972 | chromodomain of a Moniliophthora perniciosa FA553 putative retrotransposon polyprotein, and ... |
336-384 | 2.35e-09 | |||||
chromodomain of a Moniliophthora perniciosa FA553 putative retrotransposon polyprotein, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in a Moniliophthora perniciosa FA553 putative retrotelement polyprotein, which includes domains in the following order: a reverse transcriptase, RNase H, and an integrase, here the chromodomain is found at the C-terminus of the integrase domain. The chromodomain, is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related "chromo shadow" domain Pssm-ID: 349328 Cd Length: 50 Bit Score: 53.67 E-value: 2.35e-09
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| CD2_tandem | cd18659 | repeat 2 of paired tandem chromodomains; Repeat 2 of tandem CHRomatin Organization Modifier ... |
337-372 | 2.57e-09 | |||||
repeat 2 of paired tandem chromodomains; Repeat 2 of tandem CHRomatin Organization Modifier (chromo) domains, found in CHD (chromodomain helicase DNA-binding) proteins such as mammalian helicase DNA-binding proteins CHD1 to CHD9, and yeast protein CHD1. The CHD proteins belong to the SNF2 superfamily of ATP-dependent chromatin remodelers and contain two signature motifs: a pair of chromodomains located in the N-terminal region, and the SNF2-like ATPase domain located in the central region of the protein. CHD chromatin remodelers are important regulators of transcription and play critical roles during developmental processes. The N-terminal chromodomains of CHD1 have been shown to guard against sliding hexasomes. Mutations in the chromodomains of mouse CHD1 result in nuclear redistribution, suggesting that the chromodomain is essential for proper association with chromatin; also, deletion of the chromodomains in the Drosophila melanogaster CHD3-4 homolog impaired nucleosome binding, mobilization, and ATPase functions. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349306 [Multi-domain] Cd Length: 54 Bit Score: 53.73 E-value: 2.57e-09
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| CD_Swi6_like | cd18637 | chromodomain of fission yeast Swi6, and similar proteins; Fission yeast Swi6 protein is a ... |
336-384 | 5.37e-09 | |||||
chromodomain of fission yeast Swi6, and similar proteins; Fission yeast Swi6 protein is a structural and functional homolog of mammalian HP1 (heterochromatin protein 1) and is involved in the chromatin structure by binding to centromeres, telomeres, and the silent mating-type locus. Swi6 contains a N-terminal chromo (CHRromatin Organization MOdifier) domain and a C-terminal chromo shadow domain (CSD). Swi6 binds histone H3 tails methylated at Lys- and the cohesion subunit Psc3, leading to silencing the genes and sister chromatid cohesion. It is also involved in the repression of the silent mating-type loci MAT2 and MAT3. Swi6 may compact MAT2/3 into a heterochromatin-like conformation which represses the transcription of these silent cassettes. chromodomains mediate the interaction of the heterochromatin with other heterochromatin proteins, thereby affecting chromatin structure (e.g. Drosophila and human heterochromatin protein (HP1) and mammalian modifier 1 and modifier 2). CSDs have only been found in proteins that also possess a chromodomain. Pssm-ID: 349287 Cd Length: 54 Bit Score: 52.90 E-value: 5.37e-09
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| CD_Cbx2 | cd18647 | chromodomain of chromobox homolog 2; CHRomatin Organization Modifier (chromo) domain of ... |
333-387 | 5.89e-09 | |||||
chromodomain of chromobox homolog 2; CHRomatin Organization Modifier (chromo) domain of chromobox homolog 2 (CBX2), a component of the PcG repressive complex PRC1, one of the two classes of PRCs. PcG proteins form large multiprotein complexes (PcG bodies) which are involved in the stable repression of genes involved in development, signaling or cancer via chromatin-based epigenetic modifications. Mammalian PRC1 includes canonical (cPRC1) and non-canonical complexes; cPRC1, contains four core subunits including one CBX protein (CBX2, CBX4, and CBX6-CBX8) that binds H3K27me3. CBX family members have different affinity for H3K27me3, with CBX7 having the highest binding capability. The human CBX proteins show distinct nuclear localizations and contribute differently to transcriptional repression. Some CBX proteins of the PRC1 complex have been implicated in transcriptional activation as well as in PRC1-independent roles in embryonic stem cells and in somatic cells. Pssm-ID: 349294 Cd Length: 53 Bit Score: 52.75 E-value: 5.89e-09
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| CD_MarY1_POL_like | cd18975 | chromodomain of Tricholoma matsutake polyprotein, and similar proteins; This subgroup includes ... |
336-386 | 6.78e-09 | |||||
chromodomain of Tricholoma matsutake polyprotein, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in the polyprotein from the MarY1 Ty3/Gypsy long terminal repeat (LTR) retroelement from the from the Ectomycorrhizal Basidiomycete Tricholoma matsutake. The pol gene in TY3/gypsy elements generally encodes domains in the following order: prt-reverse transcriptase-RNase H-integrase, in marY1 POL the chromodomain is found at the C-terminus of the integrase domain. The chromodomain, is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349331 Cd Length: 49 Bit Score: 52.55 E-value: 6.78e-09
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| fa_ox_alpha_mit | TIGR02441 | fatty acid oxidation complex, alpha subunit, mitochondrial; Members represent alpha subunit of ... |
619-801 | 7.13e-09 | |||||
fatty acid oxidation complex, alpha subunit, mitochondrial; Members represent alpha subunit of mitochondrial multifunctional fatty acid degradation enzyme complex. Subunit activities include: enoyl-CoA hydratase (EC 4.2.1.17) _ 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35). Some characterization in human (SP:P40939), pig (SP:Q29554), and rat (SP:Q64428). The beta subunit has activity: acetyl-CoA C-acyltransferase (EC 2.3.1.16). Pssm-ID: 131494 [Multi-domain] Cd Length: 737 Bit Score: 59.47 E-value: 7.13e-09
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| PRK06563 | PRK06563 | crotonase/enoyl-CoA hydratase family protein; |
620-803 | 7.76e-09 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 180625 [Multi-domain] Cd Length: 255 Bit Score: 57.28 E-value: 7.76e-09
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| CD_Rhino | cd18630 | chromodomain of Drosophila melanogaster Rhino, and similar proteins; N-terminal CHRomatin ... |
336-384 | 1.36e-08 | |||||
chromodomain of Drosophila melanogaster Rhino, and similar proteins; N-terminal CHRomatin Organization Modifier (chromo) domain of Drosophila melanogaster Rhino (also known as heterochromatin protein 1-like), and similar proteins. Rhino is a female-specific protein that affects chromosome structure and egg polarity that is required for germline PIWI-interacting RNA (piRNA) production. In Drosophila the RDC (rhino, deadlock, and cutoff) complex, composed of rhino, the protein deadlock (Del) and the Rai1-like transcription termination cofactor cutoff (Cuff) binds to chromatin of dual-strand piRNA clusters, special genomic regions, which encode piRNA precursors. The RDC complex is anchored to H3K9me3-marked chromatin in part via the H3K9me3-binding activity of Rhino, and is required for transcription of piRNA precursors. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349280 Cd Length: 51 Bit Score: 51.75 E-value: 1.36e-08
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| CD_Cbx7 | cd18646 | chromodomain of chromobox homolog 7; CHRomatin Organization Modifier (chromo) domain of ... |
333-376 | 1.46e-08 | |||||
chromodomain of chromobox homolog 7; CHRomatin Organization Modifier (chromo) domain of chromobox homolog 7 (CBX7), a component of the PcG repressive complex PRC1, one of the two classes of PRCs. PcG proteins form large multiprotein complexes (PcG bodies) which are involved in the stable repression of genes involved in development, signaling or cancer via chromatin-based epigenetic modifications. Mammalian PRC1 includes canonical (cPRC1) and non-canonical complexes; cPRC1, contains four core subunits including one CBX protein (CBX2, CBX4, and CBX6-CBX8) that binds H3K27me3. CBX family members have different affinity for H3K27me3, with CBX7 having the highest binding capability. The human CBX proteins show distinct nuclear localizations and contribute differently to transcriptional repression. Some CBX proteins of the PRC1 complex have been implicated in transcriptional activation as well as in PRC1-independent roles in embryonic stem cells and in somatic cells. CBX proteins may act as an oncogene or tumor suppressor in a cell-type-dependent manner, for example CBX8 promotes proliferation while suppressing metastasis, in colorectal carcinoma progression. CBX7 has been shown to function as a tumor suppressor in lung carcinoma and an oncogene in gastric cancer and lymphoma. Pssm-ID: 349293 Cd Length: 56 Bit Score: 51.63 E-value: 1.46e-08
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| PRK06144 | PRK06144 | enoyl-CoA hydratase; Provisional |
618-863 | 1.61e-08 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 180424 [Multi-domain] Cd Length: 262 Bit Score: 56.54 E-value: 1.61e-08
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| PRK05869 | PRK05869 | enoyl-CoA hydratase; Validated |
623-801 | 1.79e-08 | |||||
enoyl-CoA hydratase; Validated Pssm-ID: 235632 [Multi-domain] Cd Length: 222 Bit Score: 56.00 E-value: 1.79e-08
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| CD2_tandem_CHD3-4_like | cd18662 | repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and ... |
338-386 | 3.42e-08 | |||||
repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and 4, and similar proteins; Repeat 2 of tandem CHRomatin Organization Modifier (chromo) domains, found in CHD (chromodomain helicase DNA-binding) proteins such as mammalian helicase DNA-binding proteins CHD3 and CHD4, and yeast protein CHD1. The CHD proteins belong to the SNF2 superfamily of ATP-dependent chromatin remodelers and contain two signature motifs: a pair of chromodomains located in the N-terminal region, and the SNF2-like ATPase domain located in the central region of the protein. CHD chromatin remodelers are important regulators of transcription and play critical roles during developmental processes. The N-terminal chromodomains of CHD1 have been shown to guard against sliding hexasomes. Mutations in the chromodomains of mouse CHD1 result in nuclear redistribution, suggesting that the chromodomain is essential for proper association with chromatin; also, deletion of the chromodomains in the Drosophila melanogaster CHD3-4 homolog impaired nucleosome binding, mobilization, and ATPase functions. Human CHD3 (also named Mi-2 alpha) and CHD4 (also named Mi-2 beta) are coexpressed in many cell lines and tissues and may act as the motor subunit of the NuRD complex (nucleosome remodeling and deacetylase activities). The proteins form distinct CHD3- and CHD4-NuRD complexes that repress, as well as activate gene transcription of overlapping and specific target genes. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349309 [Multi-domain] Cd Length: 55 Bit Score: 50.73 E-value: 3.42e-08
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| PLN02851 | PLN02851 | 3-hydroxyisobutyryl-CoA hydrolase-like protein |
661-828 | 9.23e-08 | |||||
3-hydroxyisobutyryl-CoA hydrolase-like protein Pssm-ID: 178443 [Multi-domain] Cd Length: 407 Bit Score: 55.37 E-value: 9.23e-08
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| PRK07110 | PRK07110 | polyketide biosynthesis enoyl-CoA hydratase; Validated |
640-809 | 9.68e-08 | |||||
polyketide biosynthesis enoyl-CoA hydratase; Validated Pssm-ID: 235936 Cd Length: 249 Bit Score: 54.20 E-value: 9.68e-08
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| PRK05674 | PRK05674 | gamma-carboxygeranoyl-CoA hydratase; Validated |
626-869 | 1.41e-07 | |||||
gamma-carboxygeranoyl-CoA hydratase; Validated Pssm-ID: 168168 Cd Length: 265 Bit Score: 53.66 E-value: 1.41e-07
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| CD_Cbx4 | cd18645 | chromodomain of chromobox homolog 4; CHRomatin Organization Modifier (chromo) domain of ... |
333-376 | 2.26e-07 | |||||
chromodomain of chromobox homolog 4; CHRomatin Organization Modifier (chromo) domain of chromobox homolog 4 (CBX4), a component of the PcG repressive complex PRC1, one of the two classes of PRCs. PcG proteins form large multiprotein complexes (PcG bodies) which are involved in the stable repression of genes involved in development, signaling or cancer via chromatin-based epigenetic modifications. Mammalian PRC1 includes canonical (cPRC1) and non-canonical complexes; cPRC1, contains four core subunits including one CBX protein (CBX2, CBX4, and CBX6-CBX8) that binds H3K27me3. CBX family members have different affinity for H3K27me3, with CBX7 having the highest binding capability. The human CBX proteins show distinct nuclear localizations and contribute differently to transcriptional repression. Some CBX proteins of the PRC1 complex have been implicated in transcriptional activation as well as in PRC1-independent roles in embryonic stem cells and in somatic cells. In addition to a chromodomain with H3K27me3-binding activity, Cbx4 contains two SUMO-interacting motifs responsible for its small ubiquitin-related modifier (SUMO) E3 ligase activity. CBX proteins may act as an oncogene or tumor suppressor in a cell-type-dependent manner, for example CBX8 promotes proliferation while suppressing metastasis, in colorectal carcinoma progression. CBX4 may serve as a tumor suppressor in colorectal carcinoma, and has been shown to be an oncogene in osteosarcoma and breast cancer. Pssm-ID: 349292 Cd Length: 55 Bit Score: 48.13 E-value: 2.26e-07
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| CD_POL_like | cd18971 | chromodomain of a Magnaporthe grisea putative retrotransposon polyprotein, and similar ... |
336-378 | 2.48e-07 | |||||
chromodomain of a Magnaporthe grisea putative retrotransposon polyprotein, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in a Magnaporthe grisea putative retrotransposon polyprotein which includes domains in the following order: an aspartyl protease, a reverse transcriptase, RNase H, and an integrase, here the chromodomain is found at the C-terminus of the integrase domain. The chromodomain, is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349327 Cd Length: 50 Bit Score: 48.16 E-value: 2.48e-07
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| PRK06143 | PRK06143 | enoyl-CoA hydratase; Provisional |
640-841 | 3.09e-07 | |||||
enoyl-CoA hydratase; Provisional Pssm-ID: 180423 Cd Length: 256 Bit Score: 52.73 E-value: 3.09e-07
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| PRK07396 | PRK07396 | dihydroxynaphthoic acid synthetase; Validated |
611-798 | 3.57e-07 | |||||
dihydroxynaphthoic acid synthetase; Validated Pssm-ID: 180958 [Multi-domain] Cd Length: 273 Bit Score: 52.59 E-value: 3.57e-07
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| CD_Cbx6 | cd18648 | chromodomain of chromobox homolog 6; CHRomatin Organization Modifier (chromo) domain of ... |
333-392 | 5.14e-07 | |||||
chromodomain of chromobox homolog 6; CHRomatin Organization Modifier (chromo) domain of chromobox homolog 6 (CBX6), a component of the PcG repressive complex PRC1, one of the two classes of PRCs. PcG proteins form large multiprotein complexes (PcG bodies) which are involved in the stable repression of genes involved in development, signaling or cancer via chromatin-based epigenetic modifications. Mammalian PRC1 includes canonical (cPRC1) and non-canonical complexes; cPRC1, contains four core subunits including one CBX protein (CBX2, CBX4, and CBX6-CBX8) that binds H3K27me3. CBX family members have different affinity for H3K27me3, with CBX7 having the highest binding capability. The human CBX proteins show distinct nuclear localizations and contribute differently to transcriptional repression. Some CBX proteins of the PRC1 complex have been implicated in transcriptional activation as well as in PRC1-independent roles in embryonic stem cells and in somatic cells. Pssm-ID: 349295 Cd Length: 58 Bit Score: 47.36 E-value: 5.14e-07
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| CD_MT_like | cd18962 | chromodomain of a putative Coemansia reversa NRRL 1564 methyltransferase, and similar proteins; ... |
333-386 | 5.31e-07 | |||||
chromodomain of a putative Coemansia reversa NRRL 1564 methyltransferase, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in a Coemansia reversa NRRL 1564 SET (Su(var)3-9, enhancer-of-zeste, trithorax) domain-containing protein, and similar proteins. The SU(VAR)3-9 protein is the main chromocenter-specific histone H3-K9 methyltransferase (HMTase) in Drosophila where it plays a role in heterochromatic gene silencing. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349318 Cd Length: 52 Bit Score: 47.18 E-value: 5.31e-07
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| PRK07112 | PRK07112 | enoyl-CoA hydratase/isomerase; |
616-795 | 6.26e-07 | |||||
enoyl-CoA hydratase/isomerase; Pssm-ID: 235938 Cd Length: 255 Bit Score: 51.61 E-value: 6.26e-07
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| PLN02874 | PLN02874 | 3-hydroxyisobutyryl-CoA hydrolase-like protein |
640-815 | 8.65e-07 | |||||
3-hydroxyisobutyryl-CoA hydrolase-like protein Pssm-ID: 178462 [Multi-domain] Cd Length: 379 Bit Score: 52.11 E-value: 8.65e-07
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| PRK11423 | PRK11423 | methylmalonyl-CoA decarboxylase; Provisional |
640-829 | 8.92e-07 | |||||
methylmalonyl-CoA decarboxylase; Provisional Pssm-ID: 236908 [Multi-domain] Cd Length: 261 Bit Score: 51.18 E-value: 8.92e-07
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| PRK12478 | PRK12478 | crotonase/enoyl-CoA hydratase family protein; |
640-797 | 1.21e-06 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 183548 Cd Length: 298 Bit Score: 51.11 E-value: 1.21e-06
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| CD_CEC-4_like | cd18961 | chromodomain of Caenorhabditis elegans chromodomain protein 4, and similar proteins; CHRomatin ... |
336-386 | 1.98e-06 | |||||
chromodomain of Caenorhabditis elegans chromodomain protein 4, and similar proteins; CHRomatin Organization Modifier (chromo) domain of Caenorhabditis elegans CEC-4, and similar proteins. CEC-4 is a perinuclear heterochromatin anchor, it mediates the anchoring of H3K9 methylation-bearing chromatin at the nuclear periphery in early to mid-stage embryos. It is necessary for anchoring, but does not affect transcriptional repression. CEC-4 contributes to the efficiency with which muscle differentiation is induced following ectopic expression of the master regulator, HLH-1 (MyoD in mammals). A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349317 Cd Length: 51 Bit Score: 45.56 E-value: 1.98e-06
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| CD_Cbx8 | cd18649 | chromodomain of chromobox homolog 8; CHRomatin Organization Modifier (chromo) domain of ... |
333-376 | 2.42e-06 | |||||
chromodomain of chromobox homolog 8; CHRomatin Organization Modifier (chromo) domain of chromobox homolog 8 (CBX8), a component of the PcG repressive complex PRC1, one of the two classes of PRCs. PcG proteins form large multiprotein complexes (PcG bodies) which are involved in the stable repression of genes involved in development, signaling or cancer via chromatin-based epigenetic modifications. Mammalian PRC1 includes canonical (cPRC1) and non-canonical complexes; cPRC1, contains four core subunits including one CBX protein (CBX2, CBX4, and CBX6-CBX8) that binds H3K27me3. CBX family members have different affinity for H3K27me3, with CBX7 having the highest binding capability. The human CBX proteins show distinct nuclear localizations and contribute differently to transcriptional repression. Some CBX proteins of the PRC1 complex have been implicated in transcriptional activation as well as in PRC1-independent roles in embryonic stem cells and in somatic cells. CBX proteins may act as an oncogene or tumor suppressor in a cell-type-dependent manner, CBX8 for example promotes proliferation while suppressing metastasis, in colorectal carcinoma progression. Pssm-ID: 349296 Cd Length: 55 Bit Score: 45.48 E-value: 2.42e-06
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| CD_POL_like | cd18976 | chromodomain of uncharacterized putative retroelement polyprotein proteins; This subgroup ... |
336-386 | 3.58e-06 | |||||
chromodomain of uncharacterized putative retroelement polyprotein proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in uncharacterized putative retrotransposon proteins, and similar proteins. The chromodomain, is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349332 Cd Length: 51 Bit Score: 44.87 E-value: 3.58e-06
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| PRK09120 | PRK09120 | p-hydroxycinnamoyl CoA hydratase/lyase; Validated |
640-841 | 6.96e-06 | |||||
p-hydroxycinnamoyl CoA hydratase/lyase; Validated Pssm-ID: 236383 Cd Length: 275 Bit Score: 48.85 E-value: 6.96e-06
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| fadJ | PRK11154 | fatty acid oxidation complex subunit alpha FadJ; |
609-854 | 8.77e-06 | |||||
fatty acid oxidation complex subunit alpha FadJ; Pssm-ID: 236864 [Multi-domain] Cd Length: 708 Bit Score: 49.51 E-value: 8.77e-06
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| chromodomain | cd18965 | CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain ... |
336-374 | 1.17e-05 | |||||
CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Chromodomains belong to the chromo-like superfamily of SH3-fold-beta-barrel domains which includes chromo shadow domains and chromo barrel domains. Chromodomains differ from these in that they lack the first strand of the SH3-fold-beta-barrel. This first strand is altered by insertion in the chromo shadow domains, and chromo barrel domains are typical SH3-fold-beta-barrel domains with sequence similarity to the canonical chromo domain. Pssm-ID: 349321 Cd Length: 53 Bit Score: 43.23 E-value: 1.17e-05
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| CD_POL_like | cd18979 | chromodomain of a Zea maize putative metaviridae (gypsy-type) retrotransposon polyproteins ... |
339-375 | 3.04e-05 | |||||
chromodomain of a Zea maize putative metaviridae (gypsy-type) retrotransposon polyproteins (Z195D10.9), and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in Zea maize Z195D10.9 protein, and other putative TY3/gypsy retrotransposon polyproteins. The pol gene in TY3/gypsy elements generally encodes domains in the following order: an aspartyl protease, a reverse transcriptase, RNase H, and an integrase, here the chromodomain is found at the C-terminus of the integrase domain. The chromodomain, is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349335 Cd Length: 48 Bit Score: 42.09 E-value: 3.04e-05
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| PRK08788 | PRK08788 | enoyl-CoA hydratase; Validated |
643-802 | 3.24e-05 | |||||
enoyl-CoA hydratase; Validated Pssm-ID: 236338 Cd Length: 287 Bit Score: 46.83 E-value: 3.24e-05
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| CD2_cpSRP43_like | cd18629 | chromodomain 2 of chloroplast signal recognition particle 43 kDa protein, and similar proteins; ... |
334-374 | 4.57e-05 | |||||
chromodomain 2 of chloroplast signal recognition particle 43 kDa protein, and similar proteins; This subgroup includes the chromodomain 2 of chloroplast SRP43 (cpSRP43), and similar proteins. CpSRP43 is a component of the chloroplast signal recognition particle (SRP) pathway. It forms a stable complex with cpSRP54 (cpSRP complex) which is required for the efficient posttranslational transport of members of the nuclearly encoded light harvesting chlorophyll-a/b-binding proteins (LHCPs) to the thylakoid membrane. Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence implicates the chromodomain in the binding activity of these proteins to methylated histone tails and maybe RNA. May occur as single instance, in a tandem arrangement or followed by a related chromo shadow domain. Pssm-ID: 349279 Cd Length: 48 Bit Score: 41.72 E-value: 4.57e-05
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| PRK08259 | PRK08259 | crotonase/enoyl-CoA hydratase family protein; |
659-803 | 5.22e-05 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 236205 Cd Length: 254 Bit Score: 45.66 E-value: 5.22e-05
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| PRK08321 | PRK08321 | 1,4-dihydroxy-2-naphthoyl-CoA synthase; |
706-798 | 7.49e-05 | |||||
1,4-dihydroxy-2-naphthoyl-CoA synthase; Pssm-ID: 181386 Cd Length: 302 Bit Score: 45.79 E-value: 7.49e-05
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| CD2_tandem_CHD5-9_like | cd18663 | repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 5-9, ... |
337-387 | 2.33e-04 | |||||
repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 5-9, and similar proteins; Repeat 2 of tandem CHRomatin Organization Modifier (chromo) domains, found in CHD (chromodomain helicase DNA-binding) proteins such as mammalian helicase DNA-binding proteins CHD5, CHD6, CHD7, CHD8, and CHD9. The CHD proteins belong to the SNF2 superfamily of ATP-dependent chromatin remodelers and contain two signature motifs: a pair of chromodomains located in the N-terminal region, and the SNF2-like ATPase domain located in the central region of the protein. CHD chromatin remodelers are important regulators of transcription and play critical roles during developmental processes. The N-terminal chromodomains of CHD1 have been shown to guard against sliding hexasomes. Mutations in the chromodomains of mouse CHD1 result in nuclear redistribution, suggesting that the chromodomain is essential for proper association with chromatin; also, deletion of the chromodomains in the Drosophila melanogaster CHD3-4 homolog impaired nucleosome binding, mobilization, and ATPase functions. CHD6, CHD7, and CHD8 enzymes have been demonstrated to have different substrate specificities and remodeling activities. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349310 [Multi-domain] Cd Length: 59 Bit Score: 39.96 E-value: 2.33e-04
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| fadB | PRK11730 | fatty acid oxidation complex subunit alpha FadB; |
620-798 | 3.92e-04 | |||||
fatty acid oxidation complex subunit alpha FadB; Pssm-ID: 183293 [Multi-domain] Cd Length: 715 Bit Score: 44.08 E-value: 3.92e-04
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| PLN02267 | PLN02267 | enoyl-CoA hydratase/isomerase family protein |
630-814 | 4.21e-04 | |||||
enoyl-CoA hydratase/isomerase family protein Pssm-ID: 215151 Cd Length: 239 Bit Score: 42.78 E-value: 4.21e-04
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| PLN02157 | PLN02157 | 3-hydroxyisobutyryl-CoA hydrolase-like protein |
664-824 | 5.50e-04 | |||||
3-hydroxyisobutyryl-CoA hydrolase-like protein Pssm-ID: 177817 [Multi-domain] Cd Length: 401 Bit Score: 43.13 E-value: 5.50e-04
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| PRK06213 | PRK06213 | crotonase/enoyl-CoA hydratase family protein; |
640-736 | 7.55e-04 | |||||
crotonase/enoyl-CoA hydratase family protein; Pssm-ID: 235744 Cd Length: 229 Bit Score: 41.88 E-value: 7.55e-04
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| CD3_cpSRP43_like | cd18628 | chromodomain 3 of chloroplast signal recognition particle 43 kDa protein, and similar proteins; ... |
340-385 | 1.20e-03 | |||||
chromodomain 3 of chloroplast signal recognition particle 43 kDa protein, and similar proteins; This subgroup includes the chromodomain 3 of chloroplast SRP43 (cpSRP43), and similar proteins. CpSRP43 is a component of the chloroplast signal recognition particle (SRP) pathway. It forms a stable complex with cpSRP54 (cpSRP complex) which is required for the efficient posttranslational transport of members of the nuclearly encoded light harvesting chlorophyll-a/b-binding proteins (LHCPs) to the thylakoid membrane. Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence implicates the chromodomain in the binding activity of these proteins to methylated histone tails and maybe RNA. May occur as single instance, in a tandem arrangement or followed by a related chromo shadow domain. Pssm-ID: 349278 Cd Length: 51 Bit Score: 37.75 E-value: 1.20e-03
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| CD_eEF3 | cd18626 | chromodomain-like insertion in an ATPase domain of elongation factor eEF3; Eukaryotic ... |
338-375 | 1.54e-03 | |||||
chromodomain-like insertion in an ATPase domain of elongation factor eEF3; Eukaryotic elongation factor eEF3 (also known as EF-3, YEF3, and TEF3), a member of the ATP-binding cassette (ABC) family of proteins, is a ribosomal binding ATPase essential for fungal translation machinery. Until recently it was considered fungal-specific and therefore an attractive target for antifungal therapy; however, recent bioinformatics analysis indicates it may be more widely distributed among other unicellular eukaryotes, and translation elongation factor 3 activity has been demonstrated from a non-fungal species, Phytophthora infestans. eEF3 is a soluble factor lacking a transmembrane domain and having two ABC domains arranged in tandem, with a unique chromodomain inserted within the ABC2 domain. Chromodomain mutations in the ABC2 domain of eEF3 have been shown to reduce ATPase activity, but not ribosome binding. Thus, the chromodomain-like insertion is critical to eEF3 function. In addition to its elongation function, eEF3 has been shown to interact with mRNA in a translation independent manner, suggesting an additional, non-elongation function for this factor. Pssm-ID: 349276 [Multi-domain] Cd Length: 56 Bit Score: 37.58 E-value: 1.54e-03
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| chromodomain | cd18967 | CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain ... |
336-386 | 2.24e-03 | |||||
CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Chromodomains belong to the chromo-like superfamily of SH3-fold-beta-barrel domains which includes chromo shadow domains and chromo barrel domains. Chromodomains differ from these in that they lack the first strand of the SH3-fold-beta-barrel. This first strand is altered by insertion in the chromo shadow domains, and chromo barrel domains are typical SH3-fold-beta-barrel domains with sequence similarity to the canonical chromo domain. Pssm-ID: 349323 Cd Length: 55 Bit Score: 36.84 E-value: 2.24e-03
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| PRK05617 | PRK05617 | 3-hydroxyisobutyryl-CoA hydrolase; Provisional |
640-758 | 8.03e-03 | |||||
3-hydroxyisobutyryl-CoA hydrolase; Provisional Pssm-ID: 235533 [Multi-domain] Cd Length: 342 Bit Score: 39.42 E-value: 8.03e-03
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| chromodomain | cd18963 | CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain ... |
333-374 | 8.30e-03 | |||||
CHROMO (CHRromatin Organization Modifier) domain; uncharacterized subgroup; The chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Chromodomains belong to the chromo-like superfamily of SH3-fold-beta-barrel domains which includes chromo shadow domains and chromo barrel domains. Chromodomains differ from these in that they lack the first strand of the SH3-fold-beta-barrel. This first strand is altered by insertion in the chromo shadow domains, and chromo barrel domains are typical SH3-fold-beta-barrel domains with sequence similarity to the canonical chromo domain. Pssm-ID: 349319 Cd Length: 57 Bit Score: 35.36 E-value: 8.30e-03
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| CD1_tandem_CHD1_yeast_like | cd18665 | repeat 1 of the paired tandem chromodomains of yeast chromodomain helicase DNA-binding protein ... |
338-370 | 8.61e-03 | |||||
repeat 1 of the paired tandem chromodomains of yeast chromodomain helicase DNA-binding protein 1, and similar proteins; Repeat 1 of tandem CHRomatin Organization Modifier (chromo) domains, found in CHD (chromodomain helicase DNA-binding) proteins such as yeast protein CHD1. The CHD proteins belong to the SNF2 superfamily of ATP-dependent chromatin remodelers and contain two signature motifs: a pair of chromodomains located in the N-terminal region, and the SNF2-like ATPase domain located in the central region of the protein. CHD chromatin remodelers are important regulators of transcription and play critical roles during developmental processes. The N-terminal chromodomains of CHD1 have been shown to guard against sliding hexasomes. Mutations in the chromodomains of mouse CHD1 result in nuclear redistribution, suggesting that the chromodomain is essential for proper association with chromatin; also, deletion of the chromodomains in the Drosophila melanogaster CHD3-4 homolog impaired nucleosome binding, mobilization, and ATPase functions. A chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349312 Cd Length: 65 Bit Score: 35.44 E-value: 8.61e-03
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