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Conserved domains on  [gi|1803761321|gb|KAF1603953|]
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Pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15, partial [Eudyptes chrysolophus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEXHc_DHX15 cd17973
DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA ...
 72-259 1.32e-130

DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA processing factor involved in disassembly of spliceosomes after the release of mature mRNA. DHX15 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


:

Pssm-ID: 438709 [Multi-domain]  Cd Length: 187  Bit Score: 383.30  E-value: 1.32e-130
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  72 PRYYDILKKRLQLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRSLPgPKRGVACTQPRRVAAMSVAQR 151
Cdd:cd17973     1 QRYFEILEKRRELPVWEQKEDFLKLLKNNQILVLVGETGSGKTTQIPQFVLDDELPHQ-PKKLVACTQPRRVAAMSVAQR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 152 VADEMDVMLGQEVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRS 231
Cdd:cd17973    80 VAEEMDVKLGEEVGYSIRFEDCSSAKTILKYMTDGMLLREAMSDPLLSRYSVIILDEAHERTLATDILMGLLKEVVRRRP 159

                         170       180
                  ....*....|....*....|....*...
gi 1803761321 232 DLKVIVMSATLDAGKFQIYFDNCPLLTI 259
Cdd:cd17973   160 DLKLIVMSATLDAGKFQKYFDNAPLLKV 187
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 601-665 1.61e-22

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


:

Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 91.93  E-value: 1.61e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 601 VAHLERTGH-YLTVKDNQVVQLHPSTVL----DHKPEWVLYNEFVLTTKNYIRTCTDIKPEWLVKIAPQY 665
Cdd:pfam07717  13 VARRDPKGKgYTTLSDNQRVFIHPSSVLfnekTFPPEWVVYQELVETTKVYIRTVTAISPEWLLLFAPHI 82
ps-ssRNAv_RdRp-like super family cl40470
conserved catalytic core domain of RNA-dependent RNA polymerase (RdRp) from the positive-sense ...
 354-466 1.33e-21

conserved catalytic core domain of RNA-dependent RNA polymerase (RdRp) from the positive-sense single-stranded RNA [(+)ssRNA] viruses and closely related viruses; This family contains the catalytic core domain of RdRp of RNA viruses which belong to Group IV of the Baltimore classification system, and are a group of related viruses that have positive-sense (+), single-stranded (ss) genomes made of ribonucleic acid (RNA). RdRp (also known as RNA replicase) catalyzes the replication of RNA from an RNA template; specifically, it catalyzes the synthesis of the RNA strand complementary to a given RNA template. The Baltimore Classification is divided into 7 classes, 3 of which include RNA viruses: Group IV (+) RNA viruses, Group III double-stranded (ds) RNA viruses, and Group V negative-sense (-) RNA viruses. Baltimore groups of viruses differ with respect to the nature of their genome (i.e., the nucleic acid form that is packaged into virions) and correspond to distinct strategies of genome replication and expression. (+) viral RNA is similar to mRNA and thus can be immediately translated by the host cell. (+)ssRNA viruses can also produce (+) copies of the genome from (-) strands of an intermediate dsRNA genome. This acts as both a transcription and a replication process since the replicated RNA is also mRNA. RdRps belong to the expansive class of polymerases containing so-called palm catalytic domains along with the accessory fingers and thumb domains. All RdRps also have six conserved structural motifs (A-F), located in its majority in the palm subdomain (A-E motifs) and the F motif is located on the finger subdomain. All these motifs have been shown to be implicated in RdRp fidelity such as processes of correct incorporation and reorganization of nucleotides. In addition to Group IV viruses, this model also includes Picobirnaviruses (PBVs), members of the family Picobirnaviridae of dsRNA viruses (Baltimore classification Group III), which are bi-segmented dsRNA viruses. The phylogenetic tree of the RdRps of RNA viruses (realm Riboviria) showed that picobirnaviruses are embedded in the branch of diverse (+)RNA viruses; sometimes they are collectively referred to as the picornavirus supergroup. RdRps of members of the family Permutatetraviridae, a distinct group of RNA viruses that encompass a circular permutation within the RdRp palm domain, are not included in this model.


The actual alignment was detected with superfamily member cd01650:

Pssm-ID: 477363 [Multi-domain]  Cd Length: 220  Bit Score: 93.89  E-value: 1.33e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 354 WWPVMS---GVHQGSVLGPVLFNIFINDLDEGI-----------ECTLSKFADDTKLgrsvdLLQGRK-ALQRDLDRLDR 418
Cdd:cd01650    97 DHEFLLkalGVRQGDPLSPLLFNLALDDLLRLLnkeeeiklggpGITHLAYADDIVL-----FSEGKSrKLQELLQRLQE 171

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1803761321 419 WAEANCMRFNKAKCRVLHFGH-NNPMQRYRLGEEWLESCLVEKDLGVLV 466
Cdd:cd01650   172 WSKESGLKINPSKSKVMLIGNkKKRLKDITLNGTPIEAVETFKYLGVTI 220
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 264-345 6.71e-10

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member cd18791:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 171  Bit Score: 58.70  E-value: 6.71e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 264 HPVEIFYTPEP-----------ERDYLEAAIRTVIQIHmCEEEEGDLLLFLTGQEVlssffffpihcsIQKLSGlyRLKC 332
Cdd:cd18791     1 FPVEVYYLEDIlellgissekeDPDYVDAAVRLILQIH-RTEEPGDILVFLPGQEE------------IERLCE--LLRE 65

                          90
                  ....*....|...
gi 1803761321 333 LVSFSKRLDLVIL 345
Cdd:cd18791    66 ELLSPDLGKLLVL 78
 
Name Accession Description Interval E-value
DEXHc_DHX15 cd17973
DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA ...
 72-259 1.32e-130

DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA processing factor involved in disassembly of spliceosomes after the release of mature mRNA. DHX15 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438709 [Multi-domain]  Cd Length: 187  Bit Score: 383.30  E-value: 1.32e-130
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  72 PRYYDILKKRLQLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRSLPgPKRGVACTQPRRVAAMSVAQR 151
Cdd:cd17973     1 QRYFEILEKRRELPVWEQKEDFLKLLKNNQILVLVGETGSGKTTQIPQFVLDDELPHQ-PKKLVACTQPRRVAAMSVAQR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 152 VADEMDVMLGQEVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRS 231
Cdd:cd17973    80 VAEEMDVKLGEEVGYSIRFEDCSSAKTILKYMTDGMLLREAMSDPLLSRYSVIILDEAHERTLATDILMGLLKEVVRRRP 159

                         170       180
                  ....*....|....*....|....*...
gi 1803761321 232 DLKVIVMSATLDAGKFQIYFDNCPLLTI 259
Cdd:cd17973   160 DLKLIVMSATLDAGKFQKYFDNAPLLKV 187
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
83-306 1.96e-80

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 273.11  E-value: 1.96e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  83 QLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDymrsLPGPKRG-VACTQPRRVAAMSVAQRVADEMDVMLG 161
Cdd:COG1643     9 DLPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLE----LGWGAGGrIGMLEPRRLAARAAAERMAEELGEPVG 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 162 QEVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVV-RQRSDLKVIVMSA 240
Cdd:COG1643    85 ETVGYRVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDLQpALRPDLKLLVMSA 164

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1803761321 241 TLDAGKFQIYFDNCPLLTIPGRTHPVEIFYTP--EPERDYLEAAIRTVIQIHmcEEEEGDLLLFLTGQ 306
Cdd:COG1643   165 TLDAERFARLLGDAPVIESSGRTYPVEVRYRPlpADERDLEDAVADAVREAL--AEEPGDILVFLPGE 230
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 83-306 5.62e-64

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 231.10  E-value: 5.62e-64
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321   83 QLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRslpGPKRGVACTQPRRVAAMSVAQRVADEMDVMLGQ 162
Cdd:PRK11131    72 NLPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGR---GVKGLIGHTQPRRLAARTVANRIAEELETELGG 148

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  163 EVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATL 242
Cdd:PRK11131   149 CVGYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELLPRRPDLKVIITSATI 228

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  243 DAGKFQIYFDNCPLLTIPGRTHPVEIFYTP------EPERDYLEAAIRTVIQihMCEEEEGDLLLFLTGQ 306
Cdd:PRK11131   229 DPERFSRHFNNAPIIEVSGRTYPVEVRYRPiveeadDTERDQLQAIFDAVDE--LGREGPGDILIFMSGE 296
DEAH_box_HrpA TIGR01967
RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ...
 83-306 5.68e-63

RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing. The HrpA/B homolog from Borrelia is 500 amino acids shorter but appears to be derived from HrpA rather than HrpB. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273900 [Multi-domain]  Cd Length: 1283  Bit Score: 228.11  E-value: 5.68e-63
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321   83 QLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRslpGPKRGVACTQPRRVAAMSVAQRVADEMDVMLGQ 162
Cdd:TIGR01967   65 NLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGR---GSHGLIGHTQPRRLAARTVAQRIAEELGTPLGE 141

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  163 EVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATL 242
Cdd:TIGR01967  142 KVGYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKIIITSATI 221

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  243 DAGKFQIYFDNCPLLTIPGRTHPVEIFYTP------EPERDYLEAAIRTVIQihMCEEEEGDLLLFLTGQ 306
Cdd:TIGR01967  222 DPERFSRHFNNAPIIEVSGRTYPVEVRYRPlveeqeDDDLDQLEAILDAVDE--LFAEGPGDILIFLPGE 289
DEXDc smart00487
DEAD-like helicases superfamily;
78-269 6.39e-27

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 108.73  E-value: 6.39e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321   78 LKKRLQLPVWEYKERFTDILIRH-QSFVLVGETGSGKTTQIPQWCVDYMRSLPGPKrgVACTQPRRVAAMSVAQRVADEM 156
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGKGGR--VLVLVPTRELAEQWAEELKKLG 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  157 DVMLGQEVGY------SIRFEDCSSAKTILKYMTDGMLLREAMNDPL-LERYGVIILDEAHERT--LATDILMGVLKEVv 227
Cdd:smart00487  79 PSLGLKVVGLyggdskREQLRKLESGKTDILVTTPGRLLDLLENDKLsLSNVDLVILDEAHRLLdgGFGDQLEKLLKLL- 157

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*.
gi 1803761321  228 rqRSDLKVIVMSATL--DAGKFQIYFDNCPLLTIPGRT--HPVEIF 269
Cdd:smart00487 158 --PKNVQLLLLSATPpeEIENLLELFLNDPVFIDVGFTplEPIEQF 201
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 601-665 1.61e-22

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 91.93  E-value: 1.61e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 601 VAHLERTGH-YLTVKDNQVVQLHPSTVL----DHKPEWVLYNEFVLTTKNYIRTCTDIKPEWLVKIAPQY 665
Cdd:pfam07717  13 VARRDPKGKgYTTLSDNQRVFIHPSSVLfnekTFPPEWVVYQELVETTKVYIRTVTAISPEWLLLFAPHI 82
RT_nLTR_like cd01650
RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse ...
 354-466 1.33e-21

RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse transcriptase (RT). This subfamily contains both non-LTR retrotransposons and non-LTR retrovirus RTs. RTs catalyze the conversion of single-stranded RNA into double-stranded DNA for integration into host chromosomes. RT is a multifunctional enzyme with RNA-directed DNA polymerase, DNA directed DNA polymerase and ribonuclease hybrid (RNase H) activities.


Pssm-ID: 238827 [Multi-domain]  Cd Length: 220  Bit Score: 93.89  E-value: 1.33e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 354 WWPVMS---GVHQGSVLGPVLFNIFINDLDEGI-----------ECTLSKFADDTKLgrsvdLLQGRK-ALQRDLDRLDR 418
Cdd:cd01650    97 DHEFLLkalGVRQGDPLSPLLFNLALDDLLRLLnkeeeiklggpGITHLAYADDIVL-----FSEGKSrKLQELLQRLQE 171

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1803761321 419 WAEANCMRFNKAKCRVLHFGH-NNPMQRYRLGEEWLESCLVEKDLGVLV 466
Cdd:cd01650   172 WSKESGLKINPSKSKVMLIGNkKKRLKDITLNGTPIEAVETFKYLGVTI 220
RVT_1 pfam00078
Reverse transcriptase (RNA-dependent DNA polymerase); A reverse transcriptase gene is usually ...
 309-436 3.92e-11

Reverse transcriptase (RNA-dependent DNA polymerase); A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses.


Pssm-ID: 395031 [Multi-domain]  Cd Length: 189  Bit Score: 62.71  E-value: 3.92e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 309 LSSFFFfpihcSIQkLSGLyrLKCLVSFSkrLDLVILLVNGVKSSWWPVMSGVHQGSVLGPVLFNIFINDLDEGI----E 384
Cdd:pfam00078  61 LKKAFD-----QVP-LDEL--DRKLTAFT--TPPININWNGELSGGRYEWKGLPQGLVLSPALFQLFMNELLRPLrkraG 130

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1803761321 385 CTLSKFADDTKLgrsvdLLQGRKALQRDLDRLDRWAEANCMRFNKAKCRVLH 436
Cdd:pfam00078 131 LTLVRYADDILI-----FSKSEEEHQEALEEVLEWLKESGLKINPEKTQFFL 177
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
 264-345 6.71e-10

C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family members are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350178 [Multi-domain]  Cd Length: 171  Bit Score: 58.70  E-value: 6.71e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 264 HPVEIFYTPEP-----------ERDYLEAAIRTVIQIHmCEEEEGDLLLFLTGQEVlssffffpihcsIQKLSGlyRLKC 332
Cdd:cd18791     1 FPVEVYYLEDIlellgissekeDPDYVDAAVRLILQIH-RTEEPGDILVFLPGQEE------------IERLCE--LLRE 65

                          90
                  ....*....|...
gi 1803761321 333 LVSFSKRLDLVIL 345
Cdd:cd18791    66 ELLSPDLGKLLVL 78
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 95-243 6.51e-08

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 52.63  E-value: 6.51e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  95 DILIRHQSFVLVGETGSGKTT--QIPqwCVDYMRSLPGPKRGVaCTQPRRVAA---MSVAQRVADEMDVMLGQEVGYSIR 169
Cdd:pfam00270   9 PAILEGRDVLVQAPTGSGKTLafLLP--ALEALDKLDNGPQAL-VLAPTRELAeqiYEELKKLGKGLGLKVASLLGGDSR 85

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1803761321 170 FEDCSSAKTI-LKYMTDGMLLREAMNDPLLERYGVIILDEAHErtLATDILMGVLKEVVRQ-RSDLKVIVMSATLD 243
Cdd:pfam00270  86 KEQLEKLKGPdILVGTPGRLLDLLQERKLLKNLKLLVLDEAHR--LLDMGFGPDLEEILRRlPKKRQILLLSATLP 159
YkfC COG3344
Retron-type reverse transcriptase [Mobilome: prophages, transposons];
360-438 3.48e-04

Retron-type reverse transcriptase [Mobilome: prophages, transposons];


Pssm-ID: 442573 [Multi-domain]  Cd Length: 434  Bit Score: 43.53  E-value: 3.48e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 360 GVHQGSVLGPVLFNIFINDLDEGIE---CTLSKFADDtklgrSVDLLQGRKALQRDLDRLDRWAEANCMRFNKAKCRVLH 436
Cdd:COG3344   206 GTPQGGPLSPLLANIYLHELDKELErrgHRFVRYADD-----FVILCRSKRAAERVLESLTERLEKLGLELNPEKTRIVR 280


                  ..
gi 1803761321 437 FG 438
Cdd:COG3344   281 PG 282
group_II_RT_mat TIGR04416
group II intron reverse transcriptase/maturase; Members of this protein family are ...
 359-436 2.81e-03

group II intron reverse transcriptase/maturase; Members of this protein family are multifunctional proteins encoded in most examples of bacterial group II introns. These group II introns are mobile selfish genetic elements, often with multiple highly identical copies per genome. Member proteins have an N-terminal reverse transcriptase (RNA-directed DNA polymerase) domain (pfam00078) followed by an RNA-binding maturase domain (pfam08388). Some members of this family may have an additional C-terminal DNA endonuclease domain that this model does not cover. A region of the group II intron ribozyme structure should be detectable nearby on the genome by Rfam model RF00029. [Mobile and extrachromosomal element functions, Other]


Pssm-ID: 275209 [Multi-domain]  Cd Length: 354  Bit Score: 40.52  E-value: 2.81e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 359 SGVHQGSVLGPVLFNIFINDLDE-----GIECTLSKFADDTK-LGRSvdllqgRKALQRDLDRLDRWAEANCMRFNKAKC 432
Cdd:TIGR04416 178 EGTPQGGVISPLLANIYLHYLDDewekrGYKVRFVRYADDFViLCRS------KEAAERVLEALTKRLEELGLELNPEKT 251


                  ....
gi 1803761321 433 RVLH 436
Cdd:TIGR04416 252 KIVH 255
 
Name Accession Description Interval E-value
DEXHc_DHX15 cd17973
DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA ...
 72-259 1.32e-130

DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA processing factor involved in disassembly of spliceosomes after the release of mature mRNA. DHX15 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438709 [Multi-domain]  Cd Length: 187  Bit Score: 383.30  E-value: 1.32e-130
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  72 PRYYDILKKRLQLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRSLPgPKRGVACTQPRRVAAMSVAQR 151
Cdd:cd17973     1 QRYFEILEKRRELPVWEQKEDFLKLLKNNQILVLVGETGSGKTTQIPQFVLDDELPHQ-PKKLVACTQPRRVAAMSVAQR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 152 VADEMDVMLGQEVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRS 231
Cdd:cd17973    80 VAEEMDVKLGEEVGYSIRFEDCSSAKTILKYMTDGMLLREAMSDPLLSRYSVIILDEAHERTLATDILMGLLKEVVRRRP 159

                         170       180
                  ....*....|....*....|....*...
gi 1803761321 232 DLKVIVMSATLDAGKFQIYFDNCPLLTI 259
Cdd:cd17973   160 DLKLIVMSATLDAGKFQKYFDNAPLLKV 187
DEXHc_RHA-like cd17917
DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) ...
 100-259 4.28e-89

DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438707 [Multi-domain]  Cd Length: 159  Bit Score: 275.11  E-value: 4.28e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 100 HQSFVLVGETGSGKTTQIPQWCVDYMRSLPGPKRgVACTQPRRVAAMSVAQRVADEMDVMLGQEVGYSIRFEDCSSAKTI 179
Cdd:cd17917     1 NQVVVIVGETGSGKTTQVPQFLLEDGLAKGGKGR-IVCTQPRRIAAISVAERVAEERGEKLGEEVGYQIRFESKTSSKTR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 180 LKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATLDAGKFQIYFDNCPLLTI 259
Cdd:cd17917    80 IKFCTDGILLRELLSDPLLSGYSHVILDEAHERSLDTDFLLGLLKDLLRKRPDLKVILMSATLDAEKFSSYFGGAPVIHI 159
DEXHc_DHX16 cd17974
DEXH-box helicase domain of DEAH-box helicase 16; DEAH-box helicase 16 (DHX16) is probably ...
 84-259 2.88e-81

DEXH-box helicase domain of DEAH-box helicase 16; DEAH-box helicase 16 (DHX16) is probably involved in pre-mRNA splicing. DHX16 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350732 [Multi-domain]  Cd Length: 174  Bit Score: 255.51  E-value: 2.88e-81
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRSLPGPKrgVACTQPRRVAAMSVAQRVADEMDVMLGQE 163
Cdd:cd17974     1 LPVYPYRDDLLAAVKEHQVLIIVGETGSGKTTQIPQYLHEAGYTKGGGK--IGCTQPRRVAAMSVAARVAEEMGVKLGNE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 164 VGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATLD 243
Cdd:cd17974    79 VGYSIRFEDCTSEKTVLKYMTDGMLLREFLTEPDLASYSVMIIDEAHERTLHTDILFGLVKDIARFRPDLKLLISSATMD 158

                         170
                  ....*....|....*.
gi 1803761321 244 AGKFQIYFDNCPLLTI 259
Cdd:cd17974   159 AEKFSAFFDDAPIFRI 174
DEXHc_DHX33 cd17978
DEXH-box helicase domain of DEAH-box helicase 33; DEAH-box helicase 33 (DHX33) stimulates RNA ...
 84-259 1.66e-80

DEXH-box helicase domain of DEAH-box helicase 33; DEAH-box helicase 33 (DHX33) stimulates RNA polymerase I transcription of the 47S precursor rRNA. DHX33 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438710 [Multi-domain]  Cd Length: 178  Bit Score: 253.43  E-value: 1.66e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDymrslPGPKRG--VACTQPRRVAAMSVAQRVADEMDVMLG 161
Cdd:cd17978     1 LPIYSARKRLLEELRKHDTVIIIGETGSGKTTQIPQYLYE-----AGFARGgmIGITQPRRVAAVSVAKRVAEEMGVELG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 162 QEVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQR-----SDLKVI 236
Cdd:cd17978    76 QLVGYSVRFDDVTSEETRIKYMTDGMLLREAIGDPLLSKYSVIILDEAHERTVHTDVLFGLVKSAQRRRkeqklSPLKVI 155

                         170       180
                  ....*....|....*....|...
gi 1803761321 237 VMSATLDAGKFQIYFDNCPLLTI 259
Cdd:cd17978   156 IMSATLDADLFSEYFNGAPVLYI 178
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
83-306 1.96e-80

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 273.11  E-value: 1.96e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  83 QLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDymrsLPGPKRG-VACTQPRRVAAMSVAQRVADEMDVMLG 161
Cdd:COG1643     9 DLPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLE----LGWGAGGrIGMLEPRRLAARAAAERMAEELGEPVG 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 162 QEVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVV-RQRSDLKVIVMSA 240
Cdd:COG1643    85 ETVGYRVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDLQpALRPDLKLLVMSA 164

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1803761321 241 TLDAGKFQIYFDNCPLLTIPGRTHPVEIFYTP--EPERDYLEAAIRTVIQIHmcEEEEGDLLLFLTGQ 306
Cdd:COG1643   165 TLDAERFARLLGDAPVIESSGRTYPVEVRYRPlpADERDLEDAVADAVREAL--AEEPGDILVFLPGE 230
DEXHc_DHX8 cd17971
DEXH-box helicase domain of DEAH-box helicase 8; DEAH-box helicase 8 (DHX8 ,also known as ...
 80-260 2.35e-78

DEXH-box helicase domain of DEAH-box helicase 8; DEAH-box helicase 8 (DHX8 ,also known as pre-mRNA-splicing factor ATP-dependent RNA helicase PRP22) acts late in the splicing of pre-mRNA and mediates the release of the spliced mRNA from spliceosomes. DHX8 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350729 [Multi-domain]  Cd Length: 179  Bit Score: 247.78  E-value: 2.35e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  80 KRLQLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQwcvdYMRSLPGPKRG-VACTQPRRVAAMSVAQRVADEMDV 158
Cdd:cd17971     2 QRESLPIYKLKEQLIQAVHDNQILVVIGETGSGKTTQITQ----YLAEAGYTSRGkIGCTQPRRVAAMSVAKRVAEEFGC 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 159 MLGQEVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVM 238
Cdd:cd17971    78 CLGQEVGYTIRFEDCTSPETVIKYMTDGMLLRECLIDPDLSQYSVIMLDEAHERTIHTDVLFGLLKKTVQKRPDLKLIVT 157

                         170       180
                  ....*....|....*....|..
gi 1803761321 239 SATLDAGKFQIYFDNCPLLTIP 260
Cdd:cd17971   158 SATLDAVKFSQYFYEAPIFTIP 179
DEXHc_DHX38 cd17983
DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as ...
 84-259 3.05e-75

DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as PRP16) is involved in pre-mRNA splicing. DHX38 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350741 [Multi-domain]  Cd Length: 173  Bit Score: 239.67  E-value: 3.05e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQwcvdYMRSLPGPKRG-VACTQPRRVAAMSVAQRVADEMDVMLGQ 162
Cdd:cd17983     1 LPIFAVRQELLNVIRDNNVVIVVGETGSGKTTQLTQ----YLHEDGYTDYGmIGCTQPRRVAAMSVAKRVSEEMGVELGE 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 163 EVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATL 242
Cdd:cd17983    77 EVGYAIRFEDCTSENTVIKYMTDGILLRESLRDPDLDKYSAIIMDEAHERSLNTDVLFGLLREVVARRRDLKLIVTSATM 156

                         170
                  ....*....|....*..
gi 1803761321 243 DAGKFQIYFDNCPLLTI 259
Cdd:cd17983   157 DADKFADFFGNVPIFTI 173
DEXHc_DHX35 cd17980
DEXH-box helicase domain of DEAH-box helicase 35; DHX35 plays a role in colorectal cancers and ...
 84-259 3.47e-69

DEXH-box helicase domain of DEAH-box helicase 35; DHX35 plays a role in colorectal cancers and seems to be associated with risk to thyroid cancers. It also has been shown to positively regulate poxviruses, such as Myxoma virus. DEAH-box helicase 35 (DHX35) belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350738 [Multi-domain]  Cd Length: 185  Bit Score: 223.89  E-value: 3.47e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRSLPGpkRGVACTQPRRVAAMSVAQRVADEMDVMLGQE 163
Cdd:cd17980     1 LPVFKLRNHILYLVENYQTIVIVGETGCGKSTQIPQYLAEAGWTAGG--RVVGCTQPRRVAAVTVAGRVAEEMGAVLGHE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 164 VGYSIRFEDCSS-AKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATL 242
Cdd:cd17980    79 VGYCIRFDDCTDpQATRIKFLTDGMLVREMMLDPLLTKYSVIMLDEAHERTLYTDILIGLLKKIQKKRGDLRLIVASATL 158

                         170       180
                  ....*....|....*....|....*..
gi 1803761321 243 DAGKFQIYF----------DNCPLLTI 259
Cdd:cd17980   159 DAEKFRDFFnqnetndpskDTATILSV 185
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 83-306 5.62e-64

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 231.10  E-value: 5.62e-64
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321   83 QLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRslpGPKRGVACTQPRRVAAMSVAQRVADEMDVMLGQ 162
Cdd:PRK11131    72 NLPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGR---GVKGLIGHTQPRRLAARTVANRIAEELETELGG 148

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  163 EVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATL 242
Cdd:PRK11131   149 CVGYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELLPRRPDLKVIITSATI 228

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  243 DAGKFQIYFDNCPLLTIPGRTHPVEIFYTP------EPERDYLEAAIRTVIQihMCEEEEGDLLLFLTGQ 306
Cdd:PRK11131   229 DPERFSRHFNNAPIIEVSGRTYPVEVRYRPiveeadDTERDQLQAIFDAVDE--LGREGPGDILIFMSGE 296
DEAH_box_HrpA TIGR01967
RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ...
 83-306 5.68e-63

RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing. The HrpA/B homolog from Borrelia is 500 amino acids shorter but appears to be derived from HrpA rather than HrpB. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273900 [Multi-domain]  Cd Length: 1283  Bit Score: 228.11  E-value: 5.68e-63
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321   83 QLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRslpGPKRGVACTQPRRVAAMSVAQRVADEMDVMLGQ 162
Cdd:TIGR01967   65 NLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGR---GSHGLIGHTQPRRLAARTVAQRIAEELGTPLGE 141

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  163 EVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATL 242
Cdd:TIGR01967  142 KVGYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKIIITSATI 221

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  243 DAGKFQIYFDNCPLLTIPGRTHPVEIFYTP------EPERDYLEAAIRTVIQihMCEEEEGDLLLFLTGQ 306
Cdd:TIGR01967  222 DPERFSRHFNNAPIIEVSGRTYPVEVRYRPlveeqeDDDLDQLEAILDAVDE--LFAEGPGDILIFLPGE 289
DEXHc_DHX32 cd17977
DEXH-box helicase domain of DEAH-box helicase 32; DEAH-box helicase 32 (DHX32) belongs to the ...
 84-257 6.78e-62

DEXH-box helicase domain of DEAH-box helicase 32; DEAH-box helicase 32 (DHX32) belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350735 [Multi-domain]  Cd Length: 176  Bit Score: 204.29  E-value: 6.78e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRSLPGPKRGVACTQPRRVAAMSVAQRVADEMDVMLGQE 163
Cdd:cd17977     1 LPVWEAKYEFMESLAHNQIVIVSGDAKTGKSSQIPQWCAEYCLSAHYQHGVVVCTQVHKQTAVWLALRVADEMDVNIGHE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 164 VGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATLD 243
Cdd:cd17977    81 VGYVIPFENCCTNETILRYCTDDMLLREMMSDPLLESYGVIILDDAHERTVSTDVLLGLLKDVLLSRPELKLVIITCPHL 160

                         170
                  ....*....|....
gi 1803761321 244 AGKFQIYFDNCPLL 257
Cdd:cd17977   161 SSKLLSYYGNVPLI 174
DEXHc_DHX40 cd17984
DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to the ...
 84-259 4.56e-61

DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350742 [Multi-domain]  Cd Length: 178  Bit Score: 202.39  E-value: 4.56e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDIlIRHQSFVLV-GETGSGKTTQIPQWCVDYMRSLPGpkrGVACTQPRRVAAMSVAQRVADEMDVMLGQ 162
Cdd:cd17984     1 LPIQKQRKKLVQA-VRDNSFLIVtGNTGSGKTTQLPKYLYEAGFSQHG---MIGVTQPRRVAAISVAQRVAEEMKCTLGS 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 163 EVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRS-----DLKVIV 237
Cdd:cd17984    77 KVGYQVRFDDCSSKETAIKYMTDGCLLRHILADPNLTKYSVIILDEAHERSLTTDILFGLLKKLFQEKSpnrkeHLKVVV 156

                         170       180
                  ....*....|....*....|..
gi 1803761321 238 MSATLDAGKFQIYFDNCPLLTI 259
Cdd:cd17984   157 MSATLELAKLSAFFGNCPVFDI 178
DEXHc_HrpA cd17989
DEXH-box helicase domain of ATP-dependent RNA helicase HrpA; HrpA is part of the HrpB-HrpA ...
 84-259 5.53e-57

DEXH-box helicase domain of ATP-dependent RNA helicase HrpA; HrpA is part of the HrpB-HrpA two-partner secretion (TPS) system, a secretion pathway important to the secretion of large virulence-associated proteins. HrpA belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350747 [Multi-domain]  Cd Length: 173  Bit Score: 191.13  E-value: 5.53e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRslpGPKRGVACTQPRRVAAMSVAQRVADEMDVMLGQE 163
Cdd:cd17989     1 LPVSQKRDEIAKAIAENQVVIIAGETGSGKTTQLPKICLELGR---GIRGLIGHTQPRRLAARSVAERIAEELKTELGGA 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 164 VGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATLD 243
Cdd:cd17989    78 VGYKVRFTDQTSDETCVKLMTDGILLAETQTDRYLRAYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKVIITSATID 157

                         170
                  ....*....|....*.
gi 1803761321 244 AGKFQIYFDNCPLLTI 259
Cdd:cd17989   158 AERFSRHFNNAPIIEV 173
DEXHc_DHX37 cd17982
DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the ...
 84-242 2.44e-54

DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the human nervous system and has been linked to schizophrenia. It also negatively regulates poxviruses such as Myxoma virus. DEAH-box helicase 37 (DHX37) belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350740 [Multi-domain]  Cd Length: 191  Bit Score: 184.48  E-value: 2.44e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRSLPGPKRG--VACTQPRRVAAMSVAQRVADEMDVMlG 161
Cdd:cd17982     1 LPILAEEQEIMEAINENPVVIICGETGSGKTTQVPQFLYEAGFGSPESDNPgmIGITQPRRVAAVSMAKRVAEELNVF-G 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 162 QEVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSD--------- 232
Cdd:cd17982    80 KEVSYQIRYDSTVSENTKIKFMTDGVLLKEIQTDFLLRKYSVIIIDEAHERSVNTDILIGMLSRIVPLRAKlylqdqtvk 159

                         170
                  ....*....|.
gi 1803761321 233 -LKVIVMSATL 242
Cdd:cd17982   160 pLKLVIMSATL 170
DEXHc_DHX57 cd17985
DEXH-box helicase domain of DEAH-box helicase 57; DEAH-box helicase 57 (DHX57) belongs to the ...
 84-259 5.53e-54

DEXH-box helicase domain of DEAH-box helicase 57; DEAH-box helicase 57 (DHX57) belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350743 [Multi-domain]  Cd Length: 177  Bit Score: 183.12  E-value: 5.53e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDymRSLPGPKRGVA---CTQPRRVAAMSVAQRVADEMDVML 160
Cdd:cd17985     1 LPAWQERETILELLEKHQVLVISGMTGCGKTTQIPQFILD--NSLQGPPLPVAniiCTQPRRISAISVAERVAQERAERV 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 161 GQEVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSA 240
Cdd:cd17985    79 GQSVGYQIRLESVKSSATRLLYCTTGVLLRRLEGDPTLQGVTHVIVDEVHERTEESDFLLLVLKDLMVQRPDLKVILMSA 158

                         170
                  ....*....|....*....
gi 1803761321 241 TLDAGKFQIYFDNCPLLTI 259
Cdd:cd17985   159 TLNAELFSDYFNSCPVIHI 177
DEXQc_DQX1 cd17986
DEXQ-box helicase domain of DEAQ-box RNA dependent ATPase 1; DEAQ-box RNA dependent ATPase 1 ...
 84-259 1.14e-53

DEXQ-box helicase domain of DEAQ-box RNA dependent ATPase 1; DEAQ-box RNA dependent ATPase 1 (DQX1) belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350744 [Multi-domain]  Cd Length: 177  Bit Score: 182.40  E-value: 1.14e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLV-GETGSGKTTQIPQWCVDYMRSLPGPKRGVACTQPRRVAAMSVAQRVADEMDVMLGQ 162
Cdd:cd17986     1 LPIWAAKFTFLEQLESPSGIVLVsGEPGSGKSTQVPQWCAEFALSRGFQKGQVTVTQPHPLAARSLALRVADEMDLNLGH 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 163 EVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATL 242
Cdd:cd17986    81 EVGYSIPQEDCTGPNTILRFCWDRLLLQEMTSTPLLGAWGVVVLDEAQERSVASDSLLGLLKDVRLQRPELRVVVVTSPA 160

                         170
                  ....*....|....*..
gi 1803761321 243 DAGKFQIYFDNCPLLTI 259
Cdd:cd17986   161 LEPKLRAFWGNPPVVHV 177
DEXHc_DHX34 cd17979
DEXH-box helicase domain of DEAH-box helicase 34; DEAH-box helicase 34 (DHX34) plays a role in ...
 84-259 8.94e-52

DEXH-box helicase domain of DEAH-box helicase 34; DEAH-box helicase 34 (DHX34) plays a role in the nonsense-mediated decay (NMD), a surveillance mechanism that degrades aberrant mRNAs. DHX34 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350737 [Multi-domain]  Cd Length: 170  Bit Score: 176.86  E-value: 8.94e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYmrslpgPKRGVACTQPRRVAAMSVAQRVADEMDVMLGQE 163
Cdd:cd17979     1 LPIAQYREKIIELLKTHQVVIVAGDTGCGKSTQVPQYLLAA------GFRHIACTQPRRIACISLAKRVAFESLNQYGSK 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 164 VGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATLD 243
Cdd:cd17979    75 VAYQIRFERTRTLATKLLFLTEGLLLRQIQRDASLPQYNVLILDEVHERHLHGDFLLGVLRCLLRLRPDLKLILMSATIN 154

                         170
                  ....*....|....*.
gi 1803761321 244 AGKFQIYFDNCPLLTI 259
Cdd:cd17979   155 IELFSGYFEGAPVVQV 170
DEXHc_DHX36 cd17981
DEXH-box helicase domain of DEAH-box helicase 36; DEAH-box helicase 36 (DHX36, also known as ...
 84-259 2.13e-50

DEXH-box helicase domain of DEAH-box helicase 36; DEAH-box helicase 36 (DHX36, also known as G4-resolvase 1 or G4R1, MLE-like protein 1 and RNA helicase associated with AU-rich element or RHAU) unwinds a G4-quadruplex in human telomerase RNA. DHX36 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350739 [Multi-domain]  Cd Length: 180  Bit Score: 173.49  E-value: 2.13e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVD-YMRSLPGPKRGVACTQPRRVAAMSVAQRVADEM--DVML 160
Cdd:cd17981     1 LPSYGMKQEIINMIDNNQVTVISGETGCGKTTQVTQFILDdAIERGKGSSCRIVCTQPRRISAISVAERVAAERaeSCGL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 161 GQEVGYSIRFEDCSSAK--TILkYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVM 238
Cdd:cd17981    81 GNSTGYQIRLESRKPRKqgSIL-YCTTGIVLQWLQSDPHLSNVSHLVLDEIHERNLQSDVLMGIVKDLLPFRSDLKVILM 159

                         170       180
                  ....*....|....*....|.
gi 1803761321 239 SATLDAGKFQIYFDNCPLLTI 259
Cdd:cd17981   160 SATLNAEKFSDYFNNCPMIHI 180
DEAH_box_HrpB TIGR01970
ATP-dependent helicase HrpB; This model represents HrpB, one of two related but ...
 84-306 4.08e-48

ATP-dependent helicase HrpB; This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273901 [Multi-domain]  Cd Length: 819  Bit Score: 181.89  E-value: 4.08e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYmrslPGPKRGVACTQPRRVAAMSVAQRVADEMDVMLGQE 163
Cdd:TIGR01970   1 LPIHAVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDA----PGIGGKIIMLEPRRLAARSAAQRLASQLGEAVGQT 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 164 VGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQ-RSDLKVIVMSATL 242
Cdd:TIGR01970  77 VGYRVRGENKVSRRTRLEVVTEGILTRMIQDDPELDGVGALIFDEFHERSLDADLGLALALDVQSSlREDLKILAMSATL 156

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1803761321 243 DAGKFQIYFDNCPLLTIPGRTHPVEIFYTPEPERDYLEAAIRTVIQiHMCEEEEGDLLLFLTGQ 306
Cdd:TIGR01970 157 DGERLSSLLPDAPVVESEGRSFPVEIRYLPLRGDQRLEDAVSRAVE-HALASETGSILVFLPGQ 219
DEXHc_DHX29 cd17975
DEXH-box helicase domain of DEAH-box helicase 29; DEAH-box helicase 29 (DHX29) is a part of ...
 84-259 3.43e-47

DEXH-box helicase domain of DEAH-box helicase 29; DEAH-box helicase 29 (DHX29) is a part of the 43S pre-initiation complex involved in translation initiation of mRNAs with structured 5'-UTRs. DHX29 is part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350733 [Multi-domain]  Cd Length: 183  Bit Score: 165.09  E-value: 3.43e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRSLPGPKR--GVACTQPRRVAAMSVAQRVADEmdvmLG 161
Cdd:cd17975     1 LPVFKHRESILETLKRHRVVVVAGETGSGKSTQVPQFLLEDLLLNGGTAQkcNIVCTQPRRISAMSLATRVCEE----LG 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 162 QE---------VGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSD 232
Cdd:cd17975    77 CEsgpggknslCGYQIRMESRTGEATRLLYCTTGVLLRKLQEDGLLSSISHIIVDEVHERSVQSDFLLIILKEILHKRSD 156

                         170       180
                  ....*....|....*....|....*..
gi 1803761321 233 LKVIVMSATLDAGKFQIYFDNCPLLTI 259
Cdd:cd17975   157 LHLILMSATVDCEKFSSYFTHCPILRI 183
DEXHc_YTHDC2 cd17987
DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) ...
 84-259 3.59e-47

DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) regulates mRNA translation and stability via binding to N6-methyladenosine, a modified RNA nucleotide enriched in the stop codons and 3' UTRs of eukaryotic messenger RNAs. YTHDC2 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350745 [Multi-domain]  Cd Length: 176  Bit Score: 164.62  E-value: 3.59e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRSLPGPKRgVACTQPRRVAAMSVAQRVADEMDVMLGQE 163
Cdd:cd17987     1 LPVFEKQEQIVRIIKENKVVLIVGETGSGKTTQIPQFLLDDCYANGIPCR-IFCTQPRRLAAIAVAERVAAERGEKIGQT 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 164 VGYSIRFEDCSSAKTILKYMTDGMLLREAMN-DPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATL 242
Cdd:cd17987    80 VGYQIRLESRVSPKTLLTFCTNGVLLRTLMAgDSALSTVTHVIVDEVHERDRFSDFLLTKLRDILQKHPNLKLILSSAAL 159

                         170
                  ....*....|....*..
gi 1803761321 243 DAGKFQIYFDNCPLLTI 259
Cdd:cd17987   160 DVNLFIRYFGSCPVIYI 176
DEXHc_HrpB cd17990
DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA ...
 84-257 4.76e-41

DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA two-partner secretion (TPS) system, a secretion pathway important to the secretion of large virulence-associated proteins. HrpB belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438711 [Multi-domain]  Cd Length: 174  Bit Score: 147.48  E-value: 4.76e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIP----QWCVDYMRSlpgpkrgVACTQPRRVAAMSVAQRVADEMDVM 159
Cdd:cd17990     1 LPIAAVLPALRAALDAGGQVVLEAPPGAGKTTRVPlallAELWIAGGK-------IIVLEPRRVAARAAARRLATLLGEA 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 160 LGQEVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEvVRQ--RSDLKVIV 237
Cdd:cd17990    74 PGETVGYRVRGESRVGRRTRVEVVTEGVLLRRLQRDPELSGVGAVILDEFHERSLDADLALALLLE-VQQllRDDLRLLA 152

                         170       180
                  ....*....|....*....|
gi 1803761321 238 MSATLDAGKFQIYFDNCPLL 257
Cdd:cd17990   153 MSATLDGDGLAALLPEAPVV 172
DEXHc_DHX30 cd17976
DEXH-box helicase domain of DEAH-box helicase 30; DEAH-box helicase 30 (DHX30) plays an ...
 84-259 5.70e-39

DEXH-box helicase domain of DEAH-box helicase 30; DEAH-box helicase 30 (DHX30) plays an important role in the assembly of the mitochondrial large ribosomal subunit. DHX30 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350734 [Multi-domain]  Cd Length: 178  Bit Score: 141.85  E-value: 5.70e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCV-DYMRSLPGPKRGVACTQPRRVAAMSVAQRVADEMDVMLGQ 162
Cdd:cd17976     1 LPVDSHKESILSAIEQNPVVVISGDTGCGKTTRIPQFILeDYVLRGRGARCNVVITQPRRISAVSVAQRVAHELGPNLRR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 163 EVGYSIRFEDCSSAKT-ILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSAT 241
Cdd:cd17976    81 NVGYQVRLESRPPPRGgALLFCTVGVLLKKLQSNPRLEGVSHVIVDEVHERDVNTDFLLILLKGVLQLNPELRVVLMSAT 160

                         170
                  ....*....|....*...
gi 1803761321 242 LDAGKFQIYFDNCPLLTI 259
Cdd:cd17976   161 GDNQRLSRYFGGCPVVRV 178
DEXHc_DHX9 cd17972
DEXH-box helicase domain of DEAH-box helicase 9; DEAH-box helicase 9 (DHX9, also known as ...
 72-259 7.94e-39

DEXH-box helicase domain of DEAH-box helicase 9; DEAH-box helicase 9 (DHX9, also known as ATP-dependent RNA helicase A or RHA and leukophysin or LKP) plays an important role in many cellular processes, including regulation of DNA replication, transcription, translation, microRNA biogenesis, RNA processing and transport, and maintenance of genomic stability. DHX9 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350730 [Multi-domain]  Cd Length: 234  Bit Score: 143.44  E-value: 7.94e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  72 PRYYDILKKRLQLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVD-YMRSLPGPKRGVACTQPRRVAAMSVAQ 150
Cdd:cd17972    47 HNLQQILQERELLPVKKFREEILEAISNNPVVIIRGATGCGKTTQVPQYILDdFIQNDRAAECNIVVTQPRRISAVSVAE 126

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 151 RVADEMDVMLGQEVGYSIRFEDCSSAK--TILkYMTDGMLLREAMNDplLERYGVIILDEAHERTLATDILMGVLKEVVR 228
Cdd:cd17972   127 RVAFERGEEVGKSCGYSVRFESVLPRPhaSIL-FCTVGVLLRKLEAG--IRGISHVIVDEIHERDINTDFLLVVLRDVVQ 203

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1803761321 229 QRSDLKVIVMSATLDAGKFQIYFDNCPLLTI 259
Cdd:cd17972   204 AYPDLRVILMSATIDTSMFCEYFFNCPVIEV 234
PRK11664 PRK11664
ATP-dependent RNA helicase HrpB; Provisional
 83-305 2.20e-35

ATP-dependent RNA helicase HrpB; Provisional


Pssm-ID: 236950 [Multi-domain]  Cd Length: 812  Bit Score: 143.53  E-value: 2.20e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  83 QLPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPqwcVDYMRSLPGPKRgVACTQPRRVAAMSVAQRVADEMDVMLGQ 162
Cdd:PRK11664    3 SLPVAAVLPELLTALKTAPQVLLKAPTGAGKSTWLP---LQLLQHGGINGK-IIMLEPRRLAARNVAQRLAEQLGEKPGE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 163 EVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVvrQ---RSDLKVIVMS 239
Cdd:PRK11664   79 TVGYRMRAESKVGPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLALALLLDV--QqglRDDLKLLIMS 156

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1803761321 240 ATLDAGKFQIYFDNCPLLTIPGRTHPVEIFYTPEPERDYLEAAIRTVIQiHMCEEEEGDLLLFLTG 305
Cdd:PRK11664  157 ATLDNDRLQQLLPDAPVIVSEGRSFPVERRYQPLPAHQRFDEAVARATA-ELLRQESGSLLLFLPG 221
DEXHc_TDRD9 cd17988
DEXH-box helicase domain of tudor domain containing 9; Tudor domain containing 9 (TDRD9, also ...
 84-251 1.03e-34

DEXH-box helicase domain of tudor domain containing 9; Tudor domain containing 9 (TDRD9, also known as HIG-1or NET54 or C14orf75) is a part of the nuclear PIWI-interacting RNA (piRNA) pathway essential for transposon silencing and male fertility TDRD9 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350746 [Multi-domain]  Cd Length: 180  Bit Score: 129.93  E-value: 1.03e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  84 LPVWEYKERFTDILIRHQSFVLVGETGSGKTTQIPQWCVDYMRslpgpKRGVAC----TQPRRVAAMSVAQRVADEMDVM 159
Cdd:cd17988     1 LPIYAKREEILSLIEANSVVIIKGATGCGKTTQLPQFILDHYY-----KRGKYCnivvTQPRRIAAISIARRVSQEREWT 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 160 LGQEVGYSIRFEDCSSAKTILKYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSD-LKVIVM 238
Cdd:cd17988    76 LGSLVGYQVGLERPASEETRLIYCTTGVLLQKLINNKTLTEYTHIILDEVHERDQELDFLLLVVRRLLRTNSRhVKIILM 155

                         170
                  ....*....|...
gi 1803761321 239 SATLDAGKFQIYF 251
Cdd:cd17988   156 SATISCKEFADYF 168
DEXDc smart00487
DEAD-like helicases superfamily;
78-269 6.39e-27

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 108.73  E-value: 6.39e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321   78 LKKRLQLPVWEYKERFTDILIRH-QSFVLVGETGSGKTTQIPQWCVDYMRSLPGPKrgVACTQPRRVAAMSVAQRVADEM 156
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGKGGR--VLVLVPTRELAEQWAEELKKLG 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  157 DVMLGQEVGY------SIRFEDCSSAKTILKYMTDGMLLREAMNDPL-LERYGVIILDEAHERT--LATDILMGVLKEVv 227
Cdd:smart00487  79 PSLGLKVVGLyggdskREQLRKLESGKTDILVTTPGRLLDLLENDKLsLSNVDLVILDEAHRLLdgGFGDQLEKLLKLL- 157

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*.
gi 1803761321  228 rqRSDLKVIVMSATL--DAGKFQIYFDNCPLLTIPGRT--HPVEIF 269
Cdd:smart00487 158 --PKNVQLLLLSATPpeEIENLLELFLNDPVFIDVGFTplEPIEQF 201
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 601-665 1.61e-22

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 91.93  E-value: 1.61e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 601 VAHLERTGH-YLTVKDNQVVQLHPSTVL----DHKPEWVLYNEFVLTTKNYIRTCTDIKPEWLVKIAPQY 665
Cdd:pfam07717  13 VARRDPKGKgYTTLSDNQRVFIHPSSVLfnekTFPPEWVVYQELVETTKVYIRTVTAISPEWLLLFAPHI 82
RT_nLTR_like cd01650
RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse ...
 354-466 1.33e-21

RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse transcriptase (RT). This subfamily contains both non-LTR retrotransposons and non-LTR retrovirus RTs. RTs catalyze the conversion of single-stranded RNA into double-stranded DNA for integration into host chromosomes. RT is a multifunctional enzyme with RNA-directed DNA polymerase, DNA directed DNA polymerase and ribonuclease hybrid (RNase H) activities.


Pssm-ID: 238827 [Multi-domain]  Cd Length: 220  Bit Score: 93.89  E-value: 1.33e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 354 WWPVMS---GVHQGSVLGPVLFNIFINDLDEGI-----------ECTLSKFADDTKLgrsvdLLQGRK-ALQRDLDRLDR 418
Cdd:cd01650    97 DHEFLLkalGVRQGDPLSPLLFNLALDDLLRLLnkeeeiklggpGITHLAYADDIVL-----FSEGKSrKLQELLQRLQE 171

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1803761321 419 WAEANCMRFNKAKCRVLHFGH-NNPMQRYRLGEEWLESCLVEKDLGVLV 466
Cdd:cd01650   172 WSKESGLKINPSKSKVMLIGNkKKRLKDITLNGTPIEAVETFKYLGVTI 220
RVT_1 pfam00078
Reverse transcriptase (RNA-dependent DNA polymerase); A reverse transcriptase gene is usually ...
 309-436 3.92e-11

Reverse transcriptase (RNA-dependent DNA polymerase); A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses.


Pssm-ID: 395031 [Multi-domain]  Cd Length: 189  Bit Score: 62.71  E-value: 3.92e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 309 LSSFFFfpihcSIQkLSGLyrLKCLVSFSkrLDLVILLVNGVKSSWWPVMSGVHQGSVLGPVLFNIFINDLDEGI----E 384
Cdd:pfam00078  61 LKKAFD-----QVP-LDEL--DRKLTAFT--TPPININWNGELSGGRYEWKGLPQGLVLSPALFQLFMNELLRPLrkraG 130

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1803761321 385 CTLSKFADDTKLgrsvdLLQGRKALQRDLDRLDRWAEANCMRFNKAKCRVLH 436
Cdd:pfam00078 131 LTLVRYADDILI-----FSKSEEEHQEALEEVLEWLKESGLKINPEKTQFFL 177
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 103-241 4.05e-10

N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily 2 helicases comprise a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This N-terminal domain contains the ATP-binding region.


Pssm-ID: 350668 [Multi-domain]  Cd Length: 146  Bit Score: 58.57  E-value: 4.05e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 103 FVLVGETGSGKTTQIPQWCVDYMRSlPGPKRGVACtqPRRVAAMSVAQRVADEMDvmLGQEVGYSIRFEDcSSAKTILK- 181
Cdd:cd00046     4 VLITAPTGSGKTLAALLAALLLLLK-KGKKVLVLV--PTKALALQTAERLRELFG--PGIRVAVLVGGSS-AEEREKNKl 77

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1803761321 182 ------YMTDGMLLR--EAMNDPLLERYGVIILDEAHERTLATD-ILMGVLKEVVRQRSDLKVIVMSAT 241
Cdd:cd00046    78 gdadiiIATPDMLLNllLREDRLFLKDLKLIIVDEAHALLIDSRgALILDLAVRKAGLKNAQVILLSAT 146
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
 264-345 6.71e-10

C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family members are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350178 [Multi-domain]  Cd Length: 171  Bit Score: 58.70  E-value: 6.71e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 264 HPVEIFYTPEP-----------ERDYLEAAIRTVIQIHmCEEEEGDLLLFLTGQEVlssffffpihcsIQKLSGlyRLKC 332
Cdd:cd18791     1 FPVEVYYLEDIlellgissekeDPDYVDAAVRLILQIH-RTEEPGDILVFLPGQEE------------IERLCE--LLRE 65

                          90
                  ....*....|...
gi 1803761321 333 LVSFSKRLDLVIL 345
Cdd:cd18791    66 ELLSPDLGKLLVL 78
PHA02653 PHA02653
RNA helicase NPH-II; Provisional
 95-289 5.03e-09

RNA helicase NPH-II; Provisional


Pssm-ID: 177443 [Multi-domain]  Cd Length: 675  Bit Score: 59.61  E-value: 5.03e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  95 DILIRHQSFVLVGETGSGKTTQIPQ--WCVDYM---------RSLPGPKRGVACTQPRR--VAAMSVAQRvademdvmlg 161
Cdd:PHA02653  174 EAWISRKPVVLTGGTGVGKTSQVPKllLWFNYLfggfdnldkIDPNFIERPIVLSLPRValVRLHSITLL---------- 243

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 162 qevgYSIRFEDCSSAKTILKY--MTDGMLLREAMNDPL-----------LERYGVIILDEAHERTLATDILMGVL-KEVV 227
Cdd:PHA02653  244 ----KSLGFDEIDGSPISLKYgsIPDELINTNPKPYGLvfsthkltlnkLFDYGTVIIDEVHEHDQIGDIIIAVArKHID 319

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 228 RQRSdlkVIVMSATL--DAGKFQIYFDNCPLLTIPGRT-HPV-EIF----YTPEPERDYLEAAIRTVIQI 289
Cdd:PHA02653  320 KIRS---LFLMTATLedDRDRIKEFFPNPAFVHIPGGTlFPIsEVYvknkYNPKNKRAYIEEEKKNIVTA 386
DEXHc_viral_Ns3 cd17931
DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional ...
 104-241 4.26e-08

DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional protein found in pestiviruses that contains an N-terminal protease and a C-terminal helicase. The N-terminal domain is a chymotrypsin-like serine protease, which is responsible for most of the maturation cleavages of the polyprotein precursor in the cytosolic side of the endoplasmic reticulum membrane. The C-terminal domain, about two-thirds of NS3, is a helicase belonging to superfamily 2 (SF2) thought to be important for unwinding highly structured regions of the RNA genome during replication. NS3 plays an essential role in viral polyprotein processing and genome replication. NS3 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350689 [Multi-domain]  Cd Length: 151  Bit Score: 52.94  E-value: 4.26e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 104 VLVGETGSGKTTQIPQwcvDYMRSLPGPKRGVACTQPRRVAAMSVAQrvademdVMLGQEVGY---SIRFEDcsSAKTIL 180
Cdd:cd17931     5 VLDLHPGAGKTTRVLP---QIIREAIKKRLRTLVLAPTRVVAAEMYE-------ALRGLPIRYrtgAVKEEH--GGNEIV 72

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1803761321 181 KYMTDGMLLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVrQRSDLKVIVMSAT 241
Cdd:cd17931    73 DYMCHGTFTCRLLSPKRVPNYNLIIMDEAHFTDPASIAARGYIHTRV-EMGEAAVIFMTAT 132
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 95-243 6.51e-08

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 52.63  E-value: 6.51e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321  95 DILIRHQSFVLVGETGSGKTT--QIPqwCVDYMRSLPGPKRGVaCTQPRRVAA---MSVAQRVADEMDVMLGQEVGYSIR 169
Cdd:pfam00270   9 PAILEGRDVLVQAPTGSGKTLafLLP--ALEALDKLDNGPQAL-VLAPTRELAeqiYEELKKLGKGLGLKVASLLGGDSR 85

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1803761321 170 FEDCSSAKTI-LKYMTDGMLLREAMNDPLLERYGVIILDEAHErtLATDILMGVLKEVVRQ-RSDLKVIVMSATLD 243
Cdd:pfam00270  86 KEQLEKLKGPdILVGTPGRLLDLLQERKLLKNLKLLVLDEAHR--LLDMGFGPDLEEILRRlPKKRQILLLSATLP 159
YkfC COG3344
Retron-type reverse transcriptase [Mobilome: prophages, transposons];
360-438 3.48e-04

Retron-type reverse transcriptase [Mobilome: prophages, transposons];


Pssm-ID: 442573 [Multi-domain]  Cd Length: 434  Bit Score: 43.53  E-value: 3.48e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 360 GVHQGSVLGPVLFNIFINDLDEGIE---CTLSKFADDtklgrSVDLLQGRKALQRDLDRLDRWAEANCMRFNKAKCRVLH 436
Cdd:COG3344   206 GTPQGGPLSPLLANIYLHELDKELErrgHRFVRYADD-----FVILCRSKRAAERVLESLTERLEKLGLELNPEKTRIVR 280


                  ..
gi 1803761321 437 FG 438
Cdd:COG3344   281 PG 282
RT_G2_intron cd01651
RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA ...
 329-439 3.95e-04

RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable element with both gag-like and pol-like genes. This subfamily of proteins appears to have captured the RT sequences from transposable elements, which lack long terminal repeats (LTRs).


Pssm-ID: 238828 [Multi-domain]  Cd Length: 226  Bit Score: 42.57  E-value: 3.95e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 329 RLKCLVSFSKRLDLVILLVNGVKSS---WWPVMSGVHQGSVLGPVLFNIFINDLDEGIECTLSK---------------- 389
Cdd:cd01651    92 ILKRRIGDKRVLRLIRKWLKAGVLEdgkLVETEKGTPQGGVISPLLANIYLHELDKFVEEKLKEyydtsdpkfrrlryvr 171

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 1803761321 390 FADDTklgrsVDLLQGRKALQRDLDRLDRWAEANCMRFNKAKCRVLHFGH 439
Cdd:cd01651   172 YADDF-----VIGVRGPKEAEEIKELIREFLEELGLELNPEKTRITHFKS 216
group_II_RT_mat TIGR04416
group II intron reverse transcriptase/maturase; Members of this protein family are ...
 359-436 2.81e-03

group II intron reverse transcriptase/maturase; Members of this protein family are multifunctional proteins encoded in most examples of bacterial group II introns. These group II introns are mobile selfish genetic elements, often with multiple highly identical copies per genome. Member proteins have an N-terminal reverse transcriptase (RNA-directed DNA polymerase) domain (pfam00078) followed by an RNA-binding maturase domain (pfam08388). Some members of this family may have an additional C-terminal DNA endonuclease domain that this model does not cover. A region of the group II intron ribozyme structure should be detectable nearby on the genome by Rfam model RF00029. [Mobile and extrachromosomal element functions, Other]


Pssm-ID: 275209 [Multi-domain]  Cd Length: 354  Bit Score: 40.52  E-value: 2.81e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 359 SGVHQGSVLGPVLFNIFINDLDE-----GIECTLSKFADDTK-LGRSvdllqgRKALQRDLDRLDRWAEANCMRFNKAKC 432
Cdd:TIGR04416 178 EGTPQGGVISPLLANIYLHYLDDewekrGYKVRFVRYADDFViLCRS------KEAAERVLEALTKRLEELGLELNPEKT 251


                  ....
gi 1803761321 433 RVLH 436
Cdd:TIGR04416 252 KIVH 255
AAA_22 pfam13401
AAA domain;
104-210 6.60e-03

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 37.32  E-value: 6.60e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1803761321 104 VLVGETGSGKTTQipqwCVDYMRSLPGPKRGVACTQPRrvAAMSVAqrvadEMDVMLGQEVGYSIRFEDCSSAktilkym 183
Cdd:pfam13401   9 VLTGESGTGKTTL----LRRLLEQLPEVRDSVVFVDLP--SGTSPK-----DLLRALLRALGLPLSGRLSKEE------- 70

                          90       100
                  ....*....|....*....|....*....
gi 1803761321 184 tdgmlLREAMNDPLLERY--GVIILDEAH 210
Cdd:pfam13401  71 -----LLAALQQLLLALAvaVVLIIDEAQ 94
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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