Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like ...
1144-1212
1.29e-12
Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like fold. Members of this family are found in a variety of bacterial surface proteins.
:
Pssm-ID: 400072 [Multi-domain] Cd Length: 67 Bit Score: 64.24 E-value: 1.29e-12
Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like ...
1055-1126
7.56e-12
Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like fold. Members of this family are found in a variety of bacterial surface proteins.
:
Pssm-ID: 400072 [Multi-domain] Cd Length: 67 Bit Score: 61.93 E-value: 7.56e-12
Gram-positive signal peptide, YSIRK family; Many surface proteins found in Streptococcus, ...
2-40
2.23e-10
Gram-positive signal peptide, YSIRK family; Many surface proteins found in Streptococcus, Staphylococcus, and related lineages share apparently homologous signal sequences. A motif resembling [YF]SIRKxxxGxxS[VIA] appears at the start of the transmembrane domain. The GxxS motif appears perfectly conserved, suggesting a specific function and not just homology. There is a strong correlation between proteins carrying this region at the N-terminus and those carrying the Gram-positive anchor domain with the LPXTG sortase processing site at the C-terminus.
:
Pssm-ID: 273479 [Multi-domain] Cd Length: 39 Bit Score: 57.11 E-value: 2.23e-10
SpGH101 family endo-alpha-N-acetylgalactosaminidase; Members of this family are streptococcal ...
1-162
2.17e-09
SpGH101 family endo-alpha-N-acetylgalactosaminidase; Members of this family are streptococcal surface proteins with a complex (and somewhat variable) architecture that includes a crosswall-targeting N-terminal YSIRK domain, a C-terminal cell wall-anchoring LPXTG domain, and a central endo-alpha-N-acetylgalactosaminidase that removes an O-linked disaccharide from host glycoproteins.
The actual alignment was detected with superfamily member NF040533:
Pssm-ID: 439743 [Multi-domain] Cd Length: 1694 Bit Score: 62.67 E-value: 2.17e-09
FIVAR domain; This domain is found in a wide variety of contexts, but mostly occurring in cell ...
1223-1287
1.52e-06
FIVAR domain; This domain is found in a wide variety of contexts, but mostly occurring in cell wall associated proteins. A lack of conserved catalytic residues suggests that it is a binding domain. From context, possible substrates are hyaluronate or fibronectin (personal obs: C Yeats). This is further evidenced by. Possibly the exact substrate is N-acetyl glucosamine. Finding it in the same protein as pfam05089 further supports this proposal. It is found in the C-terminal part of Swiss:O82833, which is removed during maturation. Some of the proteins it is found in are involved in methicillin resistance. The name FIVAR derives from Found In Various Architectures.
:
Pssm-ID: 400096 [Multi-domain] Cd Length: 69 Bit Score: 47.31 E-value: 1.52e-06
Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of ...
225-560
3.57e-93
Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the protein and N-acetylglucosamine 2 forms the reducing end of the released glycan. ENGase is a key enzyme in the processing of free oligosaccharides in the cytosol of eukaryotes. Oligosaccharides formed in the lumen of the endoplasmic reticulum are transported into the cytosol where they are catabolized by cytosolic ENGases and other enzymes, possibly to maximize the reutilization of the component sugars. ENGases have an eight-stranded alpha/beta barrel topology and are classified as a family 85 glycosyl hydrolase (GH85) domain. The GH85 ENGases are sequence-similar to the family 18 glycosyl hydrolases, also known as GH18 chitinases. An ENGase-like protein is also found in bacteria and is included in this alignment model.
Pssm-ID: 119364 Cd Length: 339 Bit Score: 305.38 E-value: 3.57e-93
Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like ...
1144-1212
1.29e-12
Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like fold. Members of this family are found in a variety of bacterial surface proteins.
Pssm-ID: 400072 [Multi-domain] Cd Length: 67 Bit Score: 64.24 E-value: 1.29e-12
Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like ...
1055-1126
7.56e-12
Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like fold. Members of this family are found in a variety of bacterial surface proteins.
Pssm-ID: 400072 [Multi-domain] Cd Length: 67 Bit Score: 61.93 E-value: 7.56e-12
Gram-positive signal peptide, YSIRK family; Many surface proteins found in Streptococcus, ...
2-40
2.23e-10
Gram-positive signal peptide, YSIRK family; Many surface proteins found in Streptococcus, Staphylococcus, and related lineages share apparently homologous signal sequences. A motif resembling [YF]SIRKxxxGxxS[VIA] appears at the start of the transmembrane domain. The GxxS motif appears perfectly conserved, suggesting a specific function and not just homology. There is a strong correlation between proteins carrying this region at the N-terminus and those carrying the Gram-positive anchor domain with the LPXTG sortase processing site at the C-terminus.
Pssm-ID: 273479 [Multi-domain] Cd Length: 39 Bit Score: 57.11 E-value: 2.23e-10
G5 domain; This domain is found in a wide range of extracellular proteins. It is found ...
1512-1581
3.03e-10
G5 domain; This domain is found in a wide range of extracellular proteins. It is found tandemly repeated in up to 8 copies. It is found in the N-terminus of peptidases belonging to the M26 family which cleave human IgA. The domain is also found in proteins involved in metabolism of bacterial cell walls suggesting this domain may have an adhesive function.
Pssm-ID: 462185 [Multi-domain] Cd Length: 75 Bit Score: 57.95 E-value: 3.03e-10
SpGH101 family endo-alpha-N-acetylgalactosaminidase; Members of this family are streptococcal ...
1-162
2.17e-09
SpGH101 family endo-alpha-N-acetylgalactosaminidase; Members of this family are streptococcal surface proteins with a complex (and somewhat variable) architecture that includes a crosswall-targeting N-terminal YSIRK domain, a C-terminal cell wall-anchoring LPXTG domain, and a central endo-alpha-N-acetylgalactosaminidase that removes an O-linked disaccharide from host glycoproteins.
Pssm-ID: 439743 [Multi-domain] Cd Length: 1694 Bit Score: 62.67 E-value: 2.17e-09
YSIRK type signal peptide; Many surface proteins found in Streptococcus, Staphylococcus, and ...
7-31
6.12e-08
YSIRK type signal peptide; Many surface proteins found in Streptococcus, Staphylococcus, and related lineages share apparently homologous signal sequences. A motif resembling [YF]SIRKxxxGxxS[VIA] appears at the start of the transmembrane domain. The GxxS motif appears perfectly conserved, suggesting a specific function and not just homology. There is a strong correlation between proteins carrying this region at the N-terminus and those carrying the Gram-positive anchor domain with the LPXTG sortase processing site at the C-terminus.
Pssm-ID: 428049 [Multi-domain] Cd Length: 26 Bit Score: 49.69 E-value: 6.12e-08
FIVAR domain; This domain is found in a wide variety of contexts, but mostly occurring in cell ...
1223-1287
1.52e-06
FIVAR domain; This domain is found in a wide variety of contexts, but mostly occurring in cell wall associated proteins. A lack of conserved catalytic residues suggests that it is a binding domain. From context, possible substrates are hyaluronate or fibronectin (personal obs: C Yeats). This is further evidenced by. Possibly the exact substrate is N-acetyl glucosamine. Finding it in the same protein as pfam05089 further supports this proposal. It is found in the C-terminal part of Swiss:O82833, which is removed during maturation. Some of the proteins it is found in are involved in methicillin resistance. The name FIVAR derives from Found In Various Architectures.
Pssm-ID: 400096 [Multi-domain] Cd Length: 69 Bit Score: 47.31 E-value: 1.52e-06
pneumococcal surface protein PspC, choline-binding form; The pneumococcal surface protein PspC, ...
7-215
4.14e-05
pneumococcal surface protein PspC, choline-binding form; The pneumococcal surface protein PspC, as described in Streptococcus pneumoniae, is a repetitive and highly variable protein, recognized by a conserved N-terminal domain and also by genomic location. This form, subgroup 1, has variable numbers of a choline-binding repeat in the C-terminal region, and is also known as choline-binding protein A. The other form, subgroup 2, is anchored covalently after cleavage by sortase at a C-terminal LPXTG site.
Pssm-ID: 468201 [Multi-domain] Cd Length: 684 Bit Score: 48.47 E-value: 4.14e-05
LPXTG-motif cell wall anchor domain; This model describes the LPXTG motif-containing region ...
1609-1642
2.99e-04
LPXTG-motif cell wall anchor domain; This model describes the LPXTG motif-containing region found at the C-terminus of many surface proteins of Streptococcus and Streptomyces species. Cleavage between the Thr and Gly by sortase or a related enzyme leads to covalent anchoring at the new C-terminal Thr to the cell wall. Hits that do not lie at the C-terminus or are not found in Gram-positive bacteria are probably false-positive. A common feature of this proteins containing this domain appears to be a high proportion of charged and zwitterionic residues immediatedly upstream of the LPXTG motif. This model differs from other descriptions of the LPXTG region by including a portion of that upstream charged region. [Cell envelope, Other]
Pssm-ID: 273478 [Multi-domain] Cd Length: 34 Bit Score: 39.38 E-value: 2.99e-04
Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of ...
225-560
3.57e-93
Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the protein and N-acetylglucosamine 2 forms the reducing end of the released glycan. ENGase is a key enzyme in the processing of free oligosaccharides in the cytosol of eukaryotes. Oligosaccharides formed in the lumen of the endoplasmic reticulum are transported into the cytosol where they are catabolized by cytosolic ENGases and other enzymes, possibly to maximize the reutilization of the component sugars. ENGases have an eight-stranded alpha/beta barrel topology and are classified as a family 85 glycosyl hydrolase (GH85) domain. The GH85 ENGases are sequence-similar to the family 18 glycosyl hydrolases, also known as GH18 chitinases. An ENGase-like protein is also found in bacteria and is included in this alignment model.
Pssm-ID: 119364 Cd Length: 339 Bit Score: 305.38 E-value: 3.57e-93
Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like ...
1144-1212
1.29e-12
Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like fold. Members of this family are found in a variety of bacterial surface proteins.
Pssm-ID: 400072 [Multi-domain] Cd Length: 67 Bit Score: 64.24 E-value: 1.29e-12
Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like ...
1055-1126
7.56e-12
Bacterial Ig-like domain (group 3); This family consists of bacterial domains with an Ig-like fold. Members of this family are found in a variety of bacterial surface proteins.
Pssm-ID: 400072 [Multi-domain] Cd Length: 67 Bit Score: 61.93 E-value: 7.56e-12
Gram-positive signal peptide, YSIRK family; Many surface proteins found in Streptococcus, ...
2-40
2.23e-10
Gram-positive signal peptide, YSIRK family; Many surface proteins found in Streptococcus, Staphylococcus, and related lineages share apparently homologous signal sequences. A motif resembling [YF]SIRKxxxGxxS[VIA] appears at the start of the transmembrane domain. The GxxS motif appears perfectly conserved, suggesting a specific function and not just homology. There is a strong correlation between proteins carrying this region at the N-terminus and those carrying the Gram-positive anchor domain with the LPXTG sortase processing site at the C-terminus.
Pssm-ID: 273479 [Multi-domain] Cd Length: 39 Bit Score: 57.11 E-value: 2.23e-10
G5 domain; This domain is found in a wide range of extracellular proteins. It is found ...
1512-1581
3.03e-10
G5 domain; This domain is found in a wide range of extracellular proteins. It is found tandemly repeated in up to 8 copies. It is found in the N-terminus of peptidases belonging to the M26 family which cleave human IgA. The domain is also found in proteins involved in metabolism of bacterial cell walls suggesting this domain may have an adhesive function.
Pssm-ID: 462185 [Multi-domain] Cd Length: 75 Bit Score: 57.95 E-value: 3.03e-10
SpGH101 family endo-alpha-N-acetylgalactosaminidase; Members of this family are streptococcal ...
1-162
2.17e-09
SpGH101 family endo-alpha-N-acetylgalactosaminidase; Members of this family are streptococcal surface proteins with a complex (and somewhat variable) architecture that includes a crosswall-targeting N-terminal YSIRK domain, a C-terminal cell wall-anchoring LPXTG domain, and a central endo-alpha-N-acetylgalactosaminidase that removes an O-linked disaccharide from host glycoproteins.
Pssm-ID: 439743 [Multi-domain] Cd Length: 1694 Bit Score: 62.67 E-value: 2.17e-09
YSIRK type signal peptide; Many surface proteins found in Streptococcus, Staphylococcus, and ...
7-31
6.12e-08
YSIRK type signal peptide; Many surface proteins found in Streptococcus, Staphylococcus, and related lineages share apparently homologous signal sequences. A motif resembling [YF]SIRKxxxGxxS[VIA] appears at the start of the transmembrane domain. The GxxS motif appears perfectly conserved, suggesting a specific function and not just homology. There is a strong correlation between proteins carrying this region at the N-terminus and those carrying the Gram-positive anchor domain with the LPXTG sortase processing site at the C-terminus.
Pssm-ID: 428049 [Multi-domain] Cd Length: 26 Bit Score: 49.69 E-value: 6.12e-08
FIVAR domain; This domain is found in a wide variety of contexts, but mostly occurring in cell ...
1223-1287
1.52e-06
FIVAR domain; This domain is found in a wide variety of contexts, but mostly occurring in cell wall associated proteins. A lack of conserved catalytic residues suggests that it is a binding domain. From context, possible substrates are hyaluronate or fibronectin (personal obs: C Yeats). This is further evidenced by. Possibly the exact substrate is N-acetyl glucosamine. Finding it in the same protein as pfam05089 further supports this proposal. It is found in the C-terminal part of Swiss:O82833, which is removed during maturation. Some of the proteins it is found in are involved in methicillin resistance. The name FIVAR derives from Found In Various Architectures.
Pssm-ID: 400096 [Multi-domain] Cd Length: 69 Bit Score: 47.31 E-value: 1.52e-06
pneumococcal surface protein PspC, choline-binding form; The pneumococcal surface protein PspC, ...
7-215
4.14e-05
pneumococcal surface protein PspC, choline-binding form; The pneumococcal surface protein PspC, as described in Streptococcus pneumoniae, is a repetitive and highly variable protein, recognized by a conserved N-terminal domain and also by genomic location. This form, subgroup 1, has variable numbers of a choline-binding repeat in the C-terminal region, and is also known as choline-binding protein A. The other form, subgroup 2, is anchored covalently after cleavage by sortase at a C-terminal LPXTG site.
Pssm-ID: 468201 [Multi-domain] Cd Length: 684 Bit Score: 48.47 E-value: 4.14e-05
LPXTG-motif cell wall anchor domain; This model describes the LPXTG motif-containing region ...
1609-1642
2.99e-04
LPXTG-motif cell wall anchor domain; This model describes the LPXTG motif-containing region found at the C-terminus of many surface proteins of Streptococcus and Streptomyces species. Cleavage between the Thr and Gly by sortase or a related enzyme leads to covalent anchoring at the new C-terminal Thr to the cell wall. Hits that do not lie at the C-terminus or are not found in Gram-positive bacteria are probably false-positive. A common feature of this proteins containing this domain appears to be a high proportion of charged and zwitterionic residues immediatedly upstream of the LPXTG motif. This model differs from other descriptions of the LPXTG region by including a portion of that upstream charged region. [Cell envelope, Other]
Pssm-ID: 273478 [Multi-domain] Cd Length: 34 Bit Score: 39.38 E-value: 2.99e-04
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.
of the residues that compose this conserved feature have been mapped to the query sequence.
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