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Conserved domains on  [gi|2589762927|ref|WP_314925156|]
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Rib/alpha-like domain-containing protein [Rothia mucilaginosa]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YPDG_rpt super family cl45668
YPDG domain; The YPDG domain may occur once in a protein, or up to 22 times in tandem repeats. ...
 284-360 4.44e-08

YPDG domain; The YPDG domain may occur once in a protein, or up to 22 times in tandem repeats. It is common in proteins of Gram-positive bacteria with C-terminal LPXTG sites for anchoring on the cell surface.


The actual alignment was detected with superfamily member NF038186:

Pssm-ID: 439498 [Multi-domain]  Cd Length: 98  Bit Score: 51.60  E-value: 4.44e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2589762927 284 NVGRGNAGQTVTINAPVSIDaKSGNARTsypIARGAKFRLAKNVPG---ASIDANTGVITYKIPAGTR--GTVDIPVAVD 358
Cdd:NF038186    8 EDGTVKPGETVKVPAPTFKD-KDGKAVD---VPEGTKFAPGDAAPEgwtVTVDEDTGEITVTAPEDAKpgDEVTVPVTVT 83


                  ..
gi 2589762927 359 YP 360
Cdd:NF038186   84 YP 85
 
Name Accession Description Interval E-value
YPDG_rpt NF038186
YPDG domain; The YPDG domain may occur once in a protein, or up to 22 times in tandem repeats. ...
 284-360 4.44e-08

YPDG domain; The YPDG domain may occur once in a protein, or up to 22 times in tandem repeats. It is common in proteins of Gram-positive bacteria with C-terminal LPXTG sites for anchoring on the cell surface.


Pssm-ID: 439498 [Multi-domain]  Cd Length: 98  Bit Score: 51.60  E-value: 4.44e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2589762927 284 NVGRGNAGQTVTINAPVSIDaKSGNARTsypIARGAKFRLAKNVPG---ASIDANTGVITYKIPAGTR--GTVDIPVAVD 358
Cdd:NF038186    8 EDGTVKPGETVKVPAPTFKD-KDGKAVD---VPEGTKFAPGDAAPEgwtVTVDEDTGEITVTAPEDAKpgDEVTVPVTVT 83


                  ..
gi 2589762927 359 YP 360
Cdd:NF038186   84 YP 85
RibLong pfam18957
Long Rib domain; This entry represents the Long Rib domain that is closely related to the ...
 288-360 1.68e-06

Long Rib domain; This entry represents the Long Rib domain that is closely related to the pfam08428 Rib domain but has a conserved insertion. These domains are found in bacterial cell surface proteins.


Pssm-ID: 436864 [Multi-domain]  Cd Length: 92  Bit Score: 46.93  E-value: 1.68e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2589762927 288 GNAGQTVTINAPvsidaksGNARTSYPiaRGAKFRLAKNVP-GASIDANTGVITYKIPAGTR-GTVDIPVAVDYP 360
Cdd:pfam18957  13 VKAGETVTVAAP-------TFDKDTLP--EGTTFTLGDDAPwWVTVDENTGEVTVTPPADAKpGDYEVPVTVTYP 78
 
Name Accession Description Interval E-value
YPDG_rpt NF038186
YPDG domain; The YPDG domain may occur once in a protein, or up to 22 times in tandem repeats. ...
 284-360 4.44e-08

YPDG domain; The YPDG domain may occur once in a protein, or up to 22 times in tandem repeats. It is common in proteins of Gram-positive bacteria with C-terminal LPXTG sites for anchoring on the cell surface.


Pssm-ID: 439498 [Multi-domain]  Cd Length: 98  Bit Score: 51.60  E-value: 4.44e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2589762927 284 NVGRGNAGQTVTINAPVSIDaKSGNARTsypIARGAKFRLAKNVPG---ASIDANTGVITYKIPAGTR--GTVDIPVAVD 358
Cdd:NF038186    8 EDGTVKPGETVKVPAPTFKD-KDGKAVD---VPEGTKFAPGDAAPEgwtVTVDEDTGEITVTAPEDAKpgDEVTVPVTVT 83


                  ..
gi 2589762927 359 YP 360
Cdd:NF038186   84 YP 85
RibLong pfam18957
Long Rib domain; This entry represents the Long Rib domain that is closely related to the ...
 288-360 1.68e-06

Long Rib domain; This entry represents the Long Rib domain that is closely related to the pfam08428 Rib domain but has a conserved insertion. These domains are found in bacterial cell surface proteins.


Pssm-ID: 436864 [Multi-domain]  Cd Length: 92  Bit Score: 46.93  E-value: 1.68e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2589762927 288 GNAGQTVTINAPvsidaksGNARTSYPiaRGAKFRLAKNVP-GASIDANTGVITYKIPAGTR-GTVDIPVAVDYP 360
Cdd:pfam18957  13 VKAGETVTVAAP-------TFDKDTLP--EGTTFTLGDDAPwWVTVDENTGEVTVTPPADAKpGDYEVPVTVTYP 78
 
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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