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Conserved domains on  [gi|2310695594|ref|WP_261674104|]
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MULTISPECIES: Rib/alpha-like domain-containing protein, partial [Staphylococcus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Rib super family cl48017
Rib domain; The region featured in this family is found repeated in a number of bacterial ...
 67-149 3.56e-08

Rib domain; The region featured in this family is found repeated in a number of bacterial surface proteins, such as Rib and alpha. These are expressed by group B streptococci, and Rib is thought to confer protective immunity.


The actual alignment was detected with superfamily member pfam08428:

Pssm-ID: 462474 [Multi-domain]  Cd Length: 76  Bit Score: 48.38  E-value: 3.56e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2310695594  67 QNDKYEPTAGEITKPYGS-ATTEDEVKGKVSVPDfpkegdqpVITVDTTKVPDGKTSGEFEVPVTVTYPDKTTDTVNVKV 145
Cdd:pfam08428   1 DADKYTPKGKDITVEVGEtPDAEDGIKNKDDLPE--------GTKYTWKTPPDTTTPGDKTGTVVVTYPDGSTDEVEVTV 72


                  ....
gi 2310695594 146 TVGP 149
Cdd:pfam08428  73 TVTD 76
Rib super family cl48017
Rib domain; The region featured in this family is found repeated in a number of bacterial ...
 15-64 7.53e-04

Rib domain; The region featured in this family is found repeated in a number of bacterial surface proteins, such as Rib and alpha. These are expressed by group B streptococci, and Rib is thought to confer protective immunity.


The actual alignment was detected with superfamily member pfam08428:

Pssm-ID: 462474 [Multi-domain]  Cd Length: 76  Bit Score: 36.82  E-value: 7.53e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2310695594  15 PADKGTPVVTVDDPTKV-----PNGQTPGEFDVPVTVTYPDGTRDHVTVKVTVTP 64
Cdd:pfam08428  22 AEDGIKNKDDLPEGTKYtwktpPDTTTPGDKTGTVVVTYPDGSTDEVEVTVTVTD 76
 
Name Accession Description Interval E-value
Rib pfam08428
Rib domain; The region featured in this family is found repeated in a number of bacterial ...
 67-149 3.56e-08

Rib domain; The region featured in this family is found repeated in a number of bacterial surface proteins, such as Rib and alpha. These are expressed by group B streptococci, and Rib is thought to confer protective immunity.


Pssm-ID: 462474 [Multi-domain]  Cd Length: 76  Bit Score: 48.38  E-value: 3.56e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2310695594  67 QNDKYEPTAGEITKPYGS-ATTEDEVKGKVSVPDfpkegdqpVITVDTTKVPDGKTSGEFEVPVTVTYPDKTTDTVNVKV 145
Cdd:pfam08428   1 DADKYTPKGKDITVEVGEtPDAEDGIKNKDDLPE--------GTKYTWKTPPDTTTPGDKTGTVVVTYPDGSTDEVEVTV 72


                  ....
gi 2310695594 146 TVGP 149
Cdd:pfam08428  73 TVTD 76
Rib pfam08428
Rib domain; The region featured in this family is found repeated in a number of bacterial ...
 15-64 7.53e-04

Rib domain; The region featured in this family is found repeated in a number of bacterial surface proteins, such as Rib and alpha. These are expressed by group B streptococci, and Rib is thought to confer protective immunity.


Pssm-ID: 462474 [Multi-domain]  Cd Length: 76  Bit Score: 36.82  E-value: 7.53e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2310695594  15 PADKGTPVVTVDDPTKV-----PNGQTPGEFDVPVTVTYPDGTRDHVTVKVTVTP 64
Cdd:pfam08428  22 AEDGIKNKDDLPEGTKYtwktpPDTTTPGDKTGTVVVTYPDGSTDEVEVTVTVTD 76
rib_alpha TIGR02331
Rib/alpha/Esp surface antigen repeat; Sequences in this family are tandem repeats of about 79 ...
 76-153 4.42e-03

Rib/alpha/Esp surface antigen repeat; Sequences in this family are tandem repeats of about 79 amino acids, present in up to 14 copies in a protein and highly identical, even at the DNA level, within each protein. Sequences with these repeats are found in the Rib and alpha surface antigens of group B Streptococcus, Esp of Enterococcus faecalis, and related proteins of Lactobacillus. The repeat lacks Cys residues. Most members of this protein family also have the cell wall anchor motif LPXTG shared by many staphyloccal and streptococcal surface antigens.


Pssm-ID: 131384 [Multi-domain]  Cd Length: 80  Bit Score: 34.85  E-value: 4.42e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2310695594  76 GEITKPYGSATTEDEVKGKVSVPDFPKEGDQPVITVDTTkvpdgkTSGEFEVPVTVTYPDKTTDTVNVKVTVGPKNSD 153
Cdd:TIGR02331   1 GETVEVGGTPDASDSITNLVDLPDGTTYVWKTVNTPDTN------TPGDKPAVVVVTYPDGTKDTVPVTVHVTPPRTD 72
 
Name Accession Description Interval E-value
Rib pfam08428
Rib domain; The region featured in this family is found repeated in a number of bacterial ...
 67-149 3.56e-08

Rib domain; The region featured in this family is found repeated in a number of bacterial surface proteins, such as Rib and alpha. These are expressed by group B streptococci, and Rib is thought to confer protective immunity.


Pssm-ID: 462474 [Multi-domain]  Cd Length: 76  Bit Score: 48.38  E-value: 3.56e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2310695594  67 QNDKYEPTAGEITKPYGS-ATTEDEVKGKVSVPDfpkegdqpVITVDTTKVPDGKTSGEFEVPVTVTYPDKTTDTVNVKV 145
Cdd:pfam08428   1 DADKYTPKGKDITVEVGEtPDAEDGIKNKDDLPE--------GTKYTWKTPPDTTTPGDKTGTVVVTYPDGSTDEVEVTV 72


                  ....
gi 2310695594 146 TVGP 149
Cdd:pfam08428  73 TVTD 76
Rib pfam08428
Rib domain; The region featured in this family is found repeated in a number of bacterial ...
 15-64 7.53e-04

Rib domain; The region featured in this family is found repeated in a number of bacterial surface proteins, such as Rib and alpha. These are expressed by group B streptococci, and Rib is thought to confer protective immunity.


Pssm-ID: 462474 [Multi-domain]  Cd Length: 76  Bit Score: 36.82  E-value: 7.53e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2310695594  15 PADKGTPVVTVDDPTKV-----PNGQTPGEFDVPVTVTYPDGTRDHVTVKVTVTP 64
Cdd:pfam08428  22 AEDGIKNKDDLPEGTKYtwktpPDTTTPGDKTGTVVVTYPDGSTDEVEVTVTVTD 76
rib_alpha TIGR02331
Rib/alpha/Esp surface antigen repeat; Sequences in this family are tandem repeats of about 79 ...
 76-153 4.42e-03

Rib/alpha/Esp surface antigen repeat; Sequences in this family are tandem repeats of about 79 amino acids, present in up to 14 copies in a protein and highly identical, even at the DNA level, within each protein. Sequences with these repeats are found in the Rib and alpha surface antigens of group B Streptococcus, Esp of Enterococcus faecalis, and related proteins of Lactobacillus. The repeat lacks Cys residues. Most members of this protein family also have the cell wall anchor motif LPXTG shared by many staphyloccal and streptococcal surface antigens.


Pssm-ID: 131384 [Multi-domain]  Cd Length: 80  Bit Score: 34.85  E-value: 4.42e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2310695594  76 GEITKPYGSATTEDEVKGKVSVPDFPKEGDQPVITVDTTkvpdgkTSGEFEVPVTVTYPDKTTDTVNVKVTVGPKNSD 153
Cdd:TIGR02331   1 GETVEVGGTPDASDSITNLVDLPDGTTYVWKTVNTPDTN------TPGDKPAVVVVTYPDGTKDTVPVTVHVTPPRTD 72
RibLong pfam18957
Long Rib domain; This entry represents the Long Rib domain that is closely related to the ...
 113-147 6.55e-03

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: 34.60  E-value: 6.55e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 2310695594 113 TTKVPDGKTSGEFEVPVTVTYPDKTTDTVNVKVTV 147
Cdd:pfam18957  57 TVTPPADAKPGDYEVPVTVTYPDGSTDTVTVTVTV 91
 
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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