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Conserved domains on  [gi|759600153|ref|WP_043318442|]
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YjbF family lipoprotein [Pseudomonas sp. PI1]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YjbF super family cl12659
Group 4 capsule polysaccharide lipoprotein gfcB, YjbF; This family includes lipoprotein GfcB ...
 27-211 4.93e-40

Group 4 capsule polysaccharide lipoprotein gfcB, YjbF; This family includes lipoprotein GfcB (YmcC), involved in group 4 capsule polysaccharide formation. YjbF is a family of Gram-negative bacterial outer-membrane lipoproteins, predicted to be a beta-barrel and possibly a porin that is one of four gene-products expressed from an operon, yjbEFGH, which is regulated by the Rcs phosphorelay in a RcsA-dependent manner, similar to that of other exopolysaccharide biosynthetic pathways. It is highly possible that the yjbEFGH operon encodes a system involved in EPS secretion since none of the products is predicted to have enzymic activity, the products are all secreted and YbjF and H are predicted to be beta-barrel lipoproteins similar to porins. It may be that the operon products play some role in biofilm formation and/or matrix production.


The actual alignment was detected with superfamily member pfam11102:

Pssm-ID: 431654  Cd Length: 189  Bit Score: 135.57  E-value: 4.93e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 759600153   27 WDTLRAATQGPKPLELTQAQVDAVPYYQI--KLQTQGGEAVMALVRQQGDLQFWLASTRQVLMMRDGLVVRTTGFGDNLA 104
Cdd:pfam11102   1 GDTLRAAFFGNDDVELTREQIQALPYASIyvKVGDGPQAFVVLAYAENGPQLKWVSADKAMLVTRNGRLVKTRGLGNNLL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 759600153  105 GTRLGADSPFHTGLHKLADGQRSERWIDLASWYRLGIP-VQSSFHKVGLERVSILERDYDLLRVDEDIRAPLLGFSATNK 183
Cdd:pfam11102  81 SVSNLEQDPLILPLLAASGPTRWQRRYDWQPGYRYGYLtADSTFRRAGKETITILGTPIETTVFVESVTVPALGGRFTNQ 160

                         170       180
                  ....*....|....*....|....*....
gi 759600153  184 YWVDPKDGFVMQSLQQVTPDL-QVAITQL 211
Cdd:pfam11102 161 YWVDSASGTVWKSRQWLGPNLgPLEITLL 189
 
Name Accession Description Interval E-value
YjbF pfam11102
Group 4 capsule polysaccharide lipoprotein gfcB, YjbF; This family includes lipoprotein GfcB ...
 27-211 4.93e-40

Group 4 capsule polysaccharide lipoprotein gfcB, YjbF; This family includes lipoprotein GfcB (YmcC), involved in group 4 capsule polysaccharide formation. YjbF is a family of Gram-negative bacterial outer-membrane lipoproteins, predicted to be a beta-barrel and possibly a porin that is one of four gene-products expressed from an operon, yjbEFGH, which is regulated by the Rcs phosphorelay in a RcsA-dependent manner, similar to that of other exopolysaccharide biosynthetic pathways. It is highly possible that the yjbEFGH operon encodes a system involved in EPS secretion since none of the products is predicted to have enzymic activity, the products are all secreted and YbjF and H are predicted to be beta-barrel lipoproteins similar to porins. It may be that the operon products play some role in biofilm formation and/or matrix production.


Pssm-ID: 431654  Cd Length: 189  Bit Score: 135.57  E-value: 4.93e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 759600153   27 WDTLRAATQGPKPLELTQAQVDAVPYYQI--KLQTQGGEAVMALVRQQGDLQFWLASTRQVLMMRDGLVVRTTGFGDNLA 104
Cdd:pfam11102   1 GDTLRAAFFGNDDVELTREQIQALPYASIyvKVGDGPQAFVVLAYAENGPQLKWVSADKAMLVTRNGRLVKTRGLGNNLL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 759600153  105 GTRLGADSPFHTGLHKLADGQRSERWIDLASWYRLGIP-VQSSFHKVGLERVSILERDYDLLRVDEDIRAPLLGFSATNK 183
Cdd:pfam11102  81 SVSNLEQDPLILPLLAASGPTRWQRRYDWQPGYRYGYLtADSTFRRAGKETITILGTPIETTVFVESVTVPALGGRFTNQ 160

                         170       180
                  ....*....|....*....|....*....
gi 759600153  184 YWVDPKDGFVMQSLQQVTPDL-QVAITQL 211
Cdd:pfam11102 161 YWVDSASGTVWKSRQWLGPNLgPLEITLL 189
 
Name Accession Description Interval E-value
YjbF pfam11102
Group 4 capsule polysaccharide lipoprotein gfcB, YjbF; This family includes lipoprotein GfcB ...
 27-211 4.93e-40

Group 4 capsule polysaccharide lipoprotein gfcB, YjbF; This family includes lipoprotein GfcB (YmcC), involved in group 4 capsule polysaccharide formation. YjbF is a family of Gram-negative bacterial outer-membrane lipoproteins, predicted to be a beta-barrel and possibly a porin that is one of four gene-products expressed from an operon, yjbEFGH, which is regulated by the Rcs phosphorelay in a RcsA-dependent manner, similar to that of other exopolysaccharide biosynthetic pathways. It is highly possible that the yjbEFGH operon encodes a system involved in EPS secretion since none of the products is predicted to have enzymic activity, the products are all secreted and YbjF and H are predicted to be beta-barrel lipoproteins similar to porins. It may be that the operon products play some role in biofilm formation and/or matrix production.


Pssm-ID: 431654  Cd Length: 189  Bit Score: 135.57  E-value: 4.93e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 759600153   27 WDTLRAATQGPKPLELTQAQVDAVPYYQI--KLQTQGGEAVMALVRQQGDLQFWLASTRQVLMMRDGLVVRTTGFGDNLA 104
Cdd:pfam11102   1 GDTLRAAFFGNDDVELTREQIQALPYASIyvKVGDGPQAFVVLAYAENGPQLKWVSADKAMLVTRNGRLVKTRGLGNNLL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 759600153  105 GTRLGADSPFHTGLHKLADGQRSERWIDLASWYRLGIP-VQSSFHKVGLERVSILERDYDLLRVDEDIRAPLLGFSATNK 183
Cdd:pfam11102  81 SVSNLEQDPLILPLLAASGPTRWQRRYDWQPGYRYGYLtADSTFRRAGKETITILGTPIETTVFVESVTVPALGGRFTNQ 160

                         170       180
                  ....*....|....*....|....*....
gi 759600153  184 YWVDPKDGFVMQSLQQVTPDL-QVAITQL 211
Cdd:pfam11102 161 YWVDSASGTVWKSRQWLGPNLgPLEITLL 189
 
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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