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Conserved domains on  [gi|488615828|ref|WP_002552677|]
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MULTISPECIES: biopolymer transporter ExbD [Pseudomonas]

Protein Classification

ExbD/TolR family protein( domain architecture ID 10002890)

ExbD/TolR family protein similar to biopolymer transporter ExbD, part of a complex that energizes specific high-affinity receptors involved in regulating iron uptake

CATH:  3.30.420.270
Gene Ontology:  GO:0022857|GO:0055085

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ExbD COG0848
Biopolymer transport protein ExbD [Intracellular trafficking, secretion, and vesicular ...
 1-141 9.23e-38

Biopolymer transport protein ExbD [Intracellular trafficking, secretion, and vesicular transport];


:

Pssm-ID: 440609  Cd Length: 137  Bit Score: 125.01  E-value: 9.23e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488615828   1 MKF-RRRRPRENIDINLVSLIDVVFILLLFFIVTTTFTRETQLRVDLPQAVTGTPEVDasAKHLDIAINADGIFSLNNQL 79
Cdd:COG0848    1 MALsRRRRRREMAEINLTPLIDVMFVLLIFFMVTAPFLTPQGLKVDLPKASAAPPPKE--PEPLTVSIDADGQIYLNGEP 78

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488615828  80 LpknDLATLIEALQRESAGDTSLPLSISADGKTPHQSVITAMDAAGKLGFSHLRMTTVEATP 141
Cdd:COG0848   79 V---DLEELEARLKAALAANPDPEVVIRADKDVPYGDVVKVMDALRKAGITKVSLATEPKGG 137
 
Name Accession Description Interval E-value
ExbD COG0848
Biopolymer transport protein ExbD [Intracellular trafficking, secretion, and vesicular ...
 1-141 9.23e-38

Biopolymer transport protein ExbD [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 440609  Cd Length: 137  Bit Score: 125.01  E-value: 9.23e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488615828   1 MKF-RRRRPRENIDINLVSLIDVVFILLLFFIVTTTFTRETQLRVDLPQAVTGTPEVDasAKHLDIAINADGIFSLNNQL 79
Cdd:COG0848    1 MALsRRRRRREMAEINLTPLIDVMFVLLIFFMVTAPFLTPQGLKVDLPKASAAPPPKE--PEPLTVSIDADGQIYLNGEP 78

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488615828  80 LpknDLATLIEALQRESAGDTSLPLSISADGKTPHQSVITAMDAAGKLGFSHLRMTTVEATP 141
Cdd:COG0848   79 V---DLEELEARLKAALAANPDPEVVIRADKDVPYGDVVKVMDALRKAGITKVSLATEPKGG 137
ExbD pfam02472
Biopolymer transport protein ExbD/TolR; This group of proteins are membrane bound transport ...
 7-136 1.16e-27

Biopolymer transport protein ExbD/TolR; This group of proteins are membrane bound transport proteins essential for ferric ion uptake in bacteria. The Pfam family consists of ExbD, and TolR which are involved in TonB-dependent transport of various receptor bound substrates including colicins.


Pssm-ID: 426791  Cd Length: 128  Bit Score: 99.27  E-value: 1.16e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488615828    7 RPRENIDINLVSLIDVVFILLLFFIVTTTFTRETQLRVDLPQAVTGTPEVDasAKHLDIAINADGIFSLNNQLLPKNDLA 86
Cdd:pfam02472   1 KKEELAEINLTPLIDIMFVLLIFFLVTATLVPESVLKIDLPQSESGQNVVA--KEVLTISVDADGSIYLDGKPVSLEELE 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 488615828   87 tliEALQRESAGDTSLPLSISADGKTPHQSVITAMDAAGKLGFSHLRMTT 136
Cdd:pfam02472  79 ---AKLKELKKTDPDPTVVIRADKNVPYGDVVKVMDALKEAGIEKVSLAT 125
ExbD_2 TIGR02804
TonB system transport protein ExbD, group 2; Members of this family are Gram-negative ...
 14-136 6.16e-07

TonB system transport protein ExbD, group 2; Members of this family are Gram-negative bacterial inner membrane proteins, generally designated ExbD, related to the TolR family modeled by TIGRFAMs TIGR02801. Members always are encoded next to a protein designated ExbB (TIGR02797), related to the TolQ family modeled by TIGRFAMs TIGR02796. ExbD and ExbB together form a proton channel through which they can harness the proton-motive force to energize TonB, which in turn energizes TonB-dependent receptors in the outer membrane. TonB-dependent receptors with known specificity tend to import siderophores or vitamin B12. A TonB system and Tol-Pal system often will co-exist in a single bacterial genome.


Pssm-ID: 131851  Cd Length: 121  Bit Score: 45.25  E-value: 6.16e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488615828   14 INLVSLIDVVFILLLFFIVTTTFTRETQLRVDLPQAVTGTpEVDASAKHLDIAINADGIFSLNNQLLPKNDLATLIEALQ 93
Cdd:TIGR02804   4 LNIVPFIDIMLVLLAIVLIISTFIAQGKIQVNLPKASTAV-AFKSDELKLLITITADNQLYFNDKPISLEELEAEIAQLN 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 488615828   94 RESagdtslPLSISADGKTPHQSVITAMDAAGKLGFSHLRMTT 136
Cdd:TIGR02804  83 KDQ------KVTLKSDKEAKFQDFVTITDMLKAKEHENVQIVS 119
PRK11024 PRK11024
colicin uptake protein TolR; Provisional
 4-50 1.24e-05

colicin uptake protein TolR; Provisional


Pssm-ID: 236824  Cd Length: 141  Bit Score: 42.38  E-value: 1.24e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 488615828   4 RRRRPRENI--DINLVSLIDVVFILLLFFIVTTTFTreTQ-LRVDLPQAV 50
Cdd:PRK11024   3 ARGRGRRELksEINIVPLLDVLLVLLLIFMATAPII--TQsVEVDLPDAT 50
 
Name Accession Description Interval E-value
ExbD COG0848
Biopolymer transport protein ExbD [Intracellular trafficking, secretion, and vesicular ...
 1-141 9.23e-38

Biopolymer transport protein ExbD [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 440609  Cd Length: 137  Bit Score: 125.01  E-value: 9.23e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488615828   1 MKF-RRRRPRENIDINLVSLIDVVFILLLFFIVTTTFTRETQLRVDLPQAVTGTPEVDasAKHLDIAINADGIFSLNNQL 79
Cdd:COG0848    1 MALsRRRRRREMAEINLTPLIDVMFVLLIFFMVTAPFLTPQGLKVDLPKASAAPPPKE--PEPLTVSIDADGQIYLNGEP 78

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488615828  80 LpknDLATLIEALQRESAGDTSLPLSISADGKTPHQSVITAMDAAGKLGFSHLRMTTVEATP 141
Cdd:COG0848   79 V---DLEELEARLKAALAANPDPEVVIRADKDVPYGDVVKVMDALRKAGITKVSLATEPKGG 137
ExbD pfam02472
Biopolymer transport protein ExbD/TolR; This group of proteins are membrane bound transport ...
 7-136 1.16e-27

Biopolymer transport protein ExbD/TolR; This group of proteins are membrane bound transport proteins essential for ferric ion uptake in bacteria. The Pfam family consists of ExbD, and TolR which are involved in TonB-dependent transport of various receptor bound substrates including colicins.


Pssm-ID: 426791  Cd Length: 128  Bit Score: 99.27  E-value: 1.16e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488615828    7 RPRENIDINLVSLIDVVFILLLFFIVTTTFTRETQLRVDLPQAVTGTPEVDasAKHLDIAINADGIFSLNNQLLPKNDLA 86
Cdd:pfam02472   1 KKEELAEINLTPLIDIMFVLLIFFLVTATLVPESVLKIDLPQSESGQNVVA--KEVLTISVDADGSIYLDGKPVSLEELE 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 488615828   87 tliEALQRESAGDTSLPLSISADGKTPHQSVITAMDAAGKLGFSHLRMTT 136
Cdd:pfam02472  79 ---AKLKELKKTDPDPTVVIRADKNVPYGDVVKVMDALKEAGIEKVSLAT 125
ExbD_2 TIGR02804
TonB system transport protein ExbD, group 2; Members of this family are Gram-negative ...
 14-136 6.16e-07

TonB system transport protein ExbD, group 2; Members of this family are Gram-negative bacterial inner membrane proteins, generally designated ExbD, related to the TolR family modeled by TIGRFAMs TIGR02801. Members always are encoded next to a protein designated ExbB (TIGR02797), related to the TolQ family modeled by TIGRFAMs TIGR02796. ExbD and ExbB together form a proton channel through which they can harness the proton-motive force to energize TonB, which in turn energizes TonB-dependent receptors in the outer membrane. TonB-dependent receptors with known specificity tend to import siderophores or vitamin B12. A TonB system and Tol-Pal system often will co-exist in a single bacterial genome.


Pssm-ID: 131851  Cd Length: 121  Bit Score: 45.25  E-value: 6.16e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488615828   14 INLVSLIDVVFILLLFFIVTTTFTRETQLRVDLPQAVTGTpEVDASAKHLDIAINADGIFSLNNQLLPKNDLATLIEALQ 93
Cdd:TIGR02804   4 LNIVPFIDIMLVLLAIVLIISTFIAQGKIQVNLPKASTAV-AFKSDELKLLITITADNQLYFNDKPISLEELEAEIAQLN 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 488615828   94 RESagdtslPLSISADGKTPHQSVITAMDAAGKLGFSHLRMTT 136
Cdd:TIGR02804  83 KDQ------KVTLKSDKEAKFQDFVTITDMLKAKEHENVQIVS 119
PRK11024 PRK11024
colicin uptake protein TolR; Provisional
 4-50 1.24e-05

colicin uptake protein TolR; Provisional


Pssm-ID: 236824  Cd Length: 141  Bit Score: 42.38  E-value: 1.24e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 488615828   4 RRRRPRENI--DINLVSLIDVVFILLLFFIVTTTFTreTQ-LRVDLPQAV 50
Cdd:PRK11024   3 ARGRGRRELksEINIVPLLDVLLVLLLIFMATAPII--TQsVEVDLPDAT 50
PRK11267 PRK11267
biopolymer transport protein ExbD; Provisional
 10-129 3.78e-05

biopolymer transport protein ExbD; Provisional


Pssm-ID: 183064  Cd Length: 141  Bit Score: 40.88  E-value: 3.78e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488615828  10 ENIDINLVSLIDVVFILLLFFIVTTTFTrETQLRVDLPqAVTGTPEvDASAKHLDIAINADGIFSLNNQLLpknDLATLI 89
Cdd:PRK11267  14 EMHEINVTPFIDVMLVLLIIFMVAAPLA-TVDVKVNLP-ASTSTPQ-PRPEKPVYLSVKADNSMFIGNDPV---TDETMI 87

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 488615828  90 EALQRESAGDTSLPLSISADGKTPHQSVITAMDAAGKLGF 129
Cdd:PRK11267  88 TALDALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGY 127
 
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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