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Conserved domains on  [gi|16130903|ref|NP_417478|]
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Ton complex subunit ExbD [Escherichia coli str. K-12 substr. MG1655]

Protein Classification

TonB system transport protein ExbD( domain architecture ID 10013772)

TonB system transport protein ExbD is involved in the TonB-dependent energy-dependent transport of various receptor-bound substrates

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK11267 PRK11267
biopolymer transport protein ExbD; Provisional
 1-141 6.14e-96

biopolymer transport protein ExbD; Provisional


:

Pssm-ID: 183064  Cd Length: 141  Bit Score: 272.38  E-value: 6.14e-96
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903    1 MAMHLNENLDDNGEMHDINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDP 80
Cdd:PRK11267   1 MAMHLNENLDDNGEMHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDP 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 16130903   81 VTDETMITALNALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEETAKAK 141
Cdd:PRK11267  81 VTDETMITALDALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEETAKAK 141
 
Name Accession Description Interval E-value
PRK11267 PRK11267
biopolymer transport protein ExbD; Provisional
 1-141 6.14e-96

biopolymer transport protein ExbD; Provisional


Pssm-ID: 183064  Cd Length: 141  Bit Score: 272.38  E-value: 6.14e-96
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903    1 MAMHLNENLDDNGEMHDINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDP 80
Cdd:PRK11267   1 MAMHLNENLDDNGEMHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDP 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 16130903   81 VTDETMITALNALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEETAKAK 141
Cdd:PRK11267  81 VTDETMITALDALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEETAKAK 141
ExbD_1 TIGR02803
TonB system transport protein ExbD, group 1; Members of this family are Gram-negative ...
 15-136 5.80e-72

TonB system transport protein ExbD, group 1; 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: 131850  Cd Length: 122  Bit Score: 211.23  E-value: 5.80e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903    15 MHDINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDPVTDETMITALNALT 94
Cdd:TIGR02803   1 NHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVDLPASTAAPQPRPEKPVYVSVKADLSLFVGNDPVARETLGTALDALT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 16130903    95 EGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEE 136
Cdd:TIGR02803  81 EGDKDTTIFFRADKTVDYGDLMKVMNLLRQAGYLKIGLVGLE 122
ExbD COG0848
Biopolymer transport protein ExbD [Intracellular trafficking, secretion, and vesicular ...
 1-139 5.48e-45

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


Pssm-ID: 440609  Cd Length: 137  Bit Score: 143.49  E-value: 5.48e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903   1 MAMHLNenlDDNGEMHDINVTPFIDVMLVLLIIFMVAAPLATV-DVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGND 79
Cdd:COG0848   1 MALSRR---RRRREMAEINLTPLIDVMFVLLIFFMVTAPFLTPqGLKVDLPKASAAPPPKEPEPLTVSIDADGQIYLNGE 77

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903  80 PVTDETMITALNALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEETAK 139
Cdd:COG0848  78 PVDLEELEARLKAALAANPDPEVVIRADKDVPYGDVVKVMDALRKAGITKVSLATEPKGG 137
ExbD pfam02472
Biopolymer transport protein ExbD/TolR; This group of proteins are membrane bound transport ...
 11-135 1.57e-32

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: 111.59  E-value: 1.57e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903    11 DNGEMHDINVTPFIDVMLVLLIIFMVAAPLATVDV-KVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDPVTDETMITA 89
Cdd:pfam02472   1 KKEELAEINLTPLIDIMFVLLIFFLVTATLVPESVlKIDLPQSESGQNVVAKEVLTISVDADGSIYLDGKPVSLEELEAK 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 16130903    90 LNALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGE 135
Cdd:pfam02472  81 LKELKKTDPDPTVVIRADKNVPYGDVVKVMDALKEAGIEKVSLATE 126
 
Name Accession Description Interval E-value
PRK11267 PRK11267
biopolymer transport protein ExbD; Provisional
 1-141 6.14e-96

biopolymer transport protein ExbD; Provisional


Pssm-ID: 183064  Cd Length: 141  Bit Score: 272.38  E-value: 6.14e-96
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903    1 MAMHLNENLDDNGEMHDINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDP 80
Cdd:PRK11267   1 MAMHLNENLDDNGEMHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDP 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 16130903   81 VTDETMITALNALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEETAKAK 141
Cdd:PRK11267  81 VTDETMITALDALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEETAKAK 141
ExbD_1 TIGR02803
TonB system transport protein ExbD, group 1; Members of this family are Gram-negative ...
 15-136 5.80e-72

TonB system transport protein ExbD, group 1; 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: 131850  Cd Length: 122  Bit Score: 211.23  E-value: 5.80e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903    15 MHDINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDPVTDETMITALNALT 94
Cdd:TIGR02803   1 NHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVDLPASTAAPQPRPEKPVYVSVKADLSLFVGNDPVARETLGTALDALT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 16130903    95 EGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEE 136
Cdd:TIGR02803  81 EGDKDTTIFFRADKTVDYGDLMKVMNLLRQAGYLKIGLVGLE 122
ExbD COG0848
Biopolymer transport protein ExbD [Intracellular trafficking, secretion, and vesicular ...
 1-139 5.48e-45

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


Pssm-ID: 440609  Cd Length: 137  Bit Score: 143.49  E-value: 5.48e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903   1 MAMHLNenlDDNGEMHDINVTPFIDVMLVLLIIFMVAAPLATV-DVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGND 79
Cdd:COG0848   1 MALSRR---RRRREMAEINLTPLIDVMFVLLIFFMVTAPFLTPqGLKVDLPKASAAPPPKEPEPLTVSIDADGQIYLNGE 77

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903  80 PVTDETMITALNALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEETAK 139
Cdd:COG0848  78 PVDLEELEARLKAALAANPDPEVVIRADKDVPYGDVVKVMDALRKAGITKVSLATEPKGG 137
tolR TIGR02801
TolR protein; The model describes the inner membrane protein TolR, part of the TolR/TolQ ...
 15-135 4.62e-41

TolR protein; The model describes the inner membrane protein TolR, part of the TolR/TolQ complex that transduces energy from the proton-motive force, through TolA, to an outer membrane complex made up of TolB and Pal (peptidoglycan-associated lipoprotein). The complex is required to maintain outer membrane integrity, and defects may cause a defect in the import of some organic compounds in addition to the resulting morphologic. While several gene pairs homologous to talR and tolQ may be found in a single genome, but the scope of this model is set to favor finding only bone fide TolR, supported by operon structure as well as by score. [Transport and binding proteins, Other, Cellular processes, Pathogenesis]


Pssm-ID: 274306  Cd Length: 129  Bit Score: 133.12  E-value: 4.62e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903    15 MHDINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPE-KPVYLSVKADNSMFI------GNDPVTDETMI 87
Cdd:TIGR02801   2 MSEINVVPYVDVMLVLLIIFMVTAPLLTQGVKVDLPKSSAKPLQSKDkKPITVSVDADGKIYLndnkidKDEQLDADELL 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 16130903    88 TALNALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGE 135
Cdd:TIGR02801  82 AEIAAALAANPDTPVLIRADKTVPYGEVIKVMALLKQAGIEKVGLITE 129
ExbD pfam02472
Biopolymer transport protein ExbD/TolR; This group of proteins are membrane bound transport ...
 11-135 1.57e-32

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: 111.59  E-value: 1.57e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903    11 DNGEMHDINVTPFIDVMLVLLIIFMVAAPLATVDV-KVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDPVTDETMITA 89
Cdd:pfam02472   1 KKEELAEINLTPLIDIMFVLLIFFLVTATLVPESVlKIDLPQSESGQNVVAKEVLTISVDADGSIYLDGKPVSLEELEAK 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 16130903    90 LNALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGE 135
Cdd:pfam02472  81 LKELKKTDPDPTVVIRADKNVPYGDVVKVMDALKEAGIEKVSLATE 126
PRK11024 PRK11024
colicin uptake protein TolR; Provisional
 17-132 5.78e-18

colicin uptake protein TolR; Provisional


Pssm-ID: 236824  Cd Length: 141  Bit Score: 74.74  E-value: 5.78e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903   17 DINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEK--PVYLSVKADN--SMFIGNDPVTD--ETMITAL 90
Cdd:PRK11024  14 EINIVPLLDVLLVLLLIFMATAPIITQSVEVDLPDATESQAVSSNDnpPVIVEVSGVGqyTVVVDKDRMEQlpEEQVVAE 93

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 16130903   91 NALTEGKKDTTIFF-RADKTVDYETLMKVMDTLHQAGYLKIGL 132
Cdd:PRK11024  94 AKSRFKANPKTVFLiGGAKDVPYDEIIKALNLLHSAGVKSVGL 136
ExbD_2 TIGR02804
TonB system transport protein ExbD, group 2; Members of this family are Gram-negative ...
 18-136 6.63e-14

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: 63.74  E-value: 6.63e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130903    18 INVTPFIDVMLVLL-IIFMVAAPLATVDVKVNLP-ASTSTPQPRPEKPVYLSVKADNSMFIGNDPVTDETMITALNALTe 95
Cdd:TIGR02804   4 LNIVPFIDIMLVLLaIVLIISTFIAQGKIQVNLPkASTAVAFKSDELKLLITITADNQLYFNDKPISLEELEAEIAQLN- 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 16130903    96 gkKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEE 136
Cdd:TIGR02804  83 --KDQKVTLKSDKEAKFQDFVTITDMLKAKEHENVQIVSMK 121
 
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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