NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|507083753|ref|WP_016154501|]
View 

MULTISPECIES: TonB system transport protein ExbD [Citrobacter]

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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PRK11267 PRK11267
biopolymer transport protein ExbD; Provisional
 1-141 2.91e-91

biopolymer transport protein ExbD; Provisional


:

Pssm-ID: 183064  Cd Length: 141  Bit Score: 260.83  E-value: 2.91e-91
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753   1 MAMSFNENLDDNGEMHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADKSMFIGNNQ 80
Cdd:PRK11267   1 MAMHLNENLDDNGEMHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDP 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 507083753  81 VTDDTMISELNTLTDGKKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGLVGEETVKAK 141
Cdd:PRK11267  81 VTDETMITALDALTEGKKDTTIFFRADKTVDYETLMKVMDTLHQAGYLKIGLVGEETAKAK 141
 
Name Accession Description Interval E-value
PRK11267 PRK11267
biopolymer transport protein ExbD; Provisional
 1-141 2.91e-91

biopolymer transport protein ExbD; Provisional


Pssm-ID: 183064  Cd Length: 141  Bit Score: 260.83  E-value: 2.91e-91
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753   1 MAMSFNENLDDNGEMHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADKSMFIGNNQ 80
Cdd:PRK11267   1 MAMHLNENLDDNGEMHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDP 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 507083753  81 VTDDTMISELNTLTDGKKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGLVGEETVKAK 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 2.64e-68

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: 201.98  E-value: 2.64e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753   15 MHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADKSMFIGNNQVTDDTMISELNTLT 94
Cdd:TIGR02803   1 NHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVDLPASTAAPQPRPEKPVYVSVKADLSLFVGNDPVARETLGTALDALT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 507083753   95 DGKKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGLVGEE 136
Cdd:TIGR02803  81 EGDKDTTIFFRADKTVDYGDLMKVMNLLRQAGYLKIGLVGLE 122
ExbD COG0848
Biopolymer transport protein ExbD [Intracellular trafficking, secretion, and vesicular ...
 1-136 2.23e-43

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


Pssm-ID: 440609  Cd Length: 137  Bit Score: 139.26  E-value: 2.23e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753   1 MAMSFNenlDDNGEMHEINVTPFIDVMLVLLIIFMVAAPLATV-DVKVNLPASTSTPQPRPEKPVYLSVKADKSMFIGNN 79
Cdd:COG0848    1 MALSRR---RRRREMAEINLTPLIDVMFVLLIFFMVTAPFLTPqGLKVDLPKASAAPPPKEPEPLTVSIDADGQIYLNGE 77

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 507083753  80 QVTDDTMISELNTLTDGKKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGLVGEE 136
Cdd:COG0848   78 PVDLEELEARLKAALAANPDPEVVIRADKDVPYGDVVKVMDALRKAGITKVSLATEP 134
ExbD pfam02472
Biopolymer transport protein ExbD/TolR; This group of proteins are membrane bound transport ...
 11-135 3.64e-30

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: 105.43  E-value: 3.64e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753   11 DNGEMHEINVTPFIDVMLVLLIIFMVAAPLATVDV-KVNLPASTSTPQPRPEKPVYLSVKADKSMFIGNNQVTDDTMISE 89
Cdd:pfam02472   1 KKEELAEINLTPLIDIMFVLLIFFLVTATLVPESVlKIDLPQSESGQNVVAKEVLTISVDADGSIYLDGKPVSLEELEAK 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 507083753   90 LNTLTDGKKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGLVGE 135
Cdd:pfam02472  81 LKELKKTDPDPTVVIRADKNVPYGDVVKVMDALKEAGIEKVSLATE 126
 
Name Accession Description Interval E-value
PRK11267 PRK11267
biopolymer transport protein ExbD; Provisional
 1-141 2.91e-91

biopolymer transport protein ExbD; Provisional


Pssm-ID: 183064  Cd Length: 141  Bit Score: 260.83  E-value: 2.91e-91
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753   1 MAMSFNENLDDNGEMHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADKSMFIGNNQ 80
Cdd:PRK11267   1 MAMHLNENLDDNGEMHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADNSMFIGNDP 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 507083753  81 VTDDTMISELNTLTDGKKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGLVGEETVKAK 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 2.64e-68

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: 201.98  E-value: 2.64e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753   15 MHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEKPVYLSVKADKSMFIGNNQVTDDTMISELNTLT 94
Cdd:TIGR02803   1 NHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVDLPASTAAPQPRPEKPVYVSVKADLSLFVGNDPVARETLGTALDALT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 507083753   95 DGKKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGLVGEE 136
Cdd:TIGR02803  81 EGDKDTTIFFRADKTVDYGDLMKVMNLLRQAGYLKIGLVGLE 122
ExbD COG0848
Biopolymer transport protein ExbD [Intracellular trafficking, secretion, and vesicular ...
 1-136 2.23e-43

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


Pssm-ID: 440609  Cd Length: 137  Bit Score: 139.26  E-value: 2.23e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753   1 MAMSFNenlDDNGEMHEINVTPFIDVMLVLLIIFMVAAPLATV-DVKVNLPASTSTPQPRPEKPVYLSVKADKSMFIGNN 79
Cdd:COG0848    1 MALSRR---RRRREMAEINLTPLIDVMFVLLIFFMVTAPFLTPqGLKVDLPKASAAPPPKEPEPLTVSIDADGQIYLNGE 77

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 507083753  80 QVTDDTMISELNTLTDGKKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGLVGEE 136
Cdd:COG0848   78 PVDLEELEARLKAALAANPDPEVVIRADKDVPYGDVVKVMDALRKAGITKVSLATEP 134
tolR TIGR02801
TolR protein; The model describes the inner membrane protein TolR, part of the TolR/TolQ ...
 15-135 8.75e-43

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: 137.74  E-value: 8.75e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753   15 MHEINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPE-KPVYLSVKADKSMFI------GNNQVTDDTMI 87
Cdd:TIGR02801   2 MSEINVVPYVDVMLVLLIIFMVTAPLLTQGVKVDLPKSSAKPLQSKDkKPITVSVDADGKIYLndnkidKDEQLDADELL 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 507083753   88 SELNTLTDGKKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGLVGE 135
Cdd:TIGR02801  82 AEIAAALAANPDTPVLIRADKTVPYGEVIKVMALLKQAGIEKVGLITE 129
ExbD pfam02472
Biopolymer transport protein ExbD/TolR; This group of proteins are membrane bound transport ...
 11-135 3.64e-30

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: 105.43  E-value: 3.64e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753   11 DNGEMHEINVTPFIDVMLVLLIIFMVAAPLATVDV-KVNLPASTSTPQPRPEKPVYLSVKADKSMFIGNNQVTDDTMISE 89
Cdd:pfam02472   1 KKEELAEINLTPLIDIMFVLLIFFLVTATLVPESVlKIDLPQSESGQNVVAKEVLTISVDADGSIYLDGKPVSLEELEAK 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 507083753   90 LNTLTDGKKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGLVGE 135
Cdd:pfam02472  81 LKELKKTDPDPTVVIRADKNVPYGDVVKVMDALKEAGIEKVSLATE 126
PRK11024 PRK11024
colicin uptake protein TolR; Provisional
 17-132 4.78e-19

colicin uptake protein TolR; Provisional


Pssm-ID: 236824  Cd Length: 141  Bit Score: 77.44  E-value: 4.78e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753  17 EINVTPFIDVMLVLLIIFMVAAPLATVDVKVNLPASTSTPQPRPEK--PVYLSVKADK--SMFIGNN---QVTDDTMISE 89
Cdd:PRK11024  14 EINIVPLLDVLLVLLLIFMATAPIITQSVEVDLPDATESQAVSSNDnpPVIVEVSGVGqyTVVVDKDrmeQLPEEQVVAE 93

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 507083753  90 LNTLTDGKKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGL 132
Cdd:PRK11024  94 AKSRFKANPKTVFLIGGAKDVPYDEIIKALNLLHSAGVKSVGL 136
ExbD_2 TIGR02804
TonB system transport protein ExbD, group 2; Members of this family are Gram-negative ...
 17-136 8.61e-13

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: 60.66  E-value: 8.61e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507083753   17 EINVTPFIDVMLVLL-IIFMVAAPLATVDVKVNLP-ASTSTPQPRPEKPVYLSVKADKSMFIGNNQVTDDTMISELNTLT 94
Cdd:TIGR02804   3 GLNIVPFIDIMLVLLaIVLIISTFIAQGKIQVNLPkASTAVAFKSDELKLLITITADNQLYFNDKPISLEELEAEIAQLN 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 507083753   95 dgkKDTTIFFRADKTVDYETMMKVMDTLHQAGFLKIGLVGEE 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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH