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Protein

Probable D,D-dipeptide transport system permease protein DdpB

Gene

ddpB

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Part of the ABC transporter complex DdpABCDF, which is probably involved in D,D-dipeptide transport. Probably responsible for the translocation of the substrate across the membrane.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Peptide transport, Protein transport, Transport

Enzyme and pathway databases

BioCyciEcoCyc:YDDR-MONOMER.
ECOL316407:JW1481-MONOMER.

Protein family/group databases

TCDBi3.A.1.5.38. the atp-binding cassette (abc) superfamily.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable D,D-dipeptide transport system permease protein DdpB
Gene namesi
Name:ddpB
Synonyms:yddR
Ordered Locus Names:b1486, JW1481
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13789. ddpB.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini1 – 11PeriplasmicSequence analysisAdd BLAST11
Transmembranei12 – 32HelicalPROSITE-ProRule annotationAdd BLAST21
Topological domaini33 – 104CytoplasmicSequence analysisAdd BLAST72
Transmembranei105 – 125HelicalPROSITE-ProRule annotationAdd BLAST21
Topological domaini126 – 135PeriplasmicSequence analysis10
Transmembranei136 – 156HelicalPROSITE-ProRule annotationAdd BLAST21
Topological domaini157 – 199CytoplasmicSequence analysisAdd BLAST43
Transmembranei200 – 220HelicalPROSITE-ProRule annotationAdd BLAST21
Topological domaini221 – 246PeriplasmicSequence analysisAdd BLAST26
Transmembranei247 – 269HelicalPROSITE-ProRule annotationAdd BLAST23
Topological domaini270 – 279CytoplasmicSequence analysis10
Transmembranei280 – 300HelicalPROSITE-ProRule annotationAdd BLAST21
Topological domaini301PeriplasmicSequence analysis1
Transmembranei302 – 322HelicalPROSITE-ProRule annotationAdd BLAST21
Topological domaini323 – 340CytoplasmicSequence analysisAdd BLAST18

GO - Cellular componenti

  • integral component of plasma membrane Source: GO_Central
  • plasma membrane Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cell inner membrane, Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000602461 – 340Probable D,D-dipeptide transport system permease protein DdpBAdd BLAST340

Proteomic databases

PaxDbiP77308.
PRIDEiP77308.

Expressioni

Inductioni

Induced by RpoS in stationary phase.1 Publication

Interactioni

Subunit structurei

The complex is composed of two ATP-binding proteins (DdpD and DdpF), two transmembrane proteins (DdpB and DdpC) and a solute-binding protein (DdpA).Curated

Protein-protein interaction databases

BioGridi4260211. 201 interactors.
DIPiDIP-11671N.
IntActiP77308. 2 interactors.
STRINGi511145.b1486.

Structurei

3D structure databases

ProteinModelPortaliP77308.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini97 – 327ABC transmembrane type-1PROSITE-ProRule annotationAdd BLAST231

Sequence similaritiesi

Contains 1 ABC transmembrane type-1 domain.PROSITE-ProRule annotation

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG4105CJM. Bacteria.
COG0601. LUCA.
HOGENOMiHOG000170242.
InParanoidiP77308.
KOiK02033.
OMAiAAWKHGT.
PhylomeDBiP77308.

Family and domain databases

CDDicd06261. TM_PBP2. 1 hit.
Gene3Di1.10.3720.10. 2 hits.
InterProiIPR000515. MetI-like.
[Graphical view]
PfamiPF00528. BPD_transp_1. 1 hit.
[Graphical view]
SUPFAMiSSF161098. SSF161098. 2 hits.
PROSITEiPS50928. ABC_TM1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P77308-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTFWSILRQR CWGLVLVVAG VCVITFIISH LIPGDPARLL AGDRASDAIV
60 70 80 90 100
ENIRQQLGLD QPLYVQFYRY VSDLFHGDLG TSIRTGRPVL EELRIFFPAT
110 120 130 140 150
LELAFGALLL ALLIGIPLGI LSAVWRNRWL DHLVRIMAIT GISTPAFWLG
160 170 180 190 200
LGVIVLFYGH LQILPGGGRL DDWLDPPTHV TGFYLLDALL EGNGEVFFNA
210 220 230 240 250
LQHLILPALT LAFVHLGIVA RQIRSAMLEQ LSEDYIRTAR ASGLPGWYIV
260 270 280 290 300
LCYALPNALI PSITVLGLAL GDLLYGAVLT ETVFAWPGMG AWVVTSIQAL
310 320 330 340
DFPAVMGFAV VVSFAYVLVN LVVDLLYLWI DPRIGRGGGE
Length:340
Mass (Da):37,345
Last modified:February 1, 1997 - v1
Checksum:i5E684D9B0400487A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC74559.1.
AP009048 Genomic DNA. Translation: BAA15141.1.
PIRiA64902.
RefSeqiNP_416003.1. NC_000913.3.
WP_000145123.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC74559; AAC74559; b1486.
BAA15141; BAA15141; BAA15141.
GeneIDi946044.
KEGGiecj:JW1481.
eco:b1486.
PATRICi32118266. VBIEscCol129921_1553.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC74559.1.
AP009048 Genomic DNA. Translation: BAA15141.1.
PIRiA64902.
RefSeqiNP_416003.1. NC_000913.3.
WP_000145123.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP77308.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4260211. 201 interactors.
DIPiDIP-11671N.
IntActiP77308. 2 interactors.
STRINGi511145.b1486.

Protein family/group databases

TCDBi3.A.1.5.38. the atp-binding cassette (abc) superfamily.

Proteomic databases

PaxDbiP77308.
PRIDEiP77308.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC74559; AAC74559; b1486.
BAA15141; BAA15141; BAA15141.
GeneIDi946044.
KEGGiecj:JW1481.
eco:b1486.
PATRICi32118266. VBIEscCol129921_1553.

Organism-specific databases

EchoBASEiEB3550.
EcoGeneiEG13789. ddpB.

Phylogenomic databases

eggNOGiENOG4105CJM. Bacteria.
COG0601. LUCA.
HOGENOMiHOG000170242.
InParanoidiP77308.
KOiK02033.
OMAiAAWKHGT.
PhylomeDBiP77308.

Enzyme and pathway databases

BioCyciEcoCyc:YDDR-MONOMER.
ECOL316407:JW1481-MONOMER.

Miscellaneous databases

PROiP77308.

Family and domain databases

CDDicd06261. TM_PBP2. 1 hit.
Gene3Di1.10.3720.10. 2 hits.
InterProiIPR000515. MetI-like.
[Graphical view]
PfamiPF00528. BPD_transp_1. 1 hit.
[Graphical view]
SUPFAMiSSF161098. SSF161098. 2 hits.
PROSITEiPS50928. ABC_TM1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDDPB_ECOLI
AccessioniPrimary (citable) accession number: P77308
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: February 1, 1997
Last modified: November 2, 2016
This is version 126 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.