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Protein

Protein translocase subunit SecD

Gene

secD

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

Functioni

Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA. The large periplasmic domain is thought to have a base and head domain joined by a hinge; movement of the hinge may be coupled to both proton transport and protein export, with the head domain capturing substrate, and a conformational change preventing backward movement and driving forward movement. Expression of V.alginolyticus SecD and SecF in E.coli confers Na+-dependent protein export, strongly suggesting SecDF functions via cation-coupled protein translocation.1 Publication

GO - Molecular functioni

GO - Biological processi

  • intracellular protein transmembrane transport Source: UniProtKB-HAMAP
  • protein targeting Source: UniProtKB-HAMAP
  • protein transport Source: EcoliWiki
  • protein transport by the Sec complex Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Biological processi

Protein transport, Translocation, Transport

Enzyme and pathway databases

BioCyciEcoCyc:SECD.
ECOL316407:JW0398-MONOMER.

Protein family/group databases

TCDBi2.A.6.4.1. the resistance-nodulation-cell division (rnd) superfamily.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein translocase subunit SecD
Gene namesi
Name:secD
Ordered Locus Names:b0408, JW0398
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10938. secD.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 99CytoplasmicCurated
Transmembranei10 – 2920HelicalCuratedAdd
BLAST
Topological domaini30 – 455426PeriplasmicCuratedAdd
BLAST
Transmembranei456 – 47217HelicalCuratedAdd
BLAST
Topological domaini473 – 4764CytoplasmicCurated
Topological domaini498 – 5014PeriplasmicCurated
Transmembranei502 – 51817HelicalCuratedAdd
BLAST
Topological domaini519 – 56345CytoplasmicCuratedAdd
BLAST
Transmembranei564 – 58017HelicalCuratedAdd
BLAST
Topological domaini581 – 5855PeriplasmicCurated
Transmembranei586 – 60520HelicalCuratedAdd
BLAST
Topological domaini606 – 61510CytoplasmicCurated

GO - Cellular componenti

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

Keywords - Cellular componenti

Cell inner membrane, Cell membrane, Membrane

Pathology & Biotechi

Disruption phenotypei

Disruption of both secD and SecF confers cold-sensitive growth (strain secD1(Cs)).1 Publication

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi519 – 5191D → N: Abolishes protein translocation. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 615615Protein translocase subunit SecDPRO_0000095960Add
BLAST

Proteomic databases

EPDiP0AG90.
PaxDbiP0AG90.
PRIDEiP0AG90.

Interactioni

Subunit structurei

Forms a complex with SecF. Part of the essential Sec protein translocation apparatus which comprises SecA, SecYEG and auxiliary proteins SecDF-YajC and YidC.

Binary interactionsi

WithEntry#Exp.IntActNotes
pheTP073953EBI-555724,EBI-555713

Protein-protein interaction databases

BioGridi4263096. 226 interactions.
DIPiDIP-35837N.
IntActiP0AG90. 10 interactions.
MINTiMINT-1309074.
STRINGi511145.b0408.

Structurei

3D structure databases

ProteinModelPortaliP0AG90.
SMRiP0AG90. Positions 233-604.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni279 – 426148Required for protein exportAdd
BLAST

Sequence similaritiesi

Belongs to the SecD/SecF family. SecD subfamily.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG4107QN8. Bacteria.
COG0342. LUCA.
HOGENOMiHOG000018637.
InParanoidiP0AG90.
KOiK03072.
OMAiAAPMEII.
PhylomeDBiP0AG90.

Family and domain databases

HAMAPiMF_01463_B. SecD_B. 1 hit.
InterProiIPR005791. SecD.
IPR027398. SecD-TM.
IPR022813. SecD/SecF_arch_bac.
IPR022645. SecD/SecF_bac.
IPR022646. SecD/SecF_CS.
[Graphical view]
PfamiPF07549. Sec_GG. 1 hit.
PF13721. SecD-TM1. 1 hit.
PF02355. SecD_SecF. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00916. 2A0604s01. 1 hit.
TIGR01129. secD. 1 hit.

Sequencei

Sequence statusi: Complete.

P0AG90-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLNRYPLWKY VMLIVVIVIG LLYALPNLFG EDPAVQITGA RGVAASEQTL
60 70 80 90 100
IQVQKTLQEE KITAKSVALE EGAILARFDS TDTQLRAREA LMGVMGDKYV
110 120 130 140 150
VALNLAPATP RWLAAIHAEP MKLGLDLRGG VHFLMEVDMD TALGKLQEQN
160 170 180 190 200
IDSLRSDLRE KGIPYTTVRK ENNYGLSITF RDAKARDEAI AYLSKRHPDL
210 220 230 240 250
VISSQGSNQL RAVMSDARLS EAREYAVQQN INILRNRVNQ LGVAEPVVQR
260 270 280 290 300
QGADRIVVEL PGIQDTARAK EILGATATLE FRLVNTNVDQ AAAASGRVPG
310 320 330 340 350
DSEVKQTREG QPVVLYKRVI LTGDHITDST SSQDEYNQPQ VNISLDSAGG
360 370 380 390 400
NIMSNFTKDN IGKPMATLFV EYKDSGKKDA NGRAVLVKQE EVINIANIQS
410 420 430 440 450
RLGNSFRITG INNPNEARQL SLLLRAGALI APIQIVEERT IGPTLGMQNI
460 470 480 490 500
EQGLEACLAG LLVSILFMII FYKKFGLIAT SALIANLILI VGIMSLLPGA
510 520 530 540 550
TLSMPGIAGI VLTLAVAVDA NVLINERIKE ELSNGRTVQQ AIDEGYRGAF
560 570 580 590 600
SSIFDANITT LIKVIILYAV GTGAIKGFAI TTGIGVATSM FTAIVGTRAI
610
VNLLYGGKRV KKLSI
Length:615
Mass (Da):66,632
Last modified:December 20, 2005 - v1
Checksum:i1099E6A9CC988EBE
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti78 – 781F → S in CAA39634 (PubMed:2170107).Curated
Sequence conflicti155 – 1551R → A in CAA39634 (PubMed:2170107).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X56175 Genomic DNA. Translation: CAA39634.1.
U82664 Genomic DNA. Translation: AAB40164.1.
U00096 Genomic DNA. Translation: AAC73511.1.
AP009048 Genomic DNA. Translation: BAE76188.1.
S68715 Genomic DNA. Translation: AAC60469.2.
PIRiH64769.
RefSeqiNP_414942.1. NC_000913.3.
WP_000934822.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73511; AAC73511; b0408.
BAE76188; BAE76188; BAE76188.
GeneIDi949133.
KEGGiecj:JW0398.
eco:b0408.
PATRICi32115965. VBIEscCol129921_0424.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X56175 Genomic DNA. Translation: CAA39634.1.
U82664 Genomic DNA. Translation: AAB40164.1.
U00096 Genomic DNA. Translation: AAC73511.1.
AP009048 Genomic DNA. Translation: BAE76188.1.
S68715 Genomic DNA. Translation: AAC60469.2.
PIRiH64769.
RefSeqiNP_414942.1. NC_000913.3.
WP_000934822.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP0AG90.
SMRiP0AG90. Positions 233-604.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4263096. 226 interactions.
DIPiDIP-35837N.
IntActiP0AG90. 10 interactions.
MINTiMINT-1309074.
STRINGi511145.b0408.

Protein family/group databases

TCDBi2.A.6.4.1. the resistance-nodulation-cell division (rnd) superfamily.

Proteomic databases

EPDiP0AG90.
PaxDbiP0AG90.
PRIDEiP0AG90.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73511; AAC73511; b0408.
BAE76188; BAE76188; BAE76188.
GeneIDi949133.
KEGGiecj:JW0398.
eco:b0408.
PATRICi32115965. VBIEscCol129921_0424.

Organism-specific databases

EchoBASEiEB0931.
EcoGeneiEG10938. secD.

Phylogenomic databases

eggNOGiENOG4107QN8. Bacteria.
COG0342. LUCA.
HOGENOMiHOG000018637.
InParanoidiP0AG90.
KOiK03072.
OMAiAAPMEII.
PhylomeDBiP0AG90.

Enzyme and pathway databases

BioCyciEcoCyc:SECD.
ECOL316407:JW0398-MONOMER.

Miscellaneous databases

PROiP0AG90.

Family and domain databases

HAMAPiMF_01463_B. SecD_B. 1 hit.
InterProiIPR005791. SecD.
IPR027398. SecD-TM.
IPR022813. SecD/SecF_arch_bac.
IPR022645. SecD/SecF_bac.
IPR022646. SecD/SecF_CS.
[Graphical view]
PfamiPF07549. Sec_GG. 1 hit.
PF13721. SecD-TM1. 1 hit.
PF02355. SecD_SecF. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00916. 2A0604s01. 1 hit.
TIGR01129. secD. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiSECD_ECOLI
AccessioniPrimary (citable) accession number: P0AG90
Secondary accession number(s): P19673
, P72348, P77531, Q2MC18
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: December 20, 2005
Last modified: September 7, 2016
This is version 89 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.