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Protein

Protein translocase subunit SecDF

Gene

secDF

Organism
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Conducts protons, which can be regulated by a proton gradient or by binding of an unfolded protein. Proton conduction requires the large periplasmic domain of the SecD.
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.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Protein transport, Translocation, Transport

Protein family/group databases

TCDBi2.A.6.4.3. the resistance-nodulation-cell division (rnd) superfamily.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein translocase subunit SecDF
Gene namesi
Name:secDF
Ordered Locus Names:TTHA0697
OrganismiThermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
Taxonomic identifieri300852 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus
Proteomesi
  • UP000000532 Componenti: Chromosome

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei1 – 24Helical; Name=1CuratedAdd BLAST24
Topological domaini25 – 268PeriplasmicCuratedAdd BLAST244
Transmembranei269 – 293Helical; Name=2CuratedAdd BLAST25
Transmembranei294 – 315Helical; Name=3CuratedAdd BLAST22
Topological domaini316 – 324PeriplasmicCurated9
Transmembranei325 – 347Helical; Name=4CuratedAdd BLAST23
Topological domaini348 – 360CytoplasmicCuratedAdd BLAST13
Transmembranei361 – 390Helical; Name=5CuratedAdd BLAST30
Topological domaini391 – 396PeriplasmicCurated6
Transmembranei397 – 425Helical; Name=6CuratedAdd BLAST29
Topological domaini426 – 444CytoplasmicCuratedAdd BLAST19
Transmembranei445 – 468Helical; Name=7CuratedAdd BLAST24
Topological domaini469 – 565PeriplasmicCuratedAdd BLAST97
Transmembranei566 – 589Helical; Name=8CuratedAdd BLAST24
Transmembranei590 – 615Helical; Name=9CuratedAdd BLAST26
Topological domaini616 – 620PeriplasmicCurated5
Transmembranei621 – 646Helical; Name=10CuratedAdd BLAST26
Topological domaini647 – 660CytoplasmicCuratedAdd BLAST14
Transmembranei661 – 688Helical; Name=11CuratedAdd BLAST28
Topological domaini689 – 692PeriplasmicCurated4
Transmembranei693 – 723Helical; Name=12CuratedAdd BLAST31
Topological domaini724 – 735CytoplasmicCuratedAdd BLAST12

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell inner membrane, Cell membrane, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi340D → N: Abolishes ion channel activity. 1 Publication1
Mutagenesisi637D → N: No effect on ion channel activity. 1 Publication1
Mutagenesisi671R → M: Abolishes ion channel activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004127131 – 735Protein translocase subunit SecDFAdd BLAST735

Interactioni

Subunit structurei

Part of the essential Sec protein translocation apparatus which comprises SecA, SecYEG and auxiliary protein SecDF. Other proteins may also be involved (By similarity). Monomer.By similarity1 Publication

Protein-protein interaction databases

STRINGi300852.TTHA0697.

Structurei

Secondary structure

1735
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi3 – 23Combined sources21
Helixi29 – 32Combined sources4
Turni38 – 40Combined sources3
Beta strandi43 – 49Combined sources7
Beta strandi51 – 53Combined sources3
Helixi56 – 73Combined sources18
Beta strandi79 – 83Combined sources5
Turni84 – 86Combined sources3
Beta strandi87 – 92Combined sources6
Helixi97 – 108Combined sources12
Beta strandi113 – 118Combined sources6
Helixi127 – 135Combined sources9
Helixi142 – 146Combined sources5
Helixi152 – 154Combined sources3
Beta strandi159 – 161Combined sources3
Helixi162 – 164Combined sources3
Beta strandi165 – 172Combined sources8
Turni174 – 176Combined sources3
Beta strandi178 – 184Combined sources7
Helixi186 – 198Combined sources13
Turni199 – 201Combined sources3
Beta strandi202 – 208Combined sources7
Beta strandi211 – 214Combined sources4
Beta strandi224 – 229Combined sources6
Helixi235 – 247Combined sources13
Beta strandi254 – 261Combined sources8
Helixi264 – 293Combined sources30
Helixi295 – 319Combined sources25
Helixi325 – 353Combined sources29
Turni354 – 356Combined sources3
Helixi359 – 390Combined sources32
Helixi395 – 428Combined sources34
Turni444 – 447Combined sources4
Helixi448 – 469Combined sources22
Helixi475 – 478Combined sources4
Beta strandi480 – 487Combined sources8
Helixi493 – 501Combined sources9
Turni502 – 504Combined sources3
Beta strandi507 – 509Combined sources3
Beta strandi511 – 515Combined sources5
Beta strandi523 – 530Combined sources8
Helixi534 – 547Combined sources14
Beta strandi548 – 550Combined sources3
Beta strandi554 – 558Combined sources5
Helixi560 – 588Combined sources29
Helixi591 – 615Combined sources25
Helixi621 – 651Combined sources31
Beta strandi653 – 655Combined sources3
Helixi657 – 689Combined sources33
Helixi692 – 725Combined sources34

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2RRNNMR-A470-559[»]
3AQOX-ray2.60A/B/C/D35-263[»]
3AQPX-ray3.30A/B1-735[»]
ProteinModelPortaliQ5SKE6.
SMRiQ5SKE6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 434SecDAdd BLAST434
Regioni112 – 248Required for proton transportAdd BLAST137
Regioni435 – 735SecFAdd BLAST301

Sequence similaritiesi

In the N-terminal section; belongs to the SecD/SecF family. SecD subfamily.Curated
In the C-terminal section; belongs to the SecD/SecF family. SecF subfamily.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG4105C3D. Bacteria.
COG0341. LUCA.
COG0342. LUCA.
HOGENOMiHOG000018636.
KOiK12257.
OMAiLLLGNWW.
PhylomeDBiQ5SKE6.

Family and domain databases

HAMAPiMF_01463_B. SecD_B. 1 hit.
MF_01464_B. SecF_B. 1 hit.
InterProiIPR005791. SecD.
IPR022813. SecD/SecF_arch_bac.
IPR022645. SecD/SecF_bac.
IPR022646. SecD/SecF_CS.
IPR005665. SecF_bac.
IPR000731. SSD.
[Graphical view]
PfamiPF07549. Sec_GG. 2 hits.
PF02355. SecD_SecF. 2 hits.
[Graphical view]
PRINTSiPR01755. SECFTRNLCASE.
TIGRFAMsiTIGR00916. 2A0604s01. 2 hits.
TIGR00966. 3a0501s07. 1 hit.
TIGR01129. secD. 1 hit.

Sequencei

Sequence statusi: Complete.

Q5SKE6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNRKNLTSLF LLGVFLLALL FVWKPWAPEE PKVRLGLDLK GGLRIVLEAD
60 70 80 90 100
VENPTLDDLE KARTVLENRI NALGVAEPLI QIQGQKRIVV ELPGLSQADQ
110 120 130 140 150
DRALKLIGQR AVLEFRIVKE GATGTTVAQI NQALRENPRL NREELEKDLI
160 170 180 190 200
KPEDLGPPLL TGADLADARA VFDQFGRPQV SLTFTPEGAK KFEEVTRQNI
210 220 230 240 250
GKRLAIVLDG RVYTAPVIRQ AITGGQAVIE GLSSVEEASE IALVLRSGSL
260 270 280 290 300
PVPLKVAEIR AIGPTLGQDA IQAGIRSALI GTLAIFLLIF AYYGPHLGLV
310 320 330 340 350
ASLGLLYTSA LILGLLSGLG ATLTLPGIAG LVLTLGAAVD GNVLSFERIK
360 370 380 390 400
EELRAGKKLR QAIPEGFRHS TLTIMDVNIA HLLAAAALYQ YATGPVRGFA
410 420 430 440 450
VILAIGVVAS VFSNLVFSRH LLERLADRGE IRPPMWLVDP RFNFMGPARY
460 470 480 490 500
VTAATLLLAA LAAGVVFAKG FNYSIDFTGG TAYTLRAEPN VEVETLRRFL
510 520 530 540 550
EEKGFPGKEA VITQVQAPTA AYREFLVKLP PLSDERRLEL ERLFASELKA
560 570 580 590 600
TVLASETVGP AIGEELRRNA VMAVLVGLGL ILLYVAFRFD WTFGVASILA
610 620 630 640 650
VAHDVAIVAG MYSLLGLEFS IPTIAALLTI VGYSINDSIV VSDRIRENQK
660 670 680 690 700
LLRHLPYAEL VNRSINQTLS RTVMTSLTTL LPILALLFLG GSVLRDFALA
710 720 730
IFVGIFVGTY SSIYVVSALV VAWKNRRKAQ EASKA
Length:735
Mass (Da):79,678
Last modified:December 21, 2004 - v1
Checksum:i6283A10A1163539D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP008226 Genomic DNA. Translation: BAD70520.1.
RefSeqiWP_011172795.1. NC_006461.1.
YP_143963.1. NC_006461.1.

Genome annotation databases

EnsemblBacteriaiBAD70520; BAD70520; BAD70520.
GeneIDi3168575.
KEGGittj:TTHA0697.
PATRICi23956371. VBITheThe93045_0691.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP008226 Genomic DNA. Translation: BAD70520.1.
RefSeqiWP_011172795.1. NC_006461.1.
YP_143963.1. NC_006461.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2RRNNMR-A470-559[»]
3AQOX-ray2.60A/B/C/D35-263[»]
3AQPX-ray3.30A/B1-735[»]
ProteinModelPortaliQ5SKE6.
SMRiQ5SKE6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi300852.TTHA0697.

Protein family/group databases

TCDBi2.A.6.4.3. the resistance-nodulation-cell division (rnd) superfamily.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAD70520; BAD70520; BAD70520.
GeneIDi3168575.
KEGGittj:TTHA0697.
PATRICi23956371. VBITheThe93045_0691.

Phylogenomic databases

eggNOGiENOG4105C3D. Bacteria.
COG0341. LUCA.
COG0342. LUCA.
HOGENOMiHOG000018636.
KOiK12257.
OMAiLLLGNWW.
PhylomeDBiQ5SKE6.

Family and domain databases

HAMAPiMF_01463_B. SecD_B. 1 hit.
MF_01464_B. SecF_B. 1 hit.
InterProiIPR005791. SecD.
IPR022813. SecD/SecF_arch_bac.
IPR022645. SecD/SecF_bac.
IPR022646. SecD/SecF_CS.
IPR005665. SecF_bac.
IPR000731. SSD.
[Graphical view]
PfamiPF07549. Sec_GG. 2 hits.
PF02355. SecD_SecF. 2 hits.
[Graphical view]
PRINTSiPR01755. SECFTRNLCASE.
TIGRFAMsiTIGR00916. 2A0604s01. 2 hits.
TIGR00966. 3a0501s07. 1 hit.
TIGR01129. secD. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiSECDF_THET8
AccessioniPrimary (citable) accession number: Q5SKE6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 21, 2011
Last sequence update: December 21, 2004
Last modified: November 2, 2016
This is version 78 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.