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Protein

Protein translocase subunit SecY

Gene

secY

Organism
Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei75Pore ring1
Sitei79Pore ring1
Sitei174Pore ring1
Sitei179Pore ring1
Sitei260Pore ring1
Sitei406Pore ring1

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Protein transport, Translocation, Transport

Names & Taxonomyi

Protein namesi
Recommended name:
Protein translocase subunit SecY
Alternative name(s):
Protein transport protein SEC61 subunit alpha homolog
Gene namesi
Name:secY
Ordered Locus Names:MJ0478
OrganismiMethanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
Taxonomic identifieri243232 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanococciMethanococcalesMethanocaldococcaceaeMethanocaldococcus
Proteomesi
  • UP000000805 Componenti: Chromosome

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini1 – 28CytoplasmicAdd BLAST28
Transmembranei29 – 46Helical; Name=Helix 1Add BLAST18
Topological domaini47 – 55Extracellular9
Transmembranei56 – 88Discontinuously helical; Name=Helix 2Add BLAST33
Intramembranei56 – 63Helical; Name=Helix 2A8
Intramembranei64 – 696
Intramembranei70 – 88Helical; Name=Helix 2BAdd BLAST19
Topological domaini89 – 110CytoplasmicAdd BLAST22
Transmembranei111 – 129Helical; Name=Helix 3Add BLAST19
Topological domaini130 – 140ExtracellularAdd BLAST11
Transmembranei141 – 161Helical; Name=Helix 4Add BLAST21
Topological domaini162 – 168Cytoplasmic7
Transmembranei169 – 191Helical; Name=Helix 5Add BLAST23
Topological domaini192 – 209ExtracellularAdd BLAST18
Transmembranei210 – 227Helical; Name=Helix 6Add BLAST18
Topological domaini228 – 255CytoplasmicAdd BLAST28
Transmembranei256 – 277Helical; Name=Helix 7Add BLAST22
Topological domaini278 – 312ExtracellularAdd BLAST35
Transmembranei313 – 331Helical; Name=Helix 8Add BLAST19
Topological domaini332 – 382CytoplasmicAdd BLAST51
Transmembranei383 – 397Helical; Name=Helix 9Add BLAST15
Topological domaini398Extracellular1
Transmembranei399 – 412Helical; Name=Helix 10Add BLAST14
Topological domaini413 – 436CytoplasmicAdd BLAST24

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001317641 – 436Protein translocase subunit SecYAdd BLAST436

Interactioni

Subunit structurei

Component of the Sec protein translocase complex. Heterotrimer consisting of alpha (SecY), beta (SecG) and gamma (SecE) subunits. The heterotrimers can form oligomers, although 1 heterotrimer is thought to be able to translocate proteins. Interacts with the ribosome. May interact with SecDF, and other proteins may be involved.1 Publication

Protein-protein interaction databases

STRINGi243232.MJ_0478.

Structurei

Secondary structure

1436
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi5 – 10Combined sources6
Helixi23 – 40Combined sources18
Helixi54 – 57Combined sources4
Helixi59 – 63Combined sources5
Turni70 – 75Combined sources6
Helixi76 – 91Combined sources16
Helixi101 – 128Combined sources28
Beta strandi131 – 133Combined sources3
Helixi137 – 164Combined sources28
Beta strandi165 – 167Combined sources3
Helixi169 – 187Combined sources19
Helixi192 – 199Combined sources8
Turni200 – 203Combined sources4
Helixi207 – 209Combined sources3
Helixi211 – 226Combined sources16
Beta strandi230 – 234Combined sources5
Beta strandi238 – 240Combined sources3
Beta strandi246 – 251Combined sources6
Helixi253 – 255Combined sources3
Helixi257 – 277Combined sources21
Beta strandi289 – 295Combined sources7
Helixi298 – 300Combined sources3
Beta strandi305 – 307Combined sources3
Helixi313 – 338Combined sources26
Helixi342 – 348Combined sources7
Beta strandi356 – 359Combined sources4
Helixi363 – 395Combined sources33
Helixi402 – 419Combined sources18
Beta strandi427 – 429Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1RH5X-ray3.20A1-436[»]
1RHZX-ray3.50A1-436[»]
2YXQX-ray3.50A1-436[»]
2YXRX-ray3.60A1-436[»]
3BO0electron microscopy9.60A2-433[»]
3BO1electron microscopy9.60A2-433[»]
3DKNelectron microscopy8.70A2-433[»]
4V4Nelectron microscopy9.00AX1-436[»]
4V7Ielectron microscopy-A2-433[»]
ProteinModelPortaliQ60175.
SMRiQ60175.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ60175.

Family & Domainsi

Sequence similaritiesi

Belongs to the SecY/SEC61-alpha family.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiarCOG04169. Archaea.
COG0201. LUCA.
InParanoidiQ60175.
KOiK03076.
OMAiWLRMVMA.
PhylomeDBiQ60175.

Family and domain databases

Gene3Di1.10.3370.10. 1 hit.
HAMAPiMF_01465. SecY. 1 hit.
InterProiIPR026593. SecY.
IPR002208. SecY/SEC61-alpha.
IPR030659. SecY_CS.
IPR023201. SecY_su_dom.
[Graphical view]
PANTHERiPTHR10906. PTHR10906. 1 hit.
PfamiPF00344. SecY. 1 hit.
[Graphical view]
PIRSFiPIRSF004557. SecY. 1 hit.
SUPFAMiSSF103491. SSF103491. 1 hit.
TIGRFAMsiTIGR00967. 3a0501s007. 1 hit.
PROSITEiPS00755. SECY_1. 1 hit.
PS00756. SECY_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q60175-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKKLIPILEK IPEVELPVKE ITFKEKLKWT GIVLVLYFIM GCIDVYTAGA
60 70 80 90 100
QIPAIFEFWQ TITASRIGTL ITLGIGPIVT AGIIMQLLVG SGIIQMDLSI
110 120 130 140 150
PENRALFQGC QKLLSIIMCF VEAVLFVGAG AFGILTPLLA FLVIIQIAFG
160 170 180 190 200
SIILIYLDEI VSKYGIGSGI GLFIAAGVSQ TIFVGALGPE GYLWKFLNSL
210 220 230 240 250
IQGVPNIEYI APIIGTIIVF LMVVYAECMR VEIPLAHGRI KGAVGKYPIK
260 270 280 290 300
FVYVSNIPVI LAAALFANIQ LWGLALYRMG IPILGHYEGG RAVDGIAYYL
310 320 330 340 350
STPYGLSSVI SDPIHAIVYM IAMIITCVMF GIFWVETTGL DPKSMAKRIG
360 370 380 390 400
SLGMAIKGFR KSEKAIEHRL KRYIPPLTVM SSAFVGFLAT IANFIGALGG
410 420 430
GTGVLLTVSI VYRMYEQLLR EKVSELHPAI AKLLNK
Length:436
Mass (Da):47,444
Last modified:December 15, 1998 - v2
Checksum:i3E67747A7B5BDC0A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L77117 Genomic DNA. Translation: AAB98469.1.
RefSeqiWP_010869979.1. NC_000909.1.

Genome annotation databases

EnsemblBacteriaiAAB98469; AAB98469; MJ_0478.
GeneIDi1451340.
KEGGimja:MJ_0478.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L77117 Genomic DNA. Translation: AAB98469.1.
RefSeqiWP_010869979.1. NC_000909.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1RH5X-ray3.20A1-436[»]
1RHZX-ray3.50A1-436[»]
2YXQX-ray3.50A1-436[»]
2YXRX-ray3.60A1-436[»]
3BO0electron microscopy9.60A2-433[»]
3BO1electron microscopy9.60A2-433[»]
3DKNelectron microscopy8.70A2-433[»]
4V4Nelectron microscopy9.00AX1-436[»]
4V7Ielectron microscopy-A2-433[»]
ProteinModelPortaliQ60175.
SMRiQ60175.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243232.MJ_0478.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB98469; AAB98469; MJ_0478.
GeneIDi1451340.
KEGGimja:MJ_0478.

Phylogenomic databases

eggNOGiarCOG04169. Archaea.
COG0201. LUCA.
InParanoidiQ60175.
KOiK03076.
OMAiWLRMVMA.
PhylomeDBiQ60175.

Miscellaneous databases

EvolutionaryTraceiQ60175.

Family and domain databases

Gene3Di1.10.3370.10. 1 hit.
HAMAPiMF_01465. SecY. 1 hit.
InterProiIPR026593. SecY.
IPR002208. SecY/SEC61-alpha.
IPR030659. SecY_CS.
IPR023201. SecY_su_dom.
[Graphical view]
PANTHERiPTHR10906. PTHR10906. 1 hit.
PfamiPF00344. SecY. 1 hit.
[Graphical view]
PIRSFiPIRSF004557. SecY. 1 hit.
SUPFAMiSSF103491. SSF103491. 1 hit.
TIGRFAMsiTIGR00967. 3a0501s007. 1 hit.
PROSITEiPS00755. SECY_1. 1 hit.
PS00756. SECY_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSECY_METJA
AccessioniPrimary (citable) accession number: Q60175
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: December 15, 1998
Last modified: November 2, 2016
This is version 114 of the entry and version 2 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. Methanococcus jannaschii
    Methanococcus jannaschii: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.