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Entry version 126 (08 May 2019)
Sequence version 2 (15 Dec 1998)
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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

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>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
<p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections (‘Function’, ‘PTM / Processing’, ‘Pathology and Biotech’) according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei75Pore ring1
Sitei79Pore ring1
Sitei174Pore ring1
Sitei179Pore ring1
Sitei260Pore ring1
Sitei406Pore ring1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Biological processProtein transport, Translocation, Transport

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
MJAN243232:G1GKE-512-MONOMER

Protein family/group databases

Transport Classification Database

More...
TCDBi
3.A.5.7.4 the general secretory pathway (sec) family

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Protein translocase subunit SecY
Alternative name(s):
Protein transport protein SEC61 subunit alpha homolog
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:secY
Ordered Locus Names:MJ0478
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiMethanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri243232 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiArchaeaEuryarchaeotaMethanomada groupMethanococciMethanococcalesMethanocaldococcaceaeMethanocaldococcus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000000805 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'Subcellular location'</a> section describes the subcellular compartment where each non-membrane region of a membrane-spanning protein is found.<p><a href='/help/topo_dom' target='_top'>More...</a></p>Topological domaini1 – 28CytoplasmicAdd BLAST28
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei29 – 46Helical; Name=Helix 1Add BLAST18
Topological domaini47 – 55Extracellular9
Transmembranei56 – 88Discontinuously helical; Name=Helix 2Add BLAST33
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'Subcellular location'</a> section describes the extent of a region that is buried within a membrane, but does not cross it.<p><a href='/help/intramem' target='_top'>More...</a></p>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

Keywords - Cellular componenti

Cell membrane, Membrane

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001317641 – 436Protein translocase subunit SecYAdd BLAST436

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>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

STRING: functional protein association networks

More...
STRINGi
243232.MJ_0478

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

1436
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

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SMRi
Q60175

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...
EvolutionaryTracei
Q60175

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the SecY/SEC61-alpha family.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

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eggNOGi
arCOG04169 Archaea
COG0201 LUCA

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q60175

KEGG Orthology (KO)

More...
KOi
K03076

Identification of Orthologs from Complete Genome Data

More...
OMAi
KWGIGSG

Database of Orthologous Groups

More...
OrthoDBi
13531at2157

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q60175

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.3370.10, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_01465 SecY, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR026593 SecY
IPR002208 SecY/SEC61-alpha
IPR030659 SecY_CS
IPR023201 SecY_dom_sf
IPR019561 Translocon_Sec61/SecY_plug_dom

The PANTHER Classification System

More...
PANTHERi
PTHR10906 PTHR10906, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF10559 Plug_translocon, 1 hit
PF00344 SecY, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF004557 SecY, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF103491 SSF103491, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00967 3a0501s007, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00755 SECY_1, 1 hit
PS00756 SECY_2, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>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
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i3E67747A7B5BDC0A
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
L77117 Genomic DNA Translation: AAB98469.1

NCBI Reference Sequences

More...
RefSeqi
WP_010869979.1, NC_000909.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAB98469; AAB98469; MJ_0478

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
1451340

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
mja:MJ_0478

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>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:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
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[»]
SMRiQ60175
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

STRINGi243232.MJ_0478

Protein family/group databases

TCDBi3.A.5.7.4 the general secretory pathway (sec) family

Genome annotation databases

EnsemblBacteriaiAAB98469; AAB98469; MJ_0478
GeneIDi1451340
KEGGimja:MJ_0478

Phylogenomic databases

eggNOGiarCOG04169 Archaea
COG0201 LUCA
InParanoidiQ60175
KOiK03076
OMAiKWGIGSG
OrthoDBi13531at2157
PhylomeDBiQ60175

Enzyme and pathway databases

BioCyciMJAN243232:G1GKE-512-MONOMER

Miscellaneous databases

EvolutionaryTraceiQ60175

Family and domain databases

Gene3Di1.10.3370.10, 1 hit
HAMAPiMF_01465 SecY, 1 hit
InterProiView protein in InterPro
IPR026593 SecY
IPR002208 SecY/SEC61-alpha
IPR030659 SecY_CS
IPR023201 SecY_dom_sf
IPR019561 Translocon_Sec61/SecY_plug_dom
PANTHERiPTHR10906 PTHR10906, 1 hit
PfamiView protein in Pfam
PF10559 Plug_translocon, 1 hit
PF00344 SecY, 1 hit
PIRSFiPIRSF004557 SecY, 1 hit
SUPFAMiSSF103491 SSF103491, 1 hit
TIGRFAMsiTIGR00967 3a0501s007, 1 hit
PROSITEiView protein in PROSITE
PS00755 SECY_1, 1 hit
PS00756 SECY_2, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiSECY_METJA
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q60175
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: December 15, 1998
Last modified: May 8, 2019
This is version 126 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Methanococcus jannaschii
    Methanococcus jannaschii: entries and gene names
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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