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Protein

O-phosphoseryl-tRNA(Sec) selenium transferase

Gene

spcS

Organism
Methanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Converts O-phosphoseryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec) required for selenoprotein biosynthesis.By similarity

Catalytic activityi

O-phospho-L-seryl-tRNA(Sec) + selenophosphate + H2O = L-selenocysteinyl-tRNA(Sec) + 2 phosphate.

Cofactori

Pathway: selenocysteinyl-tRNA(Sec) biosynthesis

This protein is involved in step 2 of the subpathway that synthesizes selenocysteinyl-tRNA(Sec) from L-seryl-tRNA(Sec) (archaeal/eukaryal route).
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. L-seryl-tRNA(Sec) kinase (pstK)
  2. O-phosphoseryl-tRNA(Sec) selenium transferase (spcS)
This subpathway is part of the pathway selenocysteinyl-tRNA(Sec) biosynthesis, which is itself part of Aminoacyl-tRNA biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes selenocysteinyl-tRNA(Sec) from L-seryl-tRNA(Sec) (archaeal/eukaryal route), the pathway selenocysteinyl-tRNA(Sec) biosynthesis and in Aminoacyl-tRNA biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei66 – 661May act as a substrate filter by repelling compounds with a negatively charged alpha-carboxylateBy similarity
Binding sitei67 – 671PLPBy similarity
Binding sitei89 – 891SubstrateBy similarity
Binding sitei90 – 901SubstrateBy similarity
Binding sitei97 – 971SubstrateBy similarity
Binding sitei298 – 2981SubstrateBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

Pyridoxal phosphate, RNA-binding, Selenium, tRNA-binding

Enzyme and pathway databases

UniPathwayiUPA00906; UER00898.

Names & Taxonomyi

Protein namesi
Recommended name:
O-phosphoseryl-tRNA(Sec) selenium transferase (EC:2.9.1.2)
Alternative name(s):
Selenocysteine synthase
Short name:
Sec synthase
Selenocysteinyl-tRNA(Sec) synthase
Sep-tRNA:Sec-tRNA synthase
Short name:
SepSecS
Gene namesi
Name:spcS
Ordered Locus Names:MK0672
OrganismiMethanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)
Taxonomic identifieri190192 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanopyriMethanopyralesMethanopyraceaeMethanopyrus
ProteomesiUP000001826 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 431431O-phosphoseryl-tRNA(Sec) selenium transferasePRO_0000219882Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei269 – 2691N6-(pyridoxal phosphate)lysineBy similarity

Interactioni

Subunit structurei

Homotetramer.By similarity

Protein-protein interaction databases

STRINGi190192.MK0672.

Structurei

3D structure databases

ProteinModelPortaliQ8TXK0.
SMRiQ8TXK0. Positions 1-426.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 3636TetramerizationBy similarityAdd
BLAST
Regioni88 – 9811Phosphate loop (P-loop)By similarityAdd
BLAST

Sequence similaritiesi

Belongs to the SepSecS family.Curated

Phylogenomic databases

eggNOGiCOG0076.
HOGENOMiHOG000254245.
KOiK03341.
OMAiHIINGAY.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
InterProiIPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR019872. Sec-tRNA_Se_transferase.
IPR008829. SLA/LP_auto_ag.
[Graphical view]
PANTHERiPTHR12944. PTHR12944. 1 hit.
PfamiPF05889. SLA_LP_auto_ag. 1 hit.
[Graphical view]
PIRSFiPIRSF017689. SepSecS. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.
TIGRFAMsiTIGR03531. selenium_SpcS. 1 hit.

Sequencei

Sequence statusi: Complete.

Q8TXK0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRGLIPDHML ERGRTVLDSY REPVERLLSE RRMPEEGWPD DVIATFLWEL
60 70 80 90 100
SRMDTDKDPK AARIGEREAR VASRLAEESV FGFCHGVGRS GTLVDPQPKA
110 120 130 140 150
PGASIMYALT NRLVTDFLRR LGFRIEGAFV VPGATGLSIA LCLSALGEGE
160 170 180 190 200
EVIYPYAAHK SPIKAVRLAG FGMRVVDTEI EGDRIVVDPG DVEEALERSE
210 220 230 240 250
SPAAVLSTLT FFPPRSSDPL PEIAELCEEY GVPHVVNAAY GIQHEQYRDL
260 270 280 290 300
LNRAIKRGRV DVVVSSTDKN LLTPVGGGIV YAPDEETLRE VSRAYPGRAS
310 320 330 340 350
AAPVAHALIS LLSLGMKGYR RLMRRQKECK ALLDELLEDL EARRDDVRVL
360 370 380 390 400
DVDNPIASAV AVEGHDPVDL AARLYVRRVT GPRGVRADDP FGTSRLRGYH
410 420 430
SNYITINAAI GVREEDVKTA VERLERELEG E
Length:431
Mass (Da):47,589
Last modified:June 1, 2002 - v1
Checksum:i4557FD9AF640CA03
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE009439 Genomic DNA. Translation: AAM01887.1.
RefSeqiNP_613957.1. NC_003551.1.
WP_011019042.1. NC_003551.1.

Genome annotation databases

EnsemblBacteriaiAAM01887; AAM01887; MK0672.
GeneIDi1476773.
KEGGimka:MK0672.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE009439 Genomic DNA. Translation: AAM01887.1.
RefSeqiNP_613957.1. NC_003551.1.
WP_011019042.1. NC_003551.1.

3D structure databases

ProteinModelPortaliQ8TXK0.
SMRiQ8TXK0. Positions 1-426.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi190192.MK0672.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAM01887; AAM01887; MK0672.
GeneIDi1476773.
KEGGimka:MK0672.

Phylogenomic databases

eggNOGiCOG0076.
HOGENOMiHOG000254245.
KOiK03341.
OMAiHIINGAY.

Enzyme and pathway databases

UniPathwayiUPA00906; UER00898.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
InterProiIPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR019872. Sec-tRNA_Se_transferase.
IPR008829. SLA/LP_auto_ag.
[Graphical view]
PANTHERiPTHR12944. PTHR12944. 1 hit.
PfamiPF05889. SLA_LP_auto_ag. 1 hit.
[Graphical view]
PIRSFiPIRSF017689. SepSecS. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.
TIGRFAMsiTIGR03531. selenium_SpcS. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: AV19 / DSM 6324 / JCM 9639 / NBRC 100938.

Entry informationi

Entry nameiSPCS_METKA
AccessioniPrimary (citable) accession number: Q8TXK0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 29, 2005
Last sequence update: June 1, 2002
Last modified: April 29, 2015
This is version 64 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.