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Protein

Probable glycine dehydrogenase (decarboxylating) subunit 2

Gene

gcvPB

Organism
Staphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor; CO2 is released and the remaining methylamine moiety is then transferred to the lipoamide cofactor of the H protein.UniRule annotation

Catalytic activityi

Glycine + [glycine-cleavage complex H protein]-N(6)-lipoyl-L-lysine = [glycine-cleavage complex H protein]-S-aminomethyl-N(6)-dihydrolipoyl-L-lysine + CO2.UniRule annotation

Cofactori

pyridoxal 5'-phosphateUniRule annotation

GO - Molecular functioni

  1. glycine dehydrogenase (decarboxylating) activity Source: UniProtKB-EC
  2. pyridoxal phosphate binding Source: InterPro

GO - Biological processi

  1. glycine decarboxylation via glycine cleavage system Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

BioCyciSMAR399550:GHK2-1153-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable glycine dehydrogenase (decarboxylating) subunit 2UniRule annotation (EC:1.4.4.2UniRule annotation)
Alternative name(s):
Glycine cleavage system P-protein subunit 2UniRule annotation
Glycine decarboxylase subunit 2UniRule annotation
Glycine dehydrogenase (aminomethyl-transferring) subunit 2UniRule annotation
Gene namesi
Name:gcvPBUniRule annotation
Ordered Locus Names:Smar_1114
OrganismiStaphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1)
Taxonomic identifieri399550 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeStaphylothermus
ProteomesiUP000000254 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 521521Probable glycine dehydrogenase (decarboxylating) subunit 2PRO_1000045706Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei279 – 2791N6-(pyridoxal phosphate)lysineUniRule annotation

Interactioni

Subunit structurei

The glycine cleavage system is composed of four proteins: P, T, L and H. In this organism, the P 'protein' is a heterodimer of two subunits.UniRule annotation

Protein-protein interaction databases

STRINGi399550.Smar_1114.

Structurei

3D structure databases

ProteinModelPortaliA3DNK0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the GcvP family. C-terminal subunit subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239368.
KOiK00283.
OMAiMHINLHK.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
HAMAPiMF_00713. GcvPB.
InterProiIPR023012. GcvPB.
IPR020580. GDC-P_N.
IPR020581. GDC_P.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
[Graphical view]
PANTHERiPTHR11773. PTHR11773. 1 hit.
PfamiPF02347. GDC-P. 1 hit.
[Graphical view]
SUPFAMiSSF53383. SSF53383. 1 hit.

Sequencei

Sequence statusi: Complete.

A3DNK0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFRQSRWDEP LIFELGNKGR KGFIVPEPEE EVKRKVGGIR IPEKILRKKP
60 70 80 90 100
PNLPEVSEVE VIRHYTRLTE MSYGVDNGPV PLGSCTMKYN PRIAWEISND
110 120 130 140 150
YRINMLHPLQ DERTIQGLLE ILYELQKWLA NITGMDYCSL HPAAGAHGEF
160 170 180 190 200
SGILIIRKYH ELKKQLDRKS EIIIPDSAHG TNPASASMGG FKVVEVPSGE
210 220 230 240 250
DGNIDMEALK SVVGESTAGL MITNPSTLGL FEENVVEISK IIHGVDGLLY
260 270 280 290 300
YDGANLNGIM GYTRPGDMGF DIAHINIHKT FGAPHGGGGP GAGPVCVKDK
310 320 330 340 350
LIDEERNIWL RDLLPGYRVV YDEKTGLYKL VNNEKYSIGL LKAFFGNIVP
360 370 380 390 400
LIWGYTYILM LGSKGLRTVT EQAVLNTNYF ISLVKDIRGY DIPYGKDRYR
410 420 430 440 450
KHEVVLSAKP LYDDTGVSAE DVAKGLLDAG FYAPTIYFPL IVHEALMTEF
460 470 480 490 500
TESETIEYIE KYAERLQEIS TIAYSDPEKA KEWPLNTSVR RVDNVRANHP
510 520
KTLAPTWRIY MEKVCRKYSE C
Length:521
Mass (Da):58,713
Last modified:March 20, 2007 - v1
Checksum:i48C8F4685295AADE
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000575 Genomic DNA. Translation: ABN70210.1.
RefSeqiYP_001041118.1. NC_009033.1.

Genome annotation databases

EnsemblBacteriaiABN70210; ABN70210; Smar_1114.
GeneIDi4907548.
KEGGismr:Smar_1114.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000575 Genomic DNA. Translation: ABN70210.1.
RefSeqiYP_001041118.1. NC_009033.1.

3D structure databases

ProteinModelPortaliA3DNK0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi399550.Smar_1114.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABN70210; ABN70210; Smar_1114.
GeneIDi4907548.
KEGGismr:Smar_1114.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239368.
KOiK00283.
OMAiMHINLHK.

Enzyme and pathway databases

BioCyciSMAR399550:GHK2-1153-MONOMER.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
HAMAPiMF_00713. GcvPB.
InterProiIPR023012. GcvPB.
IPR020580. GDC-P_N.
IPR020581. GDC_P.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
[Graphical view]
PANTHERiPTHR11773. PTHR11773. 1 hit.
PfamiPF02347. GDC-P. 1 hit.
[Graphical view]
SUPFAMiSSF53383. SSF53383. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "The complete genome sequence of Staphylothermus marinus reveals differences in sulfur metabolism among heterotrophic Crenarchaeota."
    Anderson I.J., Dharmarajan L., Rodriguez J., Hooper S., Porat I., Ulrich L.E., Elkins J.G., Mavromatis K., Sun H., Land M., Lapidus A., Lucas S., Barry K., Huber H., Zhulin I.B., Whitman W.B., Mukhopadhyay B., Woese C., Bristow J., Kyrpides N.
    BMC Genomics 10:145-145(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43588 / DSM 3639 / F1.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43588 / DSM 3639 / F1.

Entry informationi

Entry nameiGCSPB_STAMF
AccessioniPrimary (citable) accession number: A3DNK0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: March 20, 2007
Last modified: April 29, 2015
This is version 54 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. 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.