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Q5JGX6

- GCSPB_THEKO

UniProt

Q5JGX6 - GCSPB_THEKO

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Protein

Probable glycine dehydrogenase (decarboxylating) subunit 2

Gene

gcvPB

Organism
Thermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Status
Reviewed - 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

BioCyciTKOD69014:GH72-1400-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:TK1379
OrganismiThermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Taxonomic identifieri69014 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus
ProteomesiUP000000536: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 502502Probable glycine dehydrogenase (decarboxylating) subunit 2PRO_0000167030Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei273 – 2731N6-(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

IntActiQ5JGX6. 1 interaction.
MINTiMINT-8376968.
STRINGi69014.TK1379.

Structurei

3D structure databases

ProteinModelPortaliQ5JGX6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239368.
InParanoidiQ5JGX6.
KOiK00283.
OMAiWTGLMMI.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
HAMAPiMF_00713. GcvPB.
InterProiIPR020580. GDC-P_N.
IPR020581. GDC_P.
IPR023012. GDC_P_su2.
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.

Q5JGX6-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MFHQAKWDEP TIFELSRPGR IGYTLPKPIE DVDVDIPEKL RRKSPLNLPE
60 70 80 90 100
LSEPEVVKHY TRLSEMNYGV DSGIYPLGSC TMKYNPKINE EIASHPGVAY
110 120 130 140 150
VHPYQDEGTV QGALKIMWEL EQWLKEITGM DRFTLQPAAG ANGEFTGVSI
160 170 180 190 200
IRAYHIDRGE TQRTEMLVPD SAHGTNPASA AMAGFKVIEI PSNENGTVDL
210 220 230 240 250
EALENAVSER TAGLMLTNPN TLGIFEDEIL EIAKIVHKAG GLLYYDGANL
260 270 280 290 300
NAVLGKIRPG DMGFDVVHLN LHKTFSTPHG GGGPGSGPVG VKDFLKDYLP
310 320 330 340 350
VPLVSYDAEN DRYYLDYNVP RSIGKVKELY GNFAVIVRAL TYLKIMGREG
360 370 380 390 400
LKEVSEVAVL NANYLTQKLK GTRGYELPGK ELRKHETVFS AEPMKKETGV
410 420 430 440 450
KALDVAKRLL DFCMHAPTIY FPLIVHEALM IEPTETVSKE ELDAYVEALK
460 470 480 490 500
RISEEAYSNP EVVTSAPHNT AVRRVDDVLA AKKPVITWRM YRELKERGEI

DY
Length:502
Mass (Da):55,991
Last modified:February 15, 2005 - v1
Checksum:iAFE4AC2931468554
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006878 Genomic DNA. Translation: BAD85568.1.
RefSeqiYP_183792.1. NC_006624.1.

Genome annotation databases

EnsemblBacteriaiBAD85568; BAD85568; TK1379.
GeneIDi3235783.
KEGGitko:TK1379.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006878 Genomic DNA. Translation: BAD85568.1 .
RefSeqi YP_183792.1. NC_006624.1.

3D structure databases

ProteinModelPortali Q5JGX6.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

IntActi Q5JGX6. 1 interaction.
MINTi MINT-8376968.
STRINGi 69014.TK1379.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD85568 ; BAD85568 ; TK1379 .
GeneIDi 3235783.
KEGGi tko:TK1379.

Phylogenomic databases

eggNOGi COG1003.
HOGENOMi HOG000239368.
InParanoidi Q5JGX6.
KOi K00283.
OMAi WTGLMMI.

Enzyme and pathway databases

BioCyci TKOD69014:GH72-1400-MONOMER.

Family and domain databases

Gene3Di 3.40.640.10. 1 hit.
HAMAPi MF_00713. GcvPB.
InterProi IPR020580. GDC-P_N.
IPR020581. GDC_P.
IPR023012. GDC_P_su2.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
[Graphical view ]
PANTHERi PTHR11773. PTHR11773. 1 hit.
Pfami PF02347. GDC-P. 1 hit.
[Graphical view ]
SUPFAMi SSF53383. SSF53383. 1 hit.
ProtoNeti Search...

Publicationsi

  1. "Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes."
    Fukui T., Atomi H., Kanai T., Matsumi R., Fujiwara S., Imanaka T.
    Genome Res. 15:352-363(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-918 / JCM 12380 / KOD1.

Entry informationi

Entry nameiGCSPB_THEKO
AccessioniPrimary (citable) accession number: Q5JGX6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 30, 2005
Last sequence update: February 15, 2005
Last modified: November 26, 2014
This is version 66 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