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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Bradyrhizobium sp. (strain ORS278)
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

BioCyciBSP114615:GJN5-4759-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Glycine dehydrogenase (decarboxylating)UniRule annotation (EC:1.4.4.2UniRule annotation)
Alternative name(s):
Glycine cleavage system P-proteinUniRule annotation
Glycine decarboxylaseUniRule annotation
Glycine dehydrogenase (aminomethyl-transferring)UniRule annotation
Gene namesi
Name:gcvPUniRule annotation
Ordered Locus Names:BRADO4984
OrganismiBradyrhizobium sp. (strain ORS278)
Taxonomic identifieri114615 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
ProteomesiUP000001994 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 957957Glycine dehydrogenase (decarboxylating)PRO_1000062073Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei702 – 7021N6-(pyridoxal phosphate)lysineUniRule annotation

Interactioni

Subunit structurei

The glycine cleavage system is composed of four proteins: P, T, L and H.UniRule annotation

Protein-protein interaction databases

STRINGi114615.BRADO4984.

Structurei

3D structure databases

ProteinModelPortaliA4YXQ9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the GcvP family.UniRule annotation

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.

Family and domain databases

Gene3Di3.40.640.10. 2 hits.
HAMAPiMF_00711. GcvP.
InterProiIPR003437. GcvP.
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. 2 hits.
[Graphical view]
SUPFAMiSSF53383. SSF53383. 3 hits.
TIGRFAMsiTIGR00461. gcvP. 1 hit.

Sequencei

Sequence statusi: Complete.

A4YXQ9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTTPLKPLDD AATSFARRHI GPSPRDVAAM LETVNAKSVA ELMAQTLPGT
60 70 80 90 100
IRQAAPLDIG PALSETEALS HMRALAAQNQ VFTSLIGQGY AGTIMPAVIQ
110 120 130 140 150
RNILENPAWY TAYTPYQPEI SQGRLEALFN FQTMICDLTG LDVANASLLD
160 170 180 190 200
EGTAAAEAMA LAERSARAKT KAFFVDHNVH PQTLTVLRTR AEPLGWKLIV
210 220 230 240 250
GDPAGDLDGA EVFGGLLQYP DTTGALRDPR AAIAKLHDKG ALAILAADLL
260 270 280 290 300
ALTLIASPGE LGADIAIGSA QRFGVPMGYG GPHAAYMAVR DALKRSLPGR
310 320 330 340 350
IVGLSVDSRG APAYRLALQT REQHIRREKA TSNICTAQVL LAVIAAMYAV
360 370 380 390 400
YHGPAGLKAI ARTVHRRTAV LAAGLRKLGF APANDAFFDT VTVEAGANAS
410 420 430 440 450
SIIARAEAER INLGHNGSRL RIALDETTTA DVVEAAWRAF GGELSYADIE
460 470 480 490 500
AEARDAVPAE LKRQRPYLTH PVFHAHRSET EMLRYLRKLA DRDLALDRAM
510 520 530 540 550
IPLGSCTMKL NATTEMIPLT WPEFSSLHPF VPRAQAAGYH AMFADLQDWL
560 570 580 590 600
CRISGYDAVS LQPNSGAQGE YAGLLAIRGY HAARGEAHRT ICLIPSSAHG
610 620 630 640 650
TNPASAHMVG MEVVVVGCDA GGNVDLADLK AKAEAHSQKL AAIMITYPST
660 670 680 690 700
HGVFEEHIRD ICDIVHAHGG QVYLDGANLN AQVGLARPGD YGADVSHFNL
710 720 730 740 750
HKTFCIPHGG GGPGMGPIGV KAHLAPFLPG HPATDGKTAH PVGPVSAAPY
760 770 780 790 800
GSASILTISY IYMLLMGGEG LTRATEIAIL NANYVAARLD AHFPVLYRNE
810 820 830 840 850
RGRIAHECII DPRLLKQTSG VTVDDIAKRL IDYGFHAPTM SFPVAGTLMI
860 870 880 890 900
EPTESESKAE LDRFCDAMIA IRKEIAEVEQ GRFTIEASPL RHAPHTVHDI
910 920 930 940 950
ADDEWSRAYR RSEGCFPAGS SRTDKYWCPV GRVDNVYGDR NLVCSCPPVE

DYAQAAE
Length:957
Mass (Da):102,667
Last modified:May 29, 2007 - v1
Checksum:iB875D6C70B7C1F3A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CU234118 Genomic DNA. Translation: CAL78685.1.
RefSeqiWP_012028626.1. NC_009445.1.
YP_001206902.1. NC_009445.1.

Genome annotation databases

EnsemblBacteriaiCAL78685; CAL78685; BRADO4984.
KEGGibra:BRADO4984.
PATRICi21225981. VBIBraSp122330_4788.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CU234118 Genomic DNA. Translation: CAL78685.1.
RefSeqiWP_012028626.1. NC_009445.1.
YP_001206902.1. NC_009445.1.

3D structure databases

ProteinModelPortaliA4YXQ9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi114615.BRADO4984.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAL78685; CAL78685; BRADO4984.
KEGGibra:BRADO4984.
PATRICi21225981. VBIBraSp122330_4788.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.

Enzyme and pathway databases

BioCyciBSP114615:GJN5-4759-MONOMER.

Family and domain databases

Gene3Di3.40.640.10. 2 hits.
HAMAPiMF_00711. GcvP.
InterProiIPR003437. GcvP.
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. 2 hits.
[Graphical view]
SUPFAMiSSF53383. SSF53383. 3 hits.
TIGRFAMsiTIGR00461. gcvP. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ORS278.

Entry informationi

Entry nameiGCSP_BRASO
AccessioniPrimary (citable) accession number: A4YXQ9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: May 29, 2007
Last modified: April 29, 2015
This is version 58 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.