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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Agrobacterium vitis (strain S4 / ATCC BAA-846) (Rhizobium vitis (strain S4))
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

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

BioCyciAVIT311402:GH2Y-1688-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:Avi_2252
OrganismiAgrobacterium vitis (strain S4 / ATCC BAA-846) (Rhizobium vitis (strain S4))
Taxonomic identifieri311402 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupAgrobacterium
ProteomesiUP000001596 Componenti: Chromosome 1

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 954954Glycine dehydrogenase (decarboxylating)PRO_1000147961Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei704 – 7041N6-(pyridoxal phosphate)lysineUniRule annotation

Proteomic databases

PRIDEiB9JWI2.

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi311402.Avi_2252.

Structurei

3D structure databases

ProteinModelPortaliB9JWI2.
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.

B9JWI2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTTPTEFQFT DYQPYDFANR RHIGPSPAEM DEMLKTVGYD SLDGLIAATV
60 70 80 90 100
PASIRQSAPL VWGKAMSERE ALDKLRETAN KNKALTSLIG QGYYGTITPP
110 120 130 140 150
VIQRNILENP AWYTAYTPYQ PEISQGRLEA LLNFQTMICD LTGLDVANAS
160 170 180 190 200
LLDEATAAAE AMAMAERVAK SKAKAFFVDS NCHPQTIAVI QTRAEPLGWG
210 220 230 240 250
VVVGNPFTDL NPGEVFGALF QYPGTHGHVS DFTPLINALH NAQAIAAVAA
260 270 280 290 300
DPLALLLLKS PGEMGADIAI GSSQRFGVPV GYGGPHAAYM AVKDAIKRSM
310 320 330 340 350
PGRLVGVSVD SRGNRAYRLS LQTREQHIRR EKATSNICTA QVLLAVMASM
360 370 380 390 400
YAVFHGPQGL KAIAQQVHQK TVLLAKGLEK LGFTIEPETF FDTITLEVGH
410 420 430 440 450
MQGLILRAAV AEGVNLRKVG TTKIGISLDE RTRPATLEAV WRAFGGNFAV
460 470 480 490 500
GDFTPDYRLP TSLLRTSQYL THPIFHMNRA ESEMTRYIRR LSDRDLALDR
510 520 530 540 550
AMIPLGSCTM KLNATAEMLP ITWPEFSDIH PFAPADQALG YQEMIDDLSE
560 570 580 590 600
KLCAVTGYDA ISMQPNSGAQ GEYAGLLTIR NYHLAKGDTH RTVCLIPTSA
610 620 630 640 650
HGTNPASAQM AGMLVVPVKA LDNGDVDLAD FRTKAEQHST NLSCCMITYP
660 670 680 690 700
STHGVFEETV REICEITHAH GGQVYLDGAN MNAMVGIARP GDIGSDVSHL
710 720 730 740 750
NLHKTFCIPH GGGGPGMGPI GVKAHLTPYL PGHVETDGRP GAVSAAPYGS
760 770 780 790 800
PSILPISWSY CLMMGGEGLT QATKVAILNA NYIAARLTGA YDVLYTSASG
810 820 830 840 850
RVAHECIIDT RPLADSAGVT VDDVAKRLID CGFHAPTMSW PVAGTLMIEP
860 870 880 890 900
TESETKAELD RFCTAMLAIR EEARAIEDGR MDKTNNPLKN APHTVEDLVG
910 920 930 940 950
EWDRPYSRDQ ACYPPGAFRV DKYWSSVNRV DNVYGDRNLV CTCPPMSEYA

EAAE
Length:954
Mass (Da):103,381
Last modified:March 24, 2009 - v1
Checksum:i956197CAE86B42D8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000633 Genomic DNA. Translation: ACM36610.1.
RefSeqiWP_015916031.1. NC_011989.1.
YP_002549618.1. NC_011989.1.

Genome annotation databases

EnsemblBacteriaiACM36610; ACM36610; Avi_2252.
KEGGiavi:Avi_2252.
PATRICi20828720. VBIAgrVit37146_4020.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000633 Genomic DNA. Translation: ACM36610.1.
RefSeqiWP_015916031.1. NC_011989.1.
YP_002549618.1. NC_011989.1.

3D structure databases

ProteinModelPortaliB9JWI2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi311402.Avi_2252.

Proteomic databases

PRIDEiB9JWI2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACM36610; ACM36610; Avi_2252.
KEGGiavi:Avi_2252.
PATRICi20828720. VBIAgrVit37146_4020.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.

Enzyme and pathway databases

BioCyciAVIT311402:GH2Y-1688-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: S4 / ATCC BAA-846.

Entry informationi

Entry nameiGCSP_AGRVS
AccessioniPrimary (citable) accession number: B9JWI2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 24, 2009
Last modified: May 27, 2015
This is version 50 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.