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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Yersinia pestis
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

BioCyciYPES214092:GKDD-889-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:YPO0905, y3292, YP_3602
OrganismiYersinia pestis
Taxonomic identifieri632 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
ProteomesiUP000000815: Chromosome, UP000001019: Chromosome, UP000002490: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11RemovedBy similarity
Chaini2 – 959958Glycine dehydrogenase (decarboxylating)PRO_0000166952Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei708 – 7081N6-(pyridoxal phosphate)lysineUniRule annotation

Proteomic databases

PRIDEiQ8ZHI8.

Interactioni

Subunit structurei

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

Protein-protein interaction databases

IntActiQ8ZHI8. 7 interactions.
STRINGi214092.YPO0905.

Structurei

3D structure databases

ProteinModelPortaliQ8ZHI8.
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.
InterProiIPR020580. GDC-P_N.
IPR020581. GDC_P.
IPR003437. GDC_P_homo.
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.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q8ZHI8-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTQNLSQLEH NDAFIQRHIG SSVEQQQQML AAVGASSLST LIQQIVPADI
60 70 80 90 100
QLPGPPPVGE AATEHQALAE LKGIASQNQC YKSYIGMGYS PVLTPPVILR
110 120 130 140 150
NMLENPGWYT AYTPYQPEVS QGRLEALLNF QQLTQDLTGL DLASASLLDE
160 170 180 190 200
ATAAAESMAL AKRASKLKDA NRFFVADDVH PQTLDVVLTR AETFGFDVIV
210 220 230 240 250
DRAEKVLELD GIFGVLLQQV GTTGELHDYS ALLAELKKRK IITSVAADIM
260 270 280 290 300
ALVLLTAPGA QGADVVFGSA QRFGVPMGYG GPHAAFFACR DEFKRSMPGR
310 320 330 340 350
IIGVSRDAAG NTALRMAMQT REQHIRREKA NSNICTSQVL LANIASLYAV
360 370 380 390 400
YHGPQGLQRI AGRIHRMTDI LAAGLQHAGL TLRFKHWFDT LTVEVKDKAA
410 420 430 440 450
VLARALSFGI NLRTDIHGAV GITLNETTSR EDIQTLFALF VGDNHGLDID
460 470 480 490 500
QLDAAVSQHS QSIQDSMLRR DPILTHPVFN RYHSETEMMR YMHRLERKDL
510 520 530 540 550
ALNQAMIPLG SCTMKLNAAA EMIPITWPEF AELHPFCPPE QAAGYQQMIG
560 570 580 590 600
QLSQWLVQLT GYDAVCMQPN SGAQGEYAGL LAIRRYHESR NQANRHICLI
610 620 630 640 650
PSSAHGTNPA SAQMAGMSVV VVACDKQGNI DLHDLRQKAE HAGDELSCIM
660 670 680 690 700
VTYPSTHGVY EETIREVCQI VHQFGGQVYL DGANMNAQVG ITTPGYIGAD
710 720 730 740 750
VSHLNLHKTF CIPHGGGGPG MGPIGVKAHL APFVPGHSVV QIDGMTTQQG
760 770 780 790 800
AVSAAPFGSA SILPISWMYI RMMGADGLKQ ASQVAILNAN YIATRLKNAY
810 820 830 840 850
PVLYTGHDGR VAHECILDIR PLKEATGISE MDIAKRLIDF GFHAPTMSFP
860 870 880 890 900
VAGTLMVEPT ESESKVELDR FIDAMLAIRA EIEKVAQGEW PLEDNPLVNA
910 920 930 940 950
PHTQAELVGE WTHPYSRELA VFPVAGVLEN KYWPTVKRLD DVYGDRNLFC

SCVPISDYE
Length:959
Mass (Da):104,737
Last modified:January 23, 2007 - v3
Checksum:iBDD898DA71EF98A5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL590842 Genomic DNA. Translation: CAL19572.1.
AE009952 Genomic DNA. Translation: AAM86842.1.
AE017042 Genomic DNA. Translation: AAS63752.1.
PIRiAB0111.
RefSeqiNP_670591.1. NC_004088.1.
NP_994875.1. NC_005810.1.
YP_002345953.1. NC_003143.1.

Genome annotation databases

EnsemblBacteriaiAAM86842; AAM86842; y3292.
AAS63752; AAS63752; YP_3602.
GeneIDi1148239.
1173741.
2765430.
KEGGiype:YPO0905.
ypk:y3292.
ypm:YP_3602.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL590842 Genomic DNA. Translation: CAL19572.1.
AE009952 Genomic DNA. Translation: AAM86842.1.
AE017042 Genomic DNA. Translation: AAS63752.1.
PIRiAB0111.
RefSeqiNP_670591.1. NC_004088.1.
NP_994875.1. NC_005810.1.
YP_002345953.1. NC_003143.1.

3D structure databases

ProteinModelPortaliQ8ZHI8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ8ZHI8. 7 interactions.
STRINGi214092.YPO0905.

Proteomic databases

PRIDEiQ8ZHI8.

Protocols and materials databases

DNASUi1148239.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAM86842; AAM86842; y3292.
AAS63752; AAS63752; YP_3602.
GeneIDi1148239.
1173741.
2765430.
KEGGiype:YPO0905.
ypk:y3292.
ypm:YP_3602.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.

Enzyme and pathway databases

BioCyciYPES214092:GKDD-889-MONOMER.

Family and domain databases

Gene3Di3.40.640.10. 2 hits.
HAMAPiMF_00711. GcvP.
InterProiIPR020580. GDC-P_N.
IPR020581. GDC_P.
IPR003437. GDC_P_homo.
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: CO-92 / Biovar Orientalis.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: KIM10+ / Biovar Mediaevalis.
  3. "Complete genome sequence of Yersinia pestis strain 91001, an isolate avirulent to humans."
    Song Y., Tong Z., Wang J., Wang L., Guo Z., Han Y., Zhang J., Pei D., Zhou D., Qin H., Pang X., Han Y., Zhai J., Li M., Cui B., Qi Z., Jin L., Dai R.
    , Chen F., Li S., Ye C., Du Z., Lin W., Wang J., Yu J., Yang H., Wang J., Huang P., Yang R.
    DNA Res. 11:179-197(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 91001 / Biovar Mediaevalis.

Entry informationi

Entry nameiGCSP_YERPE
AccessioniPrimary (citable) accession number: Q8ZHI8
Secondary accession number(s): Q0WID5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 19, 2003
Last sequence update: January 23, 2007
Last modified: January 7, 2015
This is version 88 of the entry and version 3 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.