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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Yersinia pestis bv. Antiqua (strain Nepal516)
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

BioCyciYPES377628:GIXK-3191-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:YPN_3104
ORF Names:YP516_3523
OrganismiYersinia pestis bv. Antiqua (strain Nepal516)
Taxonomic identifieri377628 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
ProteomesiUP000008936 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 959959Glycine dehydrogenase (decarboxylating)PRO_1000045631Add
BLAST

Amino acid modifications

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

Interactioni

Subunit structurei

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

Structurei

3D structure databases

ProteinModelPortaliQ1CEZ9.
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.

Q1CEZ9-1 [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:July 11, 2006 - v1
Checksum:iBDD898DA71EF98A5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000305 Genomic DNA. Translation: ABG19431.1.
ACNQ01000017 Genomic DNA. Translation: EEO75594.1.
RefSeqiWP_002209947.1. NZ_ACNQ01000017.1.

Genome annotation databases

EnsemblBacteriaiABG19431; ABG19431; YPN_3104.
EEO75594; EEO75594; YP516_3523.
KEGGiypn:YPN_3104.
PATRICi18606104. VBIYerPes46733_3690.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000305 Genomic DNA. Translation: ABG19431.1.
ACNQ01000017 Genomic DNA. Translation: EEO75594.1.
RefSeqiWP_002209947.1. NZ_ACNQ01000017.1.

3D structure databases

ProteinModelPortaliQ1CEZ9.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABG19431; ABG19431; YPN_3104.
EEO75594; EEO75594; YP516_3523.
KEGGiypn:YPN_3104.
PATRICi18606104. VBIYerPes46733_3690.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.

Enzyme and pathway databases

BioCyciYPES377628:GIXK-3191-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. "Complete genome sequence of Yersinia pestis strains Antiqua and Nepal516: evidence of gene reduction in an emerging pathogen."
    Chain P.S.G., Hu P., Malfatti S.A., Radnedge L., Larimer F., Vergez L.M., Worsham P., Chu M.C., Andersen G.L.
    J. Bacteriol. 188:4453-4463(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Nepal516.
  2. "Yersinia pestis Nepal516A whole genome shotgun sequencing project."
    Plunkett G. III, Anderson B.D., Baumler D.J., Burland V., Cabot E.L., Glasner J.D., Mau B., Neeno-Eckwall E., Perna N.T., Munk A.C., Tapia R., Green L.D., Rogers Y.C., Detter J.C., Bruce D.C., Brettin T.S.
    Submitted (APR-2009) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Nepal516.

Entry informationi

Entry nameiGCSP_YERPN
AccessioniPrimary (citable) accession number: Q1CEZ9
Secondary accession number(s): C4GXE4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: July 11, 2006
Last modified: June 24, 2015
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

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.