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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Pectobacterium carotovorum subsp. carotovorum (strain PC1)
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

BioCyciPCAR561230:GKCK-647-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:PC1_0624
OrganismiPectobacterium carotovorum subsp. carotovorum (strain PC1)
Taxonomic identifieri561230 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaePectobacterium
ProteomesiUP000002736 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 956956Glycine dehydrogenase (decarboxylating)PRO_1000212655Add
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

Protein-protein interaction databases

STRINGi561230.PC1_0624.

Structurei

3D structure databases

ProteinModelPortaliC6D8X1.
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.

C6D8X1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTQTLSQLEH DGAFIERHIG PSVSQQQHML SVVGATSLDA LIRQIVPQDI
60 70 80 90 100
QLPSPPAVGE AATEHEALSE LKAIAGRNQR YKSYIGMGYS AVLMPPVILR
110 120 130 140 150
NVLENPGWYT AYTPYQPEVS QGRLEALLNF QQVTQDLTGL DLASASLLDE
160 170 180 190 200
ATAAAEAMAM AKRISKLKQA ERFFVADDVH PQTLDVVRTR AETFGFEIVV
210 220 230 240 250
GKAEDALKDD AVFGVLLQQV GTTGELHDYS DLMAALKARK VVSCVASDIM
260 270 280 290 300
ALVLLTAPGK QGADIVFGSA QRFGVPMGYG GPHAAFFACR DEHKRAMPGR
310 320 330 340 350
IIGVSRDAAG NTALRMAMQT REQHIRREKA NSNICTSQVL LANIAGMYAV
360 370 380 390 400
FHGPEGLKRI AGRIHRLTDI LAAGLTQGGL LLRHRSWFDT LTIEVADKDA
410 420 430 440 450
VLSRALSFGI NLRSDLASAV GITLDEATTR EDVLALFAVL LGDDHGLDIG
460 470 480 490 500
ALDAAISQQA ATIPAGLLRQ DAILSHPVFN RYHSETEMMR YLHRLARKDL
510 520 530 540 550
ALNQAMIPLG SCTMKLNAAA EMLPITWPEF AELHPFCPPE QALGYRQMIE
560 570 580 590 600
QLSGWLVQLT GYDAICMQPN SGAQGEYAGL LAIRRYHESR NEAGRHLCLI
610 620 630 640 650
PSSAHGTNPA SAQMAGMDVV VVACDKQGNI DLHDLREKAQ AAGEQLSCIM
660 670 680 690 700
VTYPSTHGVY EETIREVCQI VHQYGGQVYL DGANMNAQVG ITTPGYIGAD
710 720 730 740 750
VSHLNLHKTF CIPHGGGGPG MGPIGVKAHL APFVPGHQVV KIDGVLTEQG
760 770 780 790 800
AVSAAPFGSA SILPISWMYI RMMGAEGLKQ ASQMAILNAN YIATRLQQAY
810 820 830 840 850
PVLYTGRDGR VAHECILDIR PLKESTGISE MDIAKRLIDY GFHAPTMSFP
860 870 880 890 900
VAGTLMVEPT ESESQVEIDR FVDAMLAIRA EINRVAQGEW PLDDNPLVNA
910 920 930 940 950
PHTQAELVAD WAHPYSRELA VFPAGSEHKY WPSVKRLDDV YGDRNLFCSC

VPMSDY
Length:956
Mass (Da):103,905
Last modified:September 1, 2009 - v1
Checksum:i27B74740AAB76B49
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001657 Genomic DNA. Translation: ACT11679.1.
RefSeqiYP_003016215.1. NC_012917.1.

Genome annotation databases

EnsemblBacteriaiACT11679; ACT11679; PC1_0624.
KEGGipct:PC1_0624.
PATRICi20485832. VBIPecCar70489_0622.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001657 Genomic DNA. Translation: ACT11679.1.
RefSeqiYP_003016215.1. NC_012917.1.

3D structure databases

ProteinModelPortaliC6D8X1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi561230.PC1_0624.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACT11679; ACT11679; PC1_0624.
KEGGipct:PC1_0624.
PATRICi20485832. VBIPecCar70489_0622.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.

Enzyme and pathway databases

BioCyciPCAR561230:GKCK-647-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 sequence of Pectobacterium carotovorum subsp. carotovorum PC1."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Tice H., Bruce D., Goodwin L., Pitluck S., Munk A.C., Brettin T., Detter J.C., Han C., Tapia R., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N.
    , Balakrishnan V., Glasner J., Perna N.T.
    Submitted (JUL-2009) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PC1.

Entry informationi

Entry nameiGCSP_PECCP
AccessioniPrimary (citable) accession number: C6D8X1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: September 1, 2009
Last modified: April 29, 2015
This is version 44 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.