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Protein

Probable glycine dehydrogenase (decarboxylating) subunit 1

Gene

gcvPA

Organism
Parvibaculum lavamentivorans (strain DS-1 / DSM 13023 / NCIMB 13966)
Status
Reviewed-Annotation score: Annotation score: 2 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

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
  2. nucleoside metabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Enzyme and pathway databases

BioCyciPLAV402881:GHQA-700-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable glycine dehydrogenase (decarboxylating) subunit 1UniRule annotation (EC:1.4.4.2UniRule annotation)
Alternative name(s):
Glycine cleavage system P-protein subunit 1UniRule annotation
Glycine decarboxylase subunit 1UniRule annotation
Glycine dehydrogenase (aminomethyl-transferring) subunit 1UniRule annotation
Gene namesi
Name:gcvPAUniRule annotation
Ordered Locus Names:Plav_0690
OrganismiParvibaculum lavamentivorans (strain DS-1 / DSM 13023 / NCIMB 13966)
Taxonomic identifieri402881 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhodobiaceaeParvibaculum
ProteomesiUP000006377: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 448448Probable glycine dehydrogenase (decarboxylating) subunit 1PRO_1000072770Add
BLAST

Interactioni

Subunit structurei

The glycine cleavage system is composed of four proteins: P, T, L and H. In this organism, the P 'protein' is a heterodimer of two subunits.UniRule annotation

Protein-protein interaction databases

STRINGi402881.Plav_0690.

Structurei

3D structure databases

ProteinModelPortaliA7HQY0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the GcvP family. N-terminal subunit subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG0403.
HOGENOMiHOG000132025.
KOiK00282.
OMAiSMYDGST.
OrthoDBiEOG6XWV3B.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
HAMAPiMF_00712. GcvPA.
InterProiIPR023010. GcvPA.
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. 1 hit.
[Graphical view]
PIRSFiPIRSF006815. GcvPA. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.

Sequencei

Sequence statusi: Complete.

A7HQY0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRYLPLTEND RREMLGVIGA KSVDELFRDV PERARREGLV DLPRRQGELE
60 70 80 90 100
VERMLGRMAA KNTPAASVPF FVGAGAYRHH VPAAVDHLIQ RSEFLTSYTP
110 120 130 140 150
YQPEITQGTL QYLFEFQTQV AMITGMEVAN ASMYDGATGC GEAVLMAHRV
160 170 180 190 200
TKRRKAVLSG TLHPQYAAVV QNLSDFADYE LEVMPPALPG QAEDILAHIH
210 220 230 240 250
DDISCVVVQT PGFFGELHDL RPIAEAAHAK GALLIAVVPE ILSLGAVTPP
260 270 280 290 300
GEMGADIVVG EGQSIGNGLN FGGPYVGLFA TREKYMRQMP GRLCGETVDA
310 320 330 340 350
DGNRGFVLTL STREQHIRRE KATSNICTNS GLCCLAFTIH MSLLGEEGYK
360 370 380 390 400
RLARINHAAA VKLAERLAKV PGVEILNQAF FNEFTMRLPK PAAEVVDALV
410 420 430 440
DKGVIGGLPA SRLLPGVAEV EDLLIVASTE INTEADRAAY EAALKEVL
Length:448
Mass (Da):48,643
Last modified:September 11, 2007 - v1
Checksum:i2327A643B776FF8B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000774 Genomic DNA. Translation: ABS62313.1.
RefSeqiWP_011995604.1. NC_009719.1.
YP_001411970.1. NC_009719.1.

Genome annotation databases

EnsemblBacteriaiABS62313; ABS62313; Plav_0690.
GeneIDi5455940.
KEGGipla:Plav_0690.
PATRICi22862938. VBIParLav90819_0712.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000774 Genomic DNA. Translation: ABS62313.1.
RefSeqiWP_011995604.1. NC_009719.1.
YP_001411970.1. NC_009719.1.

3D structure databases

ProteinModelPortaliA7HQY0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi402881.Plav_0690.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABS62313; ABS62313; Plav_0690.
GeneIDi5455940.
KEGGipla:Plav_0690.
PATRICi22862938. VBIParLav90819_0712.

Phylogenomic databases

eggNOGiCOG0403.
HOGENOMiHOG000132025.
KOiK00282.
OMAiSMYDGST.
OrthoDBiEOG6XWV3B.

Enzyme and pathway databases

BioCyciPLAV402881:GHQA-700-MONOMER.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
HAMAPiMF_00712. GcvPA.
InterProiIPR023010. GcvPA.
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. 1 hit.
[Graphical view]
PIRSFiPIRSF006815. GcvPA. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "Complete genome sequence and annotation of Parvibaculum lavamentivorans DS-1."
    Copeland A., Lucas S., Lapidus A., Barry K., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Saunders E., Brettin T., Bruce D., Detter J.C., Han C., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Richardson P.
    Submitted (JUL-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DS-1 / DSM 13023 / NCIMB 13966.

Entry informationi

Entry nameiGCSPA_PARL1
AccessioniPrimary (citable) accession number: A7HQY0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 26, 2008
Last sequence update: September 11, 2007
Last modified: March 4, 2015
This is version 55 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.