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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Burkholderia phytofirmans (strain DSM 17436 / PsJN)
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

BioCyciBPHY398527:GJEX-3945-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:Bphyt_3882
OrganismiBurkholderia phytofirmans (strain DSM 17436 / PsJN)
Taxonomic identifieri398527 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeBurkholderia
ProteomesiUP000001739 Componenti: Chromosome 1

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 978978Glycine dehydrogenase (decarboxylating)PRO_1000190211Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei726 – 7261N6-(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

STRINGi398527.Bphyt_3882.

Structurei

3D structure databases

ProteinModelPortaliB2T7I8.
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.

B2T7I8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKLEHPDRLM NRTPLSLAAL EVHDAFAERH IGPDAADQHA MLEALGFASR
60 70 80 90 100
AALIDAVIPK TIRRTETLPL GPFTQPKSEA EALAALRELA DKNQVFRSYI
110 120 130 140 150
GQGYYNAHTP TVILRNVLEN PAWYTAYTPY QPEISQGRLE ALLNFQQMIV
160 170 180 190 200
DLTGLAISNA SLLDEATAAA EAMTLLQRVG KPKSNVFFVA DDVLPQTIEV
210 220 230 240 250
VRTRATPVGI EVKVGPASEA ANANAFGVLL QYPGVNGDVR DYRALTEAIH
260 270 280 290 300
AAGGHVVVAA DLLALTVLTP PGEWGADVAV GNTQRFGVPV GFGGPHAAYL
310 320 330 340 350
AVRDEFKRQM PGRLVGVTVD AQGNPALRLA LQTREQHIRR EKATSNVCTA
360 370 380 390 400
QALLAIMASM YAVYHGPHGL KTIALRVNRI AALLAEGAKQ LGYTLANETF
410 420 430 440 450
FDTLTFDTGA RTQALLDAAT AKRINLRRVS ATQVGLSIDE TTTRHDLADL
460 470 480 490 500
LAVFAQAAFT NDVPQVDALD AKLAASNTAS VPAALERTSA YLTHHVFNRH
510 520 530 540 550
HSETEMLRYL RSLSDKDLAL DRSMIPLGSC TMKLNATSEM LPVTWPEFGQ
560 570 580 590 600
IHPFAPAEQT VGYREMIDQL EEMLVAATGY AAVSLQPNAG SQGEYAGLLI
610 620 630 640 650
IHAYHASRGE AHRNVCLIPA SAHGTNPASA QMAGMQVVVV ACDAQGNVDI
660 670 680 690 700
EDLKKKAGQH ADKLAAIMIT YPSTHGVFEQ NVREICEIVH AHGGQVYVDG
710 720 730 740 750
ANMNAMVGLT APGQFGGDVS HLNLHKTFCI PHGGGGPGVG PVAVGAHLAQ
760 770 780 790 800
FLPNQISSGY ERAPNGIGAV SGAPYGSASI LPISWMYIAM MGAKNLTAAT
810 820 830 840 850
ETAILNANYV AKKLAPHYPV LYSGPGGLVA HECILDLRPI KETSGITVDD
860 870 880 890 900
VAKRLADYGF HAPTMSFPVP GTLMVEPTES ESKEELDRFI EAMIAIREEI
910 920 930 940 950
RAVEDGRSDR EDNPLKHAPH TAAVVIANDW KHAYARETAA YPLPTLIAKK
960 970
YWPPVGRADN VYGDRNLFCS CVPIADYE
Length:978
Mass (Da):105,136
Last modified:July 1, 2008 - v1
Checksum:iB2DA4FFE230474A5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001052 Genomic DNA. Translation: ACD18269.1.
RefSeqiYP_001897493.1. NC_010681.1.

Genome annotation databases

EnsemblBacteriaiACD18269; ACD18269; Bphyt_3882.
KEGGibpy:Bphyt_3882.
PATRICi19218389. VBIBurPhy117947_7924.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001052 Genomic DNA. Translation: ACD18269.1.
RefSeqiYP_001897493.1. NC_010681.1.

3D structure databases

ProteinModelPortaliB2T7I8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi398527.Bphyt_3882.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACD18269; ACD18269; Bphyt_3882.
KEGGibpy:Bphyt_3882.
PATRICi19218389. VBIBurPhy117947_7924.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.

Enzyme and pathway databases

BioCyciBPHY398527:GJEX-3945-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. "Complete sequence of chromosome 1 of Burkholderia phytofirmans PsJN."
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Chain P., Malfatti S., Shin M., Vergez L., Lang D., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N.
    , Nowak J., Sessitsch A., Lazarovits G., Compant S., Barka E., Tiedje J.
    Submitted (APR-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 17436 / PsJN.

Entry informationi

Entry nameiGCSP_BURPP
AccessioniPrimary (citable) accession number: B2T7I8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: July 1, 2008
Last modified: April 1, 2015
This is version 52 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.