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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Shewanella amazonensis (strain ATCC BAA-1098 / SB2B)
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

BioCyciSAMA326297:GH0T-2834-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:Sama_2719
OrganismiShewanella amazonensis (strain ATCC BAA-1098 / SB2B)
Taxonomic identifieri326297 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesShewanellaceaeShewanella
ProteomesiUP000009175: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 962962Glycine dehydrogenase (decarboxylating)PRO_1000045606Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei709 – 7091N6-(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

STRINGi326297.Sama_2719.

Structurei

3D structure databases

ProteinModelPortaliA1S965.
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.

A1S965-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTKQTLTELE QHELFLTRHI GPDADEQQAM LNYVGAESLE DLTAQIVPES
60 70 80 90 100
IRLGRELNVG ASNGEAAGLA YIRQLADKNQ VFKSYIGMGY HGTEVPNVIL
110 120 130 140 150
RNVLENPGWY TAYTPYQPEI AQGRLEAILN FQQLSIDLTG LDLASASLLD
160 170 180 190 200
EATAAAEAMA LAKRVSKAKK ANTFFVADDV FPQTLDVVKT RAECFGFDIV
210 220 230 240 250
TGPAAEAANH DDLFGALFQY TNRQGQLTDF TELFAQLRAK NVIVTVGADI
260 270 280 290 300
MSLVLLKSPG AMGADVVFGS AQRFGVPMGF GGPHAAFFVS KDEHKRSMPG
310 320 330 340 350
RIIGVSKDTR GKTALRMAMQ TREQHIRREK ANSNICTAQV LLANMASFYA
360 370 380 390 400
VFHGPQGLKV IANRIHRLTD ILAAGLAAKG VTVLNTQWFD TLSFKVDVDA
410 420 430 440 450
VRARALAAGV NLRYDADGVV GVSLAETTTR ADVAELFDII LGAGHGLDVA
460 470 480 490 500
AIDADILAKG SSSIPAALVR EEAFLTHPTF NSYHSETEMM RYIKRLENKD
510 520 530 540 550
LALNHSMISL GSCTMKLNAA VEMIPVSWPE FANMHPFCPS EQAQGYTQLI
560 570 580 590 600
GELSDWLVDI TGYDAVCMQP NSGAQGEYAG LLAIRKYHES RGEGHRDVCL
610 620 630 640 650
IPQSAHGTNP ASAQLAGMKV VVTACDKQGN VDLDDLRAKA AEVAENLSCI
660 670 680 690 700
MITYPSTHGV YEETVREICD IIHQHGGQVY LDGANMNAQV GLTAPGFIGA
710 720 730 740 750
DVSHLNLHKT FAIPHGGGGP GMGPIGVKKH LAPFVAGHAV VKQGIESDNN
760 770 780 790 800
GAVSAAPFGS AGILPISWMY IKLLGSKGLK QSTQTAMLNA NYLTKKLSEH
810 820 830 840 850
YPVLYRGRND RIAHECIIDM RPLKEASGVT EMDVAKRLND YGFHAPTMSF
860 870 880 890 900
PVAGTLMIEP TESESKAELD RFIEAMVAIR GEIARVESGE WPVDNNPLAN
910 920 930 940 950
APHTMDDIMD PAFDSRPYSR ELAVFPTESV RANKFWPTVN RIDDVYGDRN
960
LFCACVPMSD YE
Length:962
Mass (Da):104,438
Last modified:February 6, 2007 - v1
Checksum:i61179B208FD5969C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000507 Genomic DNA. Translation: ABM00922.1.
RefSeqiWP_011760827.1. NC_008700.1.
YP_928591.1. NC_008700.1.

Genome annotation databases

EnsemblBacteriaiABM00922; ABM00922; Sama_2719.
GeneIDi4604966.
KEGGisaz:Sama_2719.
PATRICi23454285. VBISheAma74963_2794.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000507 Genomic DNA. Translation: ABM00922.1.
RefSeqiWP_011760827.1. NC_008700.1.
YP_928591.1. NC_008700.1.

3D structure databases

ProteinModelPortaliA1S965.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi326297.Sama_2719.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABM00922; ABM00922; Sama_2719.
GeneIDi4604966.
KEGGisaz:Sama_2719.
PATRICi23454285. VBISheAma74963_2794.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.

Enzyme and pathway databases

BioCyciSAMA326297:GH0T-2834-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: ATCC BAA-1098 / SB2B.

Entry informationi

Entry nameiGCSP_SHEAM
AccessioniPrimary (citable) accession number: A1S965
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: February 6, 2007
Last modified: February 4, 2015
This is version 61 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.