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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Dinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)
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

BioCyciDSHI398580:GKEL-2717-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:Dshi_2680
OrganismiDinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)
Taxonomic identifieri398580 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeDinoroseobacter
ProteomesiUP000006833 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 954954Glycine dehydrogenase (decarboxylating)PRO_1000083205Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei700 – 7001N6-(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

STRINGi398580.Dshi_2680.

Structurei

3D structure databases

ProteinModelPortaliA8LIH2.
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.

A8LIH2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGFSLTDYAP YDFANRRHIG PSPKEMGQML ATLGVPSLEA LINEALPEGI
60 70 80 90 100
RRRDPLAFGP ALSERDTLHR MRELADKNTV LTSLIGQGYH GTHTPPVILR
110 120 130 140 150
NILENPAWYT AYTPYQPEIS QGRLEALLNF QTMMADLTGL PIANASLLDE
160 170 180 190 200
GTAAAEAMAM AQRASKSKAR GFFVAEDCHP QTIDVIRTRA EPLGIEVIVG
210 220 230 240 250
AVDALDPEAV FAALFQYPGS YGHVRDYSDV IEALHGARAL AVVAADPLAL
260 270 280 290 300
TLLKSPGEMG ADIAIGSTQR FGVPMGYGGP HAAYMTCTDA LKRSMPGRII
310 320 330 340 350
GVSVDARGNK AYRLSLQTRE QHIRREKANS NVCTAQALLA VMASMYGVFH
360 370 380 390 400
GPDGLKAIAQ TVHRKTARMA DGLTELGFKV DPQDYFDTIT VKVGSMQGVI
410 420 430 440 450
LAAALREGVN LRKVGTDRIG ITLDELTLGR TIEAVWRAFG AEGMVYDKTR
460 470 480 490 500
MVYHLPQEML RESSYMTHPI FHMNRAEAEM TRYMRRLADR DLALDRAMIP
510 520 530 540 550
LGSCTMKLNA TVEMLPLTWP EFANLHPFAP ADQAAGYHEM IAELSQMLCD
560 570 580 590 600
VTGYDAMSMQ PNSGAQGEYA GLLAIRGYHR ARGEGHRNIC LIPTSAHGTN
610 620 630 640 650
PASAQMVGWK VVVVKSAENG DIDLEDFRAK AEQHSENLAG CMITYPSTHG
660 670 680 690 700
VFEEIVREVC DITHAHGGQV YIDGANMNAM VGLSAPGDLG GDVSHLNLHK
710 720 730 740 750
TFCIPHGGGG PGMGPIGVKA HLAPHLPSHA TATGAGFGDA GAVASAAYGS
760 770 780 790 800
PSILTISYAY CLLMGGAGLT QATKVAILNA NYMAKRLSAG FPILYANDKG
810 820 830 840 850
RVAHECILDT RVLDKIAGVT VEDVAKRLMD CGFHAPTMSW PVAGTLMVEP
860 870 880 890 900
TESEPKAELD RFCDAMLAIR EEADAIAAGS LDAENNPLKR APHTVEDLVG
910 920 930 940 950
DWDRPYSREQ ACYPPGAFRV DKYWPPVNRV DNAYGDRNLV CTCPPVEDYA

EPAE
Length:954
Mass (Da):103,117
Last modified:December 4, 2007 - v1
Checksum:i1603D6202E390F42
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000830 Genomic DNA. Translation: ABV94413.1.
RefSeqiWP_012179341.1. NC_009952.1.
YP_001534014.1. NC_009952.1.

Genome annotation databases

EnsemblBacteriaiABV94413; ABV94413; Dshi_2680.
KEGGidsh:Dshi_2680.
PATRICi21818109. VBIDinShi9476_2787.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000830 Genomic DNA. Translation: ABV94413.1.
RefSeqiWP_012179341.1. NC_009952.1.
YP_001534014.1. NC_009952.1.

3D structure databases

ProteinModelPortaliA8LIH2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi398580.Dshi_2680.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABV94413; ABV94413; Dshi_2680.
KEGGidsh:Dshi_2680.
PATRICi21818109. VBIDinShi9476_2787.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.

Enzyme and pathway databases

BioCyciDSHI398580:GKEL-2717-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 16493 / NCIMB 14021 / DFL 12.

Entry informationi

Entry nameiGCSP_DINSH
AccessioniPrimary (citable) accession number: A8LIH2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: December 4, 2007
Last modified: April 29, 2015
This is version 57 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.