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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Streptomyces avermitilis (strain ATCC 31267 / DSM 46492 / JCM 5070 / NCIMB 12804 / NRRL 8165 / MA-4680)
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

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

BioCyciSAVE227882:GJU1-7083-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
Synonyms:gcvB
Ordered Locus Names:SAV_6987
OrganismiStreptomyces avermitilis (strain ATCC 31267 / DSM 46492 / JCM 5070 / NCIMB 12804 / NRRL 8165 / MA-4680)
Taxonomic identifieri227882 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesStreptomycineaeStreptomycetaceaeStreptomyces
ProteomesiUP000000428 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 961961Glycine dehydrogenase (decarboxylating)PRO_0000166938Add
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

STRINGi227882.SAV_6987.

Structurei

3D structure databases

ProteinModelPortaliQ827D7.
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.

Q827D7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTAHRIPLSD LEQGIPFEQR HIGPDSEARA KMLAQVGYGS LDELTATAVP
60 70 80 90 100
DVIKNAEALE LPGARTEAEV LAELRSLADR NQVLGSMIGL GYYGTFTPPV
110 120 130 140 150
ILRNVMENPA WYTAYTPYQP EISQGRLEAL LNFQTVVAEL TGLPTSGASL
160 170 180 190 200
LDEGTAAAEA MALSRRMGKN KKGLFLVDAD ALPQTIAVIE TRAEPTGVEV
210 220 230 240 250
VVADLSEGIP AGIAEREING VLIQYPGASG AVRDIKPLVE QAHELGAVVT
260 270 280 290 300
VAADLLALTL LTSPGELGAD IAVGTTQRFG VPMGFGGPHA GYMAVREKFA
310 320 330 340 350
RSLPGRLVGV SVDADGHKAY RLALQTREQH IRREKATSNI CTAQVLLAVM
360 370 380 390 400
AGMYAVYHGP DGLRTIARRT HRYATILAEG LKAGGVEVVH GAYFDTLTAR
410 420 430 440 450
VPGRAAEIVA AAREGGVNLH LVDADLVSIS CDETTTRAQL GAVWTAFGVE
460 470 480 490 500
GDIEALDAAA EDTLPAALLR TDDYLTHPVF HQYRSETAML RYLRRLSDRD
510 520 530 540 550
YALDRGMIPL GSCTMKLNAT TEMEPVTWPE FGQLHPFAPA EQAQGYLTLI
560 570 580 590 600
RELEERLAEV TGYDKVSLQP NAGSQGELAG LLAVRGYHRA NGDEQRTVCL
610 620 630 640 650
IPSSAHGTNA ASAVMAGMKV VVVKTADDGE IDVEDLRAKI EQYRDELSVL
660 670 680 690 700
MITYPSTHGV FEEHVADICA QVHEAGGQVY VDGANLNALV GLAKPGHFGG
710 720 730 740 750
DVSHLNLHKT FCIPHGGGGP GVGPVGVRAH LAPYLPNHPL QPEAGPATGV
760 770 780 790 800
GPISAAPWGS AGILPISWSY VRLMGGEGLK RATQVAVLSA NYIAKRLEPH
810 820 830 840 850
YPVLYTGPGG LVAHECIIDL RPLTKATGVS VDDIAKRLID YGFHAPTMSF
860 870 880 890 900
PVAGTLMIEP TESEDLGELD RFCEAMIAIR AEVEKVGSGE WPAEDNPLRN
910 920 930 940 950
APHTAAALGG EWEHAYSREE AVFPAGVSAA DKYWPPVRRI DQAFGDRNLV
960
CSCPPLDAYD D
Length:961
Mass (Da):102,650
Last modified:September 19, 2003 - v2
Checksum:iFC4CB0D2E06C32DD
GO

Sequence cautioni

The sequence BAC74698.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000030 Genomic DNA. Translation: BAC74698.1. Different initiation.
RefSeqiNP_828163.1. NC_003155.4.
WP_010988382.1. NC_003155.4.
WP_037646993.1. NZ_BAVY01000018.1.

Genome annotation databases

EnsemblBacteriaiBAC74698; BAC74698; SAV_6987.
KEGGisma:SAV_6987.
PATRICi23728124. VBIStrAve112782_7401.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000030 Genomic DNA. Translation: BAC74698.1. Different initiation.
RefSeqiNP_828163.1. NC_003155.4.
WP_010988382.1. NC_003155.4.
WP_037646993.1. NZ_BAVY01000018.1.

3D structure databases

ProteinModelPortaliQ827D7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi227882.SAV_6987.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC74698; BAC74698; SAV_6987.
KEGGisma:SAV_6987.
PATRICi23728124. VBIStrAve112782_7401.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.

Enzyme and pathway databases

BioCyciSAVE227882:GJU1-7083-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. "Genome sequence of an industrial microorganism Streptomyces avermitilis: deducing the ability of producing secondary metabolites."
    Omura S., Ikeda H., Ishikawa J., Hanamoto A., Takahashi C., Shinose M., Takahashi Y., Horikawa H., Nakazawa H., Osonoe T., Kikuchi H., Shiba T., Sakaki Y., Hattori M.
    Proc. Natl. Acad. Sci. U.S.A. 98:12215-12220(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 31267 / DSM 46492 / JCM 5070 / NCIMB 12804 / NRRL 8165 / MA-4680.
  2. "Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis."
    Ikeda H., Ishikawa J., Hanamoto A., Shinose M., Kikuchi H., Shiba T., Sakaki Y., Hattori M., Omura S.
    Nat. Biotechnol. 21:526-531(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 31267 / DSM 46492 / JCM 5070 / NCIMB 12804 / NRRL 8165 / MA-4680.

Entry informationi

Entry nameiGCSP_STRAW
AccessioniPrimary (citable) accession number: Q827D7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 19, 2003
Last sequence update: September 19, 2003
Last modified: May 27, 2015
This is version 79 of the entry and version 2 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.