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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Shigella flexneri
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

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:SF2889, S3088
OrganismiShigella flexneri
Taxonomic identifieri623 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeShigella
ProteomesiUP000002673 Componenti: Chromosome UP000001006 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11RemovedBy similarity
Chaini2 – 957956Glycine dehydrogenase (decarboxylating)PRO_0000166937Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei708 – 7081N6-(pyridoxal phosphate)lysineUniRule annotation

Proteomic databases

PaxDbiQ83QA2.
PRIDEiQ83QA2.

Interactioni

Subunit structurei

The glycine cleavage system is composed of four proteins: P, T, L and H.UniRule annotation

Protein-protein interaction databases

STRINGi198214.SF2889.

Structurei

3D structure databases

ProteinModelPortaliQ83QA2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the GcvP family.UniRule annotation

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiMAGMYAV.
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.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q83QA2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTQTLSQLEN SGAFIERHIG PDAAQQQEML NAVGAQSLNA LTGQIVPKDI
60 70 80 90 100
QLATPPQVGA PATEYAALAE LKAIASRNKR FTSYIGMGYT AVQLPPVILR
110 120 130 140 150
NMLENPGWYT AYTPYQPEVS QGRLEALLNF QQVTLDLTGL DMASASLLDE
160 170 180 190 200
ATAAAEAMAM AKRVSKLKNA NRFFVASNVH PQTLDVVRTR AETFGFEVIV
210 220 230 240 250
DDAQKVLDHQ DVFGVLLQQV GTTGEIHDYT ALISELKSRK IVVSVAADIM
260 270 280 290 300
ALVLLTAPGK QGADIVFGSA QRFGVPMGYG GPHAAFFAAK DEYKRSMPGR
310 320 330 340 350
IIGVSKDAAG NTALRMAMQT REQHIRREKA NSNICTSQVL LANIASLYAV
360 370 380 390 400
YHGPVGLKRI ANRIHRLTDI LAAGLQQKGL KLRHAHYFDT LCVEVADKAG
410 420 430 440 450
VLTRAEAAEI NLRSDILNAV GITLDETTTR ENVMQLFSVL LGDNHGLEID
460 470 480 490 500
TLDKDVAHDS RSIQPAMLRD DEILTHPVFN RYHSETEMMR YMHSLERKDL
510 520 530 540 550
ALNQAMIPLG SCTMKLNAAA EMIPITWTEF AELHPFCPPE QAEGYQQMIA
560 570 580 590 600
QLADWLVKLT GYDAVCMQPN SGAQGEYAGL LAIRHYHESR NEGHRDICLI
610 620 630 640 650
PASAHGTNPA SAHMAGMQVV VVACDKNGNI DLTDLRAKAE QAGDNLSCIM
660 670 680 690 700
VTYPSTHGVY EETIREVCEV VHQFGGQVYL DGANMNAQVG ITSPGFIGAD
710 720 730 740 750
VSHLNLHKTF CIPHGGGGPG MGPIGVKAHL APFVPGHSVV QIEGMLTRQG
760 770 780 790 800
AVSAAPFGSA SILPISWMYI RMMGAEGLKK ASQVAILNAN YIASRLQDAF
810 820 830 840 850
PVLYTGRDGR VAHECILDIR PLKEETGISE LDIAKRLIDY GFHAPTMSFP
860 870 880 890 900
VAGTLMVEPT ESESKVELDR FIDAMLAIRA EIDQVKAGVW PLEDNPLVNA
910 920 930 940 950
PHIQSELVAE WAHPYSREVA VFPAGVADKY WPTVKRLDDV YGDRNLFCSC

VPISEYQ
Length:957
Mass (Da):104,366
Last modified:January 23, 2007 - v3
Checksum:iA2C869BD5FD383D4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE005674 Genomic DNA. Translation: AAN44373.1.
AE014073 Genomic DNA. Translation: AAP18195.1.
RefSeqiNP_708666.1. NC_004337.2.
WP_000195082.1. NZ_JMRK01000033.1.

Genome annotation databases

EnsemblBacteriaiAAN44373; AAN44373; SF2889.
AAP18195; AAP18195; S3088.
GeneIDi1025878.
KEGGisfl:SF2889.
PATRICi18707864. VBIShiFle31049_3383.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE005674 Genomic DNA. Translation: AAN44373.1.
AE014073 Genomic DNA. Translation: AAP18195.1.
RefSeqiNP_708666.1. NC_004337.2.
WP_000195082.1. NZ_JMRK01000033.1.

3D structure databases

ProteinModelPortaliQ83QA2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi198214.SF2889.

Proteomic databases

PaxDbiQ83QA2.
PRIDEiQ83QA2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAN44373; AAN44373; SF2889.
AAP18195; AAP18195; S3088.
GeneIDi1025878.
KEGGisfl:SF2889.
PATRICi18707864. VBIShiFle31049_3383.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiMAGMYAV.
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.
ProtoNetiSearch...

Publicationsi

  1. "Genome sequence of Shigella flexneri 2a: insights into pathogenicity through comparison with genomes of Escherichia coli K12 and O157."
    Jin Q., Yuan Z., Xu J., Wang Y., Shen Y., Lu W., Wang J., Liu H., Yang J., Yang F., Zhang X., Zhang J., Yang G., Wu H., Qu D., Dong J., Sun L., Xue Y.
    , Zhao A., Gao Y., Zhu J., Kan B., Ding K., Chen S., Cheng H., Yao Z., He B., Chen R., Ma D., Qiang B., Wen Y., Hou Y., Yu J.
    Nucleic Acids Res. 30:4432-4441(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 301 / Serotype 2a.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700930 / 2457T / Serotype 2a.

Entry informationi

Entry nameiGCSP_SHIFL
AccessioniPrimary (citable) accession number: Q83QA2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 2, 2004
Last sequence update: January 23, 2007
Last modified: July 22, 2015
This is version 84 of the entry and version 3 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.