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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
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

BioCyciRSPH272943:GJAS-805-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:RHOS4_07820
ORF Names:RSP_2195
OrganismiRhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
Taxonomic identifieri272943 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeRhodobacter
ProteomesiUP000002703 Componenti: Chromosome 1

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 956956Glycine dehydrogenase (decarboxylating)PRO_0000227124Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei697 – 6971N6-(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

STRINGi272943.RSP_2195.

Structurei

3D structure databases

ProteinModelPortaliQ3J4D4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the GcvP family.UniRule annotation

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.
PhylomeDBiQ3J4D4.

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.

Q3J4D4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSFTPTDYNA YDFANRRHIG PSPSEMEEML RVVGVSSLDQ LIEETVPASI
60 70 80 90 100
RQETPLDWAP LAEHELLARM REVAAKNRVM TSLIGQGYYG TVTPPAIQRN
110 120 130 140 150
ILENPAWYTA YTPYQPEIAQ GRLEALLNYQ TMVADLTGLP VANASLLDEA
160 170 180 190 200
TAAAEAMTMA ERASKSKARA FFVDADCHPQ TISVIRTRAE PLGIEVIVGH
210 220 230 240 250
PAQLVPEDVF GALFQYPGTY GLVRDFTRDI AALHEAKALA VVATDLLALC
260 270 280 290 300
LLKEPGAMGA DIAIGSSQRF GVPMGYGGPH AAFMSCKDDL KRSMPGRLVG
310 320 330 340 350
VSVDARGNKA YRLALQTREQ HIRREKATSN VCTAQALLAV MASFYAVFHG
360 370 380 390 400
PRGLRAIAER VHLNTVRLAT ALKEAGARVS PEAFFDTITV EVGVGQAGIL
410 420 430 440 450
AAARHRGINL RKVGRDRVGI SLDETTDAGV IARVLDAFGI HEPAPAKVGL
460 470 480 490 500
GFPEPLLRET GYLSHPVFQM NRAESEMMRY MRRLSDRDLA LDRAMIPLGS
510 520 530 540 550
CTMKLNAAAE MMPITWPEFG TLHPFAPADQ AAGYHEAIGD LAQRLCRITG
560 570 580 590 600
YDAMSMQPNS GAQGEYAGLL TILAYHRARG DAERTICLIP VSAHGTNPAS
610 620 630 640 650
AQMAGMKVVV VKSAPNGDVD LEDFRDKAAA AGDRLAACMI TYPSTHGVFE
660 670 680 690 700
ETVREVCRIT HEHGGQVYID GANMNAMVGL VQPGAIGGDV SHLNLHKTFA
710 720 730 740 750
IPHGGGGPGM GPIGVKAHLA PYLPGHPEVT GPLTGGHDEA ADEGPVSAAP
760 770 780 790 800
YGSASILLIS WAYCLMMGGE GLTQATRVAI LNANYIAARL RGAYKVLFMG
810 820 830 840 850
NRGRVAHECI LDTRPFAEAG VTVDDIAKRL IDNGFHAPTM SWPVPGTLMV
860 870 880 890 900
EPTESETKAE IDRFVAALLA IREEIRAVEE GEIAAADSPL RHAPHTVEDL
910 920 930 940 950
VADWDRKYPR EQGCFPPGSF RVDKYWPPVG RVDNAWGDRN LVCTCPPVES

YSIAAQ
Length:956
Mass (Da):103,086
Last modified:November 7, 2005 - v1
Checksum:i04DE9600138B50B3
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000143 Genomic DNA. Translation: ABA78350.1.
RefSeqiYP_352251.1. NC_007493.2.

Genome annotation databases

EnsemblBacteriaiABA78350; ABA78350; RSP_2195.
GeneIDi3719724.
KEGGirsp:RSP_2195.
PATRICi23151402. VBIRhoSph57909_1095.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000143 Genomic DNA. Translation: ABA78350.1.
RefSeqiYP_352251.1. NC_007493.2.

3D structure databases

ProteinModelPortaliQ3J4D4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272943.RSP_2195.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABA78350; ABA78350; RSP_2195.
GeneIDi3719724.
KEGGirsp:RSP_2195.
PATRICi23151402. VBIRhoSph57909_1095.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiRAESEMT.
OrthoDBiEOG6HMXDX.
PhylomeDBiQ3J4D4.

Enzyme and pathway databases

BioCyciRSPH272943:GJAS-805-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 Rhodobacter sphaeroides 2.4.1."
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Richardson P., Mackenzie C., Choudhary M., Larimer F., Hauser L.J., Land M., Donohue T.J., Kaplan S.
    Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158.

Entry informationi

Entry nameiGCSP_RHOS4
AccessioniPrimary (citable) accession number: Q3J4D4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 6, 2006
Last sequence update: November 7, 2005
Last modified: January 6, 2015
This is version 63 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.