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Protein

Phosphoribosylamine--glycine ligase

Gene

purD

Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Catalytic activityi

ATP + 5-phospho-D-ribosylamine + glycine = ADP + phosphate + N1-(5-phospho-D-ribosyl)glycinamide.UniRule annotation

Cofactori

Mg2+By similarity, Mn2+By similarityNote: Binds 2 magnesium or manganese ions per subunit.By similarity

Pathwayi: IMP biosynthesis via de novo pathway

This protein is involved in step 2 of the subpathway that synthesizes N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-alpha-D-ribose 1-diphosphate.UniRule annotation
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. Amidophosphoribosyltransferase (purF)
  2. Phosphoribosylamine--glycine ligase (purD)
This subpathway is part of the pathway IMP biosynthesis via de novo pathway, which is itself part of Purine metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-alpha-D-ribose 1-diphosphate, the pathway IMP biosynthesis via de novo pathway and in Purine metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi274Magnesium or manganese 1UniRule annotation1
Metal bindingi286Magnesium or manganese 1UniRule annotation1
Metal bindingi286Magnesium or manganese 2UniRule annotation1
Metal bindingi288Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi135 – 194ATPUniRule annotationAdd BLAST60

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLigase
Biological processPurine biosynthesis
LigandATP-binding, Magnesium, Manganese, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciPHOR70601:G1G39-307-MONOMER
UniPathwayiUPA00074; UER00125

Names & Taxonomyi

Protein namesi
Recommended name:
Phosphoribosylamine--glycine ligaseUniRule annotation (EC:6.3.4.13UniRule annotation)
Alternative name(s):
GARSUniRule annotation
Glycinamide ribonucleotide synthetaseUniRule annotation
Phosphoribosylglycinamide synthetaseUniRule annotation
Gene namesi
Name:purDUniRule annotation
Ordered Locus Names:PH0323
OrganismiPyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Taxonomic identifieri70601 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000752 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001515161 – 438Phosphoribosylamine--glycine ligaseAdd BLAST438

Interactioni

Protein-protein interaction databases

STRINGi70601.PH0323

Structurei

3D structure databases

ProteinModelPortaliO58061
SMRiO58061
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini108 – 316ATP-graspUniRule annotationAdd BLAST209

Sequence similaritiesi

Belongs to the GARS family.UniRule annotation

Phylogenomic databases

eggNOGiarCOG04415 Archaea
COG0151 LUCA
HOGENOMiHOG000033464
KOiK01945
OMAiKATVCKY
OrthoDBiPOG093Z02WG

Family and domain databases

Gene3Di3.30.1490.20, 1 hit
3.90.600.10, 1 hit
HAMAPiMF_00138 GARS, 1 hit
InterProiView protein in InterPro
IPR011761 ATP-grasp
IPR013815 ATP_grasp_subdomain_1
IPR016185 PreATP-grasp_dom_sf
IPR020561 PRibGlycinamid_synth_ATP-grasp
IPR000115 PRibGlycinamide_synth
IPR020560 PRibGlycinamide_synth_C-dom
IPR037123 PRibGlycinamide_synth_C_sf
IPR020559 PRibGlycinamide_synth_CS
IPR020562 PRibGlycinamide_synth_N
IPR011054 Rudment_hybrid_motif
PfamiView protein in Pfam
PF01071 GARS_A, 1 hit
PF02843 GARS_C, 1 hit
PF02844 GARS_N, 1 hit
SMARTiView protein in SMART
SM01210 GARS_C, 1 hit
SUPFAMiSSF51246 SSF51246, 1 hit
SSF52440 SSF52440, 1 hit
TIGRFAMsiTIGR00877 purD, 1 hit
PROSITEiView protein in PROSITE
PS50975 ATP_GRASP, 1 hit
PS00184 GARS, 1 hit

Sequencei

Sequence statusi: Complete.

O58061-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKVLLVGGGG REHAIGEALV KGGAELYVVS NHRNPGLMRL AKDYGLAKET
60 70 80 90 100
NVEDVIKFAR KWGIELAFIG PEAPLEAGIV NALEEEGIPA VGPTREAARL
110 120 130 140 150
ETNKAWAREF MERNNIPGRK MFRIFDDVQE MRKWIDEYGK PVVVKPLGLT
160 170 180 190 200
GGKGVKVVGY QLKDNEEAKE YAEHIIRKDG KVLIEERTDG VEFTLQVFTD
210 220 230 240 250
GKKVIPMPLV QDYPHAYEGD VGPITGGMGS YSCSNHLLPF ITEGDFERAL
260 270 280 290 300
KTLEETIEAM RKEGYPYKGI LYGQFMLSGE GPVLIEYNAR FGDPEAINVL
310 320 330 340 350
AVLDDNLLEI AKGIVEGSLR KAKFLNKATV VKYIAPQGYP QDPIKGIRIE
360 370 380 390 400
VDEEGIKNEG AKIIYAAVDE NLTLLGSRAL AIVGVADSLE EAERIAENGV
410 420 430
SYVKGPIFYR KDVGTRESVE KRIEIMKKLG KEFEPNLC
Length:438
Mass (Da):48,458
Last modified:August 1, 1998 - v1
Checksum:i396EED8AF69A7805
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA Translation: BAA29397.1
PIRiH71138
RefSeqiWP_010884418.1, NC_000961.1

Genome annotation databases

EnsemblBacteriaiBAA29397; BAA29397; BAA29397
GeneIDi1444205
KEGGipho:PH0323

Similar proteinsi

Entry informationi

Entry nameiPUR2_PYRHO
AccessioniPrimary (citable) accession number: O58061
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: August 1, 1998
Last modified: April 25, 2018
This is version 114 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

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