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Protein

Phosphoribosylamine--glycine ligase

Gene

purD

Organism
Wigglesworthia glossinidia brevipalpis
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalytic activityi

ATP + 5-phospho-D-ribosylamine + glycine = ADP + phosphate + N(1)-(5-phospho-D-ribosyl)glycinamide.UniRule annotation

Cofactori

Mg2+By similarity, Mn2+By similarityNote: Binds 1 Mg(2+) or Mn2+ ion per subunit.By similarity

Pathway:iIMP 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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi286 – 2861Magnesium or manganeseUniRule annotation
Metal bindingi288 – 2881Magnesium or manganeseUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi135 – 19662ATPUniRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Purine biosynthesis

Keywords - Ligandi

ATP-binding, Magnesium, Manganese, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

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:WIGBR5100
OrganismiWigglesworthia glossinidia brevipalpis
Taxonomic identifieri36870 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeWigglesworthia
ProteomesiUP000000562 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 434434Phosphoribosylamine--glycine ligasePRO_0000151501Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi36870.WGLp510.

Structurei

3D structure databases

ProteinModelPortaliQ8D245.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini109 – 316208ATP-graspUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the GARS family.UniRule annotation
Contains 1 ATP-grasp domain.UniRule annotation

Phylogenomic databases

eggNOGiCOG0151.
KOiK01945.
OMAiHKIPTAD.
OrthoDBiEOG69SKD1.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
3.40.50.20. 1 hit.
3.90.600.10. 1 hit.
HAMAPiMF_00138. GARS.
InterProiIPR011761. ATP-grasp.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
IPR016185. PreATP-grasp_dom.
IPR020561. PRibGlycinamid_synth_ATP-grasp.
IPR000115. PRibGlycinamide_synth.
IPR020560. PRibGlycinamide_synth_C-dom.
IPR020559. PRibGlycinamide_synth_CS.
IPR020562. PRibGlycinamide_synth_N.
IPR011054. Rudment_hybrid_motif.
[Graphical view]
PfamiPF01071. GARS_A. 1 hit.
PF02843. GARS_C. 1 hit.
PF02844. GARS_N. 1 hit.
[Graphical view]
SUPFAMiSSF51246. SSF51246. 1 hit.
SSF52440. SSF52440. 1 hit.
TIGRFAMsiTIGR00877. purD. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
PS00184. GARS. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8D245-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNILVVGNGG REHAISWKIA QSIFSKKIYV APGNAGTEID YKLKNIDISS
60 70 80 90 100
NDINKLVKFA KEKKIDLTIV GPEEPLSNGI SDVFSYYKLP IFGPKKFSAK
110 120 130 140 150
LESSKIFAKN FLNKYNIPTA RHKEFSDQKL AIKYLNRVKF PIVIKVDGLA
160 170 180 190 200
FGKGVKIIKN IKESEKFILD VLVKKKFGMS GSKILIEDML HGEEISFTAI
210 220 230 240 250
INNNGFLPMA ISQDHKKSGD KDTGLNTGGM GAYSPVSFVT SSIYNNIIKD
260 270 280 290 300
ILLPTLYGMK KENLIYTGIL YIGIMIDYNN NVNVIEFNCR FGDPEAQSIL
310 320 330 340 350
FRMKSDFLLH ILSAMYGNLD SQIIELDNRY SLGIVLATKS YPKKYPIGLN
360 370 380 390 400
ILGNFENELK DTKIFHSSTK NINKNLTTNG GRVLCITSLG KSIEDAQKKS
410 420 430
KIVANSINWQ GKFFRNDIGN REIFYLKKYK NYKF
Length:434
Mass (Da):48,909
Last modified:March 1, 2003 - v1
Checksum:i216E313BDE34FC53
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000021 Genomic DNA. Translation: BAC24656.1.
RefSeqiWP_011070314.1. NC_004344.2.

Genome annotation databases

EnsemblBacteriaiBAC24656; BAC24656; BAC24656.
KEGGiwbr:WGLp510.
PATRICi24025248. VBIWigGlo15804_0550.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000021 Genomic DNA. Translation: BAC24656.1.
RefSeqiWP_011070314.1. NC_004344.2.

3D structure databases

ProteinModelPortaliQ8D245.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi36870.WGLp510.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC24656; BAC24656; BAC24656.
KEGGiwbr:WGLp510.
PATRICi24025248. VBIWigGlo15804_0550.

Phylogenomic databases

eggNOGiCOG0151.
KOiK01945.
OMAiHKIPTAD.
OrthoDBiEOG69SKD1.

Enzyme and pathway databases

UniPathwayiUPA00074; UER00125.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
3.40.50.20. 1 hit.
3.90.600.10. 1 hit.
HAMAPiMF_00138. GARS.
InterProiIPR011761. ATP-grasp.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
IPR016185. PreATP-grasp_dom.
IPR020561. PRibGlycinamid_synth_ATP-grasp.
IPR000115. PRibGlycinamide_synth.
IPR020560. PRibGlycinamide_synth_C-dom.
IPR020559. PRibGlycinamide_synth_CS.
IPR020562. PRibGlycinamide_synth_N.
IPR011054. Rudment_hybrid_motif.
[Graphical view]
PfamiPF01071. GARS_A. 1 hit.
PF02843. GARS_C. 1 hit.
PF02844. GARS_N. 1 hit.
[Graphical view]
SUPFAMiSSF51246. SSF51246. 1 hit.
SSF52440. SSF52440. 1 hit.
TIGRFAMsiTIGR00877. purD. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
PS00184. GARS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Genome sequence of the endocellular obligate symbiont of tsetse flies, Wigglesworthia glossinidia."
    Akman L., Yamashita A., Watanabe H., Oshima K., Shiba T., Hattori M., Aksoy S.
    Nat. Genet. 32:402-407(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Entry informationi

Entry nameiPUR2_WIGBR
AccessioniPrimary (citable) accession number: Q8D245
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2003
Last sequence update: March 1, 2003
Last modified: July 22, 2015
This is version 75 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. 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.