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Protein

Phosphoribosylamine--glycine ligase

Gene

purD

Organism
Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi273 – 2731Magnesium or manganeseUniRule annotation
Metal bindingi275 – 2751Magnesium or manganeseUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi125 – 18662ATPUniRule 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

BioCyciTMAR243274:GC6P-1281-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:TM_1250
OrganismiThermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
Taxonomic identifieri243274 [NCBI]
Taxonomic lineageiBacteriaThermotogaeThermotogalesThermotogaceaeThermotoga
ProteomesiUP000008183 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 400400Phosphoribosylamine--glycine ligasePRO_0000151495Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi243274.TM1250.

Structurei

Secondary structure

1
400
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi5 – 106Combined sources
Helixi13 – 2412Combined sources
Beta strandi28 – 336Combined sources
Helixi38 – 403Combined sources
Beta strandi42 – 443Combined sources
Helixi50 – 545Combined sources
Helixi67 – 693Combined sources
Beta strandi81 – 833Combined sources
Helixi86 – 938Combined sources
Helixi95 – 10410Combined sources
Beta strandi112 – 1176Combined sources
Helixi118 – 1258Combined sources
Beta strandi130 – 1389Combined sources
Beta strandi145 – 1506Combined sources
Helixi151 – 16212Combined sources
Beta strandi165 – 1673Combined sources
Beta strandi174 – 1785Combined sources
Beta strandi182 – 19211Combined sources
Beta strandi195 – 1984Combined sources
Beta strandi207 – 2093Combined sources
Turni210 – 2123Combined sources
Beta strandi213 – 2164Combined sources
Beta strandi220 – 2245Combined sources
Helixi230 – 24920Combined sources
Beta strandi255 – 26511Combined sources
Beta strandi268 – 27710Combined sources
Helixi282 – 2898Combined sources
Helixi291 – 30313Combined sources
Beta strandi314 – 3229Combined sources
Turni324 – 3285Combined sources
Beta strandi344 – 3529Combined sources
Beta strandi355 – 3584Combined sources
Beta strandi360 – 37213Combined sources
Helixi373 – 38614Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1VKZX-ray2.30A/B1-400[»]
ProteinModelPortaliQ9X0X7.
SMRiQ9X0X7. Positions 4-399.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9X0X7.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini99 – 303205ATP-graspUniRule annotationAdd
BLAST

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0151.
InParanoidiQ9X0X7.
KOiK01945.
OMAiGPMTGGM.
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.

Q9X0X7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKAVRVHILG SGGREHAIGW AFAKQGYEVH FYPGNAGTKR DGTNHPYEGE
60 70 80 90 100
KTLKAIPEED IVIPGSEEFL VEGVSNWRSN VFGPVKEVAR LEGSKVYAKR
110 120 130 140 150
FMKKYGIRTA RFEVAETPEE LREKIKKFSP PYVIKADGLA RGKGVLILDS
160 170 180 190 200
KEETIEKGSK LIIGELIKGV KGPVVIDEFL AGNELSAMAV VNGRNFVILP
210 220 230 240 250
FVRDYKRLMD GDRGPNTGGM GSWGPVEIPS DTIKKIEELF DKTLWGVEKE
260 270 280 290 300
GYAYRGFLYL GLMLHDGDPY ILEYNVRLGD PETEVIVTLN PEGFVNAVLE
310 320 330 340 350
GYRGGKMEPV EPRGFAVDVV LAARGYPDAP EKGKEITLPE EGLIFFAGVA
360 370 380 390 400
EKDGKLVTNG GRVLHCMGTG ETKEEARRKA YELAEKVHFE GKTYRRDIAL
Length:400
Mass (Da):44,326
Last modified:November 1, 1999 - v1
Checksum:i411CE014DD7DE90F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000512 Genomic DNA. Translation: AAD36325.1.
PIRiD72277.
RefSeqiNP_229055.1. NC_000853.1.
WP_010865290.1. NC_023151.1.
YP_008991653.1. NC_023151.1.

Genome annotation databases

EnsemblBacteriaiAAD36325; AAD36325; TM_1250.
GeneIDi898233.
KEGGitma:TM1250.
tmi:THEMA_08085.
PATRICi23937440. VBITheMar51294_1266.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000512 Genomic DNA. Translation: AAD36325.1.
PIRiD72277.
RefSeqiNP_229055.1. NC_000853.1.
WP_010865290.1. NC_023151.1.
YP_008991653.1. NC_023151.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1VKZX-ray2.30A/B1-400[»]
ProteinModelPortaliQ9X0X7.
SMRiQ9X0X7. Positions 4-399.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243274.TM1250.

Protocols and materials databases

DNASUi898233.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAD36325; AAD36325; TM_1250.
GeneIDi898233.
KEGGitma:TM1250.
tmi:THEMA_08085.
PATRICi23937440. VBITheMar51294_1266.

Phylogenomic databases

eggNOGiCOG0151.
InParanoidiQ9X0X7.
KOiK01945.
OMAiGPMTGGM.
OrthoDBiEOG69SKD1.

Enzyme and pathway databases

UniPathwayiUPA00074; UER00125.
BioCyciTMAR243274:GC6P-1281-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ9X0X7.

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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099.

Entry informationi

Entry nameiPUR2_THEMA
AccessioniPrimary (citable) accession number: Q9X0X7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: November 1, 1999
Last modified: April 29, 2015
This is version 111 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.