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Protein

dITP/XTP pyrophosphatase

Gene

PH1917

Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Pyrophosphatase that catalyzes the hydrolysis of nucleoside triphosphates to their monophosphate derivatives, with a high preference for the non-canonical purine nucleotides XTP (xanthosine triphosphate), dITP (deoxyinosine triphosphate) and ITP. Seems to function as a house-cleaning enzyme that removes non-canonical purine nucleotides from the nucleotide pool, thus preventing their incorporation into DNA/RNA and avoiding chromosomal lesions.UniRule annotation1 Publication

Catalytic activityi

XTP + H2O = XMP + diphosphate.UniRule annotation
dITP + H2O = dIMP + diphosphate.UniRule annotation
ITP + H2O = IMP + diphosphate.UniRule annotation

Cofactori

Mg2+UniRule annotation1 Publication, Mn2+1 PublicationNote: Binds 1 divalent metal cation per subunit; can use either Mg2+ or Mn2+.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi36MagnesiumCombined sources1 Publication1
Active sitei65Proton acceptorUniRule annotation1
Metal bindingi65MagnesiumCombined sources1 Publication1
Binding sitei66Substrate; via amide nitrogenCombined sources2 Publications1
Binding sitei163SubstrateCombined sources2 Publications1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase
Biological processNucleotide metabolism
LigandMagnesium, Manganese, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciPHOR70601:GJWR-1920-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
dITP/XTP pyrophosphataseUniRule annotation (EC:3.6.1.66UniRule annotation)
Alternative name(s):
Non-canonical purine NTP pyrophosphataseUniRule annotation
Non-standard purine NTP pyrophosphataseUniRule annotation
Nucleoside-triphosphate diphosphataseUniRule annotation
Nucleoside-triphosphate pyrophosphataseUniRule annotation
Short name:
NTPaseUniRule annotation
Gene namesi
Ordered Locus Names:PH1917
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_00004104281 – 186dITP/XTP pyrophosphataseAdd BLAST186

Interactioni

Subunit structurei

Homodimer.2 Publications

Protein-protein interaction databases

STRINGi70601.PH1917.

Structurei

Secondary structure

1186
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 6Combined sources5
Helixi10 – 21Combined sources12
Turni22 – 24Combined sources3
Beta strandi26 – 30Combined sources5
Helixi42 – 53Combined sources12
Turni54 – 56Combined sources3
Beta strandi59 – 70Combined sources12
Helixi71 – 73Combined sources3
Turni74 – 76Combined sources3
Helixi78 – 80Combined sources3
Helixi81 – 87Combined sources7
Helixi89 – 96Combined sources8
Turni97 – 99Combined sources3
Beta strandi104 – 115Combined sources12
Beta strandi118 – 130Combined sources13
Beta strandi137 – 139Combined sources3
Helixi143 – 145Combined sources3
Beta strandi146 – 148Combined sources3
Helixi155 – 157Combined sources3
Helixi160 – 164Combined sources5
Helixi168 – 184Combined sources17

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1V7RX-ray1.40A1-186[»]
2DVNX-ray1.60A/B1-186[»]
2DVOX-ray2.21A1-186[»]
2DVPX-ray1.90A1-186[»]
2E5XX-ray2.00A1-186[»]
2ZTIX-ray2.60A1-186[»]
ProteinModelPortaliO59580.
SMRiO59580.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO59580.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni7 – 12Substrate bindingCombined sources2 Publications6
Regioni140 – 143Substrate bindingCombined sources2 Publications4
Regioni168 – 169Substrate bindingCombined sources2 Publications2

Sequence similaritiesi

Belongs to the HAM1 NTPase family.UniRule annotation

Phylogenomic databases

eggNOGiarCOG04184. Archaea.
COG0127. LUCA.
HOGENOMiHOG000293320.
KOiK02428.
OMAiEGFPGPY.
OrthoDBiPOG093Z0DTZ.

Family and domain databases

CDDicd00515. HAM1. 1 hit.
Gene3Di3.90.950.10. 1 hit.
HAMAPiMF_01405. Non_canon_purine_NTPase. 1 hit.
InterProiView protein in InterPro
IPR002637. Ham1p-like.
IPR029001. ITPase-like_fam.
IPR020922. NTPase.
PANTHERiPTHR11067. PTHR11067. 1 hit.
PfamiView protein in Pfam
PF01725. Ham1p_like. 1 hit.
SUPFAMiSSF52972. SSF52972. 1 hit.
TIGRFAMsiTIGR00042. TIGR00042. 1 hit.

Sequencei

Sequence statusi: Complete.

O59580-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKIFFITSNP GKVREVANFL GTFGIEIVQL KHEYPEIQAE KLEDVVDFGI
60 70 80 90 100
SWLKGKVPEP FMIEDSGLFI ESLKGFPGVY SSYVYRTIGL EGILKLMEGA
110 120 130 140 150
EDRRAYFKSV IGFYIDGKAY KFSGVTWGRI SNEKRGTHGF GYDPIFIPEG
160 170 180
SEKTFAEMTI EEKNALSHRG KALKAFFEWL KVNLKY
Length:186
Mass (Da):21,205
Last modified:August 1, 1998 - v1
Checksum:i64FD0922B5C74450
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA31042.1.
PIRiC71206.
RefSeqiWP_010885982.1. NC_000961.1.

Genome annotation databases

EnsemblBacteriaiBAA31042; BAA31042; BAA31042.
GeneIDi1442764.
KEGGipho:PH1917.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA31042.1.
PIRiC71206.
RefSeqiWP_010885982.1. NC_000961.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1V7RX-ray1.40A1-186[»]
2DVNX-ray1.60A/B1-186[»]
2DVOX-ray2.21A1-186[»]
2DVPX-ray1.90A1-186[»]
2E5XX-ray2.00A1-186[»]
2ZTIX-ray2.60A1-186[»]
ProteinModelPortaliO59580.
SMRiO59580.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi70601.PH1917.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAA31042; BAA31042; BAA31042.
GeneIDi1442764.
KEGGipho:PH1917.

Phylogenomic databases

eggNOGiarCOG04184. Archaea.
COG0127. LUCA.
HOGENOMiHOG000293320.
KOiK02428.
OMAiEGFPGPY.
OrthoDBiPOG093Z0DTZ.

Enzyme and pathway databases

BioCyciPHOR70601:GJWR-1920-MONOMER.

Miscellaneous databases

EvolutionaryTraceiO59580.

Family and domain databases

CDDicd00515. HAM1. 1 hit.
Gene3Di3.90.950.10. 1 hit.
HAMAPiMF_01405. Non_canon_purine_NTPase. 1 hit.
InterProiView protein in InterPro
IPR002637. Ham1p-like.
IPR029001. ITPase-like_fam.
IPR020922. NTPase.
PANTHERiPTHR11067. PTHR11067. 1 hit.
PfamiView protein in Pfam
PF01725. Ham1p_like. 1 hit.
SUPFAMiSSF52972. SSF52972. 1 hit.
TIGRFAMsiTIGR00042. TIGR00042. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiIXTPA_PYRHO
AccessioniPrimary (citable) accession number: O59580
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 28, 2011
Last sequence update: August 1, 1998
Last modified: April 12, 2017
This is version 105 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

3D-structure, Complete proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

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 one 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.