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Protein

Phosphonopyruvate hydrolase

Gene

pphA

Organism
Variovorax sp. (strain Pal2)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Hydrolyzes phosphonopyruvate. Not active towards phosphoenolpyruvate, glycerophosphate, phospho-L-serine or phosphoglycolic acid.1 Publication

Catalytic activityi

3-phosphonopyruvate + H2O = pyruvate + phosphate.1 Publication

Cofactori

Co2+1 Publication, Mg2+1 Publication, Mn2+1 PublicationNote: Divalent metal cations. Co2+, Mg2+ or Mn2+ can be used.1 Publication

Enzyme regulationi

Partially inhibited by EDTA. Activity is restored by Co2+, and to a lesser extent by Ni2+ and Mg2+. Unaffected by Cs2+ and Ca2+. Activity is reduced by Mn2+ and Cu2+.1 Publication

Kineticsi

  1. KM=0.53 mM for phosphonopyruvate (at 37 degrees Celsius, pH 7.0, with 5 µmol CoCl2)2 Publications
  2. KM=19.5 µM for phosphonopyruvate (at 25 degrees Celsius, pH 7.5, with 5 mM MgCl2)2 Publications
  1. Vmax=202 µmol/min/mg enzyme (at 37 degrees Celsius, pH 7.0, with 5 µmol CoCl2)2 Publications

pH dependencei

Optimum pH is 7.0. Active from pH 6.0 to 9.0.2 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei54 – 541Nucleophile1 PublicationSequence analysis
Metal bindingi81 – 811Magnesium1 Publication
Binding sitei155 – 1551Substrate
Binding sitei186 – 1861Substrate
Binding sitei188 – 1881Substrate

GO - Molecular functioni

  • metal ion binding Source: UniProtKB-KW
  • phosphonopyruvate hydrolase activity Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Ligandi

Cobalt, Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-16715.
BRENDAi3.11.1.3. 8611.

Names & Taxonomyi

Protein namesi
Recommended name:
Phosphonopyruvate hydrolase1 Publication (EC:3.11.1.3)
Short name:
PPH1 Publication
Gene namesi
Name:pphA1 Publication
Synonyms:palAImported
OrganismiVariovorax sp. (strain Pal2)
Taxonomic identifieri218557 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeVariovorax

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi188 – 1881R → A: Reduced affinity for substrate. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 290290Phosphonopyruvate hydrolasePRO_0000401168Add
BLAST

Expressioni

Inductioni

By phosphonoalanine or phosphonopyruvate.1 Publication

Interactioni

Subunit structurei

Homodimer (PubMed:12697754). Homotetramer (PubMed:16981709).2 Publications

Structurei

Secondary structure

1
290
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi3 – 1311Combined sources
Beta strandi17 – 215Combined sources
Helixi25 – 3410Combined sources
Beta strandi37 – 415Combined sources
Helixi43 – 497Combined sources
Turni54 – 563Combined sources
Helixi60 – 7112Combined sources
Beta strandi78 – 814Combined sources
Turni83 – 864Combined sources
Helixi89 – 10214Combined sources
Beta strandi105 – 1106Combined sources
Helixi131 – 14414Combined sources
Beta strandi150 – 1567Combined sources
Turni158 – 1625Combined sources
Helixi165 – 17713Combined sources
Beta strandi181 – 1855Combined sources
Beta strandi190 – 1923Combined sources
Helixi193 – 2019Combined sources
Beta strandi208 – 2103Combined sources
Helixi220 – 2245Combined sources
Beta strandi229 – 2346Combined sources
Helixi237 – 25620Combined sources
Turni260 – 2656Combined sources
Helixi269 – 2757Combined sources
Helixi278 – 28811Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2DUAX-ray2.00A1-290[»]
2HJPX-ray1.90A1-290[»]
2HRWX-ray2.20A1-290[»]
ProteinModelPortaliQ84G06.
SMRiQ84G06. Positions 1-290.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ84G06.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni40 – 445Substrate binding

Sequence similaritiesi

Phylogenomic databases

KOiK19669.

Family and domain databases

Gene3Di3.20.20.60. 1 hit.
InterProiIPR012649. PPH.
IPR015813. Pyrv/PenolPyrv_Kinase-like_dom.
[Graphical view]
SUPFAMiSSF51621. SSF51621. 1 hit.
TIGRFAMsiTIGR02321. Pphn_pyruv_hyd. 1 hit.

Sequencei

Sequence statusi: Complete.

Q84G06-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTKNQALRAA LDSGRLFTAM AAHNPLVAKL AEQAGFGGIW GSGFELSASY
60 70 80 90 100
AVPDANILSM STHLEMMRAI ASTVSIPLIA DIDTGFGNAV NVHYVVPQYE
110 120 130 140 150
AAGASAIVME DKTFPKDTSL RTDGRQELVR IEEFQGKIAA ATAARADRDF
160 170 180 190 200
VVIARVEALI AGLGQQEAVR RGQAYEEAGA DAILIHSRQK TPDEILAFVK
210 220 230 240 250
SWPGKVPLVL VPTAYPQLTE ADIAALSKVG IVIYGNHAIR AAVGAVREVF
260 270 280 290
ARIRRDGGIR EVDAALPSVK EIIELQGDER MRAVEARYLK
Length:290
Mass (Da):31,179
Last modified:June 1, 2003 - v1
Checksum:i9B041151AE069F47
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti132 – 1321E → I AA sequence (PubMed:12697754).Curated

Mass spectrometryi

Molecular mass is 31187 Da from positions 1 - 290. Determined by MALDI. 1 Publication

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY179862 Genomic DNA. Translation: AAO24736.1.

Genome annotation databases

KEGGiag:AAO24736.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY179862 Genomic DNA. Translation: AAO24736.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2DUAX-ray2.00A1-290[»]
2HJPX-ray1.90A1-290[»]
2HRWX-ray2.20A1-290[»]
ProteinModelPortaliQ84G06.
SMRiQ84G06. Positions 1-290.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

KEGGiag:AAO24736.

Phylogenomic databases

KOiK19669.

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-16715.
BRENDAi3.11.1.3. 8611.

Miscellaneous databases

EvolutionaryTraceiQ84G06.

Family and domain databases

Gene3Di3.20.20.60. 1 hit.
InterProiIPR012649. PPH.
IPR015813. Pyrv/PenolPyrv_Kinase-like_dom.
[Graphical view]
SUPFAMiSSF51621. SSF51621. 1 hit.
TIGRFAMsiTIGR02321. Pphn_pyruv_hyd. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiPPHA_VARSP
AccessioniPrimary (citable) accession number: Q84G06
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 30, 2010
Last sequence update: June 1, 2003
Last modified: January 20, 2016
This is version 53 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, Direct protein sequencing

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.