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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)DescriptionActionsGraphical viewLength
Active sitei54Nucleophile1 PublicationSequence analysis1
Metal bindingi81Magnesium1 Publication1
Binding sitei155Substrate1
Binding sitei186Substrate1
Binding sitei188Substrate1

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)DescriptionActionsGraphical viewLength
Mutagenesisi188R → A: Reduced affinity for substrate. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004011681 – 290Phosphonopyruvate hydrolaseAdd BLAST290

Expressioni

Inductioni

By phosphonoalanine or phosphonopyruvate.1 Publication

Interactioni

Subunit structurei

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

Structurei

Secondary structure

1290
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi3 – 13Combined sources11
Beta strandi17 – 21Combined sources5
Helixi25 – 34Combined sources10
Beta strandi37 – 41Combined sources5
Helixi43 – 49Combined sources7
Turni54 – 56Combined sources3
Helixi60 – 71Combined sources12
Beta strandi78 – 81Combined sources4
Turni83 – 86Combined sources4
Helixi89 – 102Combined sources14
Beta strandi105 – 110Combined sources6
Helixi131 – 144Combined sources14
Beta strandi150 – 156Combined sources7
Turni158 – 162Combined sources5
Helixi165 – 177Combined sources13
Beta strandi181 – 185Combined sources5
Beta strandi190 – 192Combined sources3
Helixi193 – 201Combined sources9
Beta strandi208 – 210Combined sources3
Helixi220 – 224Combined sources5
Beta strandi229 – 234Combined sources6
Helixi237 – 256Combined sources20
Turni260 – 265Combined sources6
Helixi269 – 275Combined sources7
Helixi278 – 288Combined sources11

3D structure databases

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

Miscellaneous databases

EvolutionaryTraceiQ84G06.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni40 – 44Substrate binding5

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)DescriptionActionsGraphical viewLength
Sequence conflicti132E → I AA sequence (PubMed:12697754).Curated1

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
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2DUAX-ray2.00A1-290[»]
2HJPX-ray1.90A1-290[»]
2HRWX-ray2.20A1-290[»]
ProteinModelPortaliQ84G06.
SMRiQ84G06.
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: November 2, 2016
This is version 55 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.