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Protein

RNA pyrophosphohydrolase

Gene

rppH

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Master regulator of 5'-dependent mRNA decay. Accelerates the degradation of transcripts by removing pyrophosphate from the 5'-end of triphosphorylated RNA, leading to a more labile monophosphorylated state that can stimulate subsequent ribonuclease cleavage. Preferentially hydrolyzes diadenosine penta-phosphate with ATP as one of the reaction products. Also able to hydrolyze diadenosine hexa- and tetra-phosphate. Has no activity on diadenosine tri-phosphate, ADP-ribose, NADH and UDP-glucose. In the meningitis causing strain E.coli K1, has been shown to play a role in HBMEC (human brain microvascular endothelial cells) invasion in vitro.2 Publications

Cofactori

Mg2+1 Publication, Zn2+1 Publication, Mn2+1 PublicationNote: Magnesium or zinc. Manganese can be used to a lesser extent.1 Publication

pH dependencei

Optimum pH is 8.5-9.0.

GO - Molecular functioni

  • hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides Source: EcoliWiki
  • metal ion binding Source: UniProtKB-HAMAP
  • RNA pyrophosphohydrolase activity Source: EcoCyc

GO - Biological processi

  • mRNA catabolic process Source: EcoCyc
  • RNA destabilization Source: EcoliWiki
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Ligandi

Magnesium, Manganese, Zinc

Enzyme and pathway databases

BioCyciEcoCyc:G7459-MONOMER.
ECOL316407:JW2798-MONOMER.
MetaCyc:G7459-MONOMER.
BRENDAi3.6.1.61. 2026.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA pyrophosphohydrolase (EC:3.6.1.-)
Alternative name(s):
(Di)nucleoside polyphosphate hydrolase
Ap5A pyrophosphatase
Gene namesi
Name:rppH
Synonyms:nudH, ygdP
Ordered Locus Names:b2830, JW2798
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13091. nudH.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi53E → A: Loss of function. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000570051 – 176RNA pyrophosphohydrolaseAdd BLAST176

Proteomic databases

PaxDbiP0A776.
PRIDEiP0A776.

Interactioni

Subunit structurei

Monomer.1 Publication

Protein-protein interaction databases

BioGridi4263204. 41 interactors.
DIPiDIP-47855N.
IntActiP0A776. 55 interactors.
STRINGi511145.b2830.

Structurei

Secondary structure

1176
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi6 – 16Combined sources11
Beta strandi18 – 27Combined sources10
Turni28 – 30Combined sources3
Beta strandi32 – 34Combined sources3
Beta strandi37 – 39Combined sources3
Helixi46 – 58Combined sources13
Helixi62 – 64Combined sources3
Beta strandi65 – 70Combined sources6
Beta strandi75 – 78Combined sources4
Helixi81 – 83Combined sources3
Beta strandi88 – 90Combined sources3
Beta strandi94 – 104Combined sources11
Helixi108 – 110Combined sources3
Beta strandi116 – 118Combined sources3
Beta strandi120 – 128Combined sources9
Helixi131 – 135Combined sources5
Helixi138 – 140Combined sources3
Helixi141 – 158Combined sources18

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2KDVNMR-A1-164[»]
2KDWNMR-A1-164[»]
4S2VX-ray1.70A1-156[»]
4S2WX-ray1.99A1-158[»]
4S2XX-ray1.50A1-158[»]
4S2YX-ray1.60A1-158[»]
ProteinModelPortaliP0A776.
SMRiP0A776.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0A776.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini6 – 149Nudix hydrolaseAdd BLAST144

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi38 – 59Nudix boxAdd BLAST22

Sequence similaritiesi

Belongs to the Nudix hydrolase family. RppH subfamily.Curated
Contains 1 nudix hydrolase domain.Curated

Phylogenomic databases

eggNOGiENOG4105EJF. Bacteria.
COG0494. LUCA.
HOGENOMiHOG000066723.
InParanoidiP0A776.
KOiK08311.
OMAiQNAWQFP.
PhylomeDBiP0A776.

Family and domain databases

Gene3Di3.90.79.10. 1 hit.
HAMAPiMF_00298. Nudix_RppH. 1 hit.
InterProiIPR020476. Nudix_hydrolase.
IPR020084. NUDIX_hydrolase_CS.
IPR000086. NUDIX_hydrolase_dom.
IPR015797. NUDIX_hydrolase_dom-like.
IPR022927. RppH.
[Graphical view]
PfamiPF00293. NUDIX. 1 hit.
[Graphical view]
PRINTSiPR00502. NUDIXFAMILY.
SUPFAMiSSF55811. SSF55811. 1 hit.
PROSITEiPS51462. NUDIX. 1 hit.
PS00893. NUDIX_BOX. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0A776-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIDDDGYRPN VGIVICNRQG QVMWARRFGQ HSWQFPQGGI NPGESAEQAM
60 70 80 90 100
YRELFEEVGL SRKDVRILAS TRNWLRYKLP KRLVRWDTKP VCIGQKQKWF
110 120 130 140 150
LLQLVSGDAE INMQTSSTPE FDGWRWVSYW YPVRQVVSFK RDVYRRVMKE
160 170
FASVVMSLQE NTPKPQNASA YRRKRG
Length:176
Mass (Da):20,795
Last modified:June 7, 2005 - v1
Checksum:iAF701FE93450C6D4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U29581 Genomic DNA. Translation: AAB40477.1.
U00096 Genomic DNA. Translation: AAC75869.1.
AP009048 Genomic DNA. Translation: BAE76899.1.
PIRiG65065.
RefSeqiNP_417307.1. NC_000913.3.
WP_000564489.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC75869; AAC75869; b2830.
BAE76899; BAE76899; BAE76899.
GeneIDi947300.
KEGGiecj:JW2798.
eco:b2830.
PATRICi32121078. VBIEscCol129921_2928.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U29581 Genomic DNA. Translation: AAB40477.1.
U00096 Genomic DNA. Translation: AAC75869.1.
AP009048 Genomic DNA. Translation: BAE76899.1.
PIRiG65065.
RefSeqiNP_417307.1. NC_000913.3.
WP_000564489.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2KDVNMR-A1-164[»]
2KDWNMR-A1-164[»]
4S2VX-ray1.70A1-156[»]
4S2WX-ray1.99A1-158[»]
4S2XX-ray1.50A1-158[»]
4S2YX-ray1.60A1-158[»]
ProteinModelPortaliP0A776.
SMRiP0A776.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4263204. 41 interactors.
DIPiDIP-47855N.
IntActiP0A776. 55 interactors.
STRINGi511145.b2830.

Proteomic databases

PaxDbiP0A776.
PRIDEiP0A776.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75869; AAC75869; b2830.
BAE76899; BAE76899; BAE76899.
GeneIDi947300.
KEGGiecj:JW2798.
eco:b2830.
PATRICi32121078. VBIEscCol129921_2928.

Organism-specific databases

EchoBASEiEB2896.
EcoGeneiEG13091. nudH.

Phylogenomic databases

eggNOGiENOG4105EJF. Bacteria.
COG0494. LUCA.
HOGENOMiHOG000066723.
InParanoidiP0A776.
KOiK08311.
OMAiQNAWQFP.
PhylomeDBiP0A776.

Enzyme and pathway databases

BioCyciEcoCyc:G7459-MONOMER.
ECOL316407:JW2798-MONOMER.
MetaCyc:G7459-MONOMER.
BRENDAi3.6.1.61. 2026.

Miscellaneous databases

EvolutionaryTraceiP0A776.
PROiP0A776.

Family and domain databases

Gene3Di3.90.79.10. 1 hit.
HAMAPiMF_00298. Nudix_RppH. 1 hit.
InterProiIPR020476. Nudix_hydrolase.
IPR020084. NUDIX_hydrolase_CS.
IPR000086. NUDIX_hydrolase_dom.
IPR015797. NUDIX_hydrolase_dom-like.
IPR022927. RppH.
[Graphical view]
PfamiPF00293. NUDIX. 1 hit.
[Graphical view]
PRINTSiPR00502. NUDIXFAMILY.
SUPFAMiSSF55811. SSF55811. 1 hit.
PROSITEiPS51462. NUDIX. 1 hit.
PS00893. NUDIX_BOX. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRPPH_ECOLI
AccessioniPrimary (citable) accession number: P0A776
Secondary accession number(s): Q2MA07, Q46930
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2005
Last sequence update: June 7, 2005
Last modified: November 2, 2016
This is version 86 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. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.