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A4XYD6

- PNP_PSEMY

UniProt

A4XYD6 - PNP_PSEMY

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Protein
Polyribonucleotide nucleotidyltransferase
Gene
pnp, Pmen_3604
Organism
Pseudomonas mendocina (strain ymp)
Status
Reviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

Functioni

Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'-direction By similarity.UniRule annotation

Catalytic activityi

RNA(n+1) + phosphate = RNA(n) + a nucleoside diphosphate.UniRule annotation

Cofactori

Magnesium By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi488 – 4881Magnesium By similarity
Metal bindingi494 – 4941Magnesium By similarity

GO - Molecular functioni

  1. 3'-5'-exoribonuclease activity Source: InterPro
  2. RNA binding Source: UniProtKB-HAMAP
  3. magnesium ion binding Source: UniProtKB-HAMAP
  4. polyribonucleotide nucleotidyltransferase activity Source: UniProtKB-HAMAP
Complete GO annotation...

GO - Biological processi

  1. RNA processing Source: InterPro
  2. mRNA catabolic process Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, Transferase

Keywords - Ligandi

Magnesium, Metal-binding, RNA-binding

Enzyme and pathway databases

BioCyciPMEN399739:GHR6-3665-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Polyribonucleotide nucleotidyltransferase (EC:2.7.7.8)
Alternative name(s):
Polynucleotide phosphorylase
Short name:
PNPase
Gene namesi
Name:pnp
Ordered Locus Names:Pmen_3604
OrganismiPseudomonas mendocina (strain ymp)
Taxonomic identifieri399739 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
ProteomesiUP000000229: Chromosome

Subcellular locationi

Cytoplasm By similarity UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 702702Polyribonucleotide nucleotidyltransferaseUniRule annotation
PRO_0000329783Add
BLAST

Interactioni

Subunit structurei

Component of the RNA degradosome, which is a multiprotein complex involved in RNA processing and mRNA degradation By similarity.

Protein-protein interaction databases

STRINGi399739.Pmen_3604.

Structurei

3D structure databases

ProteinModelPortaliA4XYD6.
SMRiA4XYD6. Positions 619-693.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini555 – 61460KH
Add
BLAST
Domaini624 – 69269S1 motif
Add
BLAST

Sequence similaritiesi

Contains 1 KH domain.
Contains 1 S1 motif domain.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OrthoDBiEOG6WT8CC.

Family and domain databases

Gene3Di1.10.10.400. 1 hit.
2.40.50.140. 1 hit.
3.30.1370.10. 1 hit.
3.30.230.70. 2 hits.
HAMAPiMF_01595. PNPase.
InterProiIPR001247. ExoRNase_PH_dom1.
IPR015847. ExoRNase_PH_dom2.
IPR004087. KH_dom.
IPR004088. KH_dom_type_1.
IPR012340. NA-bd_OB-fold.
IPR012162. PNPase.
IPR027408. PNPase/RNase_PH_dom.
IPR015848. PNPase_PH_RNA-bd_bac/org-type.
IPR003029. Rbsml_prot_S1_RNA-bd_dom.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR022967. RNA-binding_domain_S1.
[Graphical view]
PANTHERiPTHR11252. PTHR11252. 1 hit.
PfamiPF00013. KH_1. 1 hit.
PF03726. PNPase. 1 hit.
PF01138. RNase_PH. 2 hits.
PF03725. RNase_PH_C. 2 hits.
PF00575. S1. 1 hit.
[Graphical view]
PIRSFiPIRSF005499. PNPase. 1 hit.
SMARTiSM00322. KH. 1 hit.
SM00316. S1. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF54211. SSF54211. 2 hits.
SSF54791. SSF54791. 1 hit.
SSF55666. SSF55666. 2 hits.
TIGRFAMsiTIGR03591. polynuc_phos. 1 hit.
PROSITEiPS50084. KH_TYPE_1. 1 hit.
PS50126. S1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A4XYD6-1 [UniParc]FASTAAdd to Basket

« Hide

MNPVIKQFKF GQSTVTLETG RIARQASGAV LVTVDNDVTV LVTVVGAKTA    50
DPSKGFFPLS VHYQEKTYAA GKIPGGFFKR EGRPSEKETL TSRLIDRPIR 100
PLFPEGFMNE VQVVCTVVST SKKTDPDIAS MIGTSAALAV SGIPFNGPIG 150
AARVAFHPDT GYLLNPNYEQ LKASSLDMVV AGTETAVLMV ESEADELTED 200
QMLGAVLFAH QEFQAVIQAV KEFAAEAGKP TWNWQAPAAN TPLLDAIRSQ 250
FGEAISQAYT ITIKQDRYNR LDELREQVIA ALAGEGEGKF AADEVKAAFG 300
EIEYRTVRQN IVDGKPRIDG RDTRTVRPLK IEVGVLDKTH GSALFTRGET 350
QALVVATLGT ARDAQLLDTL EGEKKDPFML HYNFPPFSVG ECGRMGGAGR 400
REIGHGRLAR RGVAAMLPKD DEFPYTIRVV SEITESNGSS SMASVCGASL 450
ALMDAGVPMK APVAGIAMGL VLEGEKFAVL TDILGDEDHL GDMDFKVAGT 500
AKGVTALQMD IKIQGITEEI MEQALEQALE ARLNILGQMN QVISQSRTEL 550
SANAPTMLAM KIDQDKIRDV IGKGGATIRA ICEETKASID IEDDGSIKIF 600
GETKDAAEAA KQRVLAITAE AEIGKIYVGK VERIVDFGAF VNILPGKDGL 650
VHISMLSDQR VEKVTDVLKE GQEVKVLVLD VDNRGRIKLS IKDVAAAEAS 700
GV 702
Length:702
Mass (Da):75,496
Last modified:April 29, 2008 - v2
Checksum:i50649D1BE23BCD37
GO

Sequence cautioni

The sequence ABP86352.1 differs from that shown. Reason: Erroneous initiation.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000680 Genomic DNA. Translation: ABP86352.1. Different initiation.
RefSeqiYP_001189084.1. NC_009439.1.

Genome annotation databases

EnsemblBacteriaiABP86352; ABP86352; Pmen_3604.
GeneIDi5106151.
KEGGipmy:Pmen_3604.
PATRICi19913832. VBIPseMen131592_3653.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000680 Genomic DNA. Translation: ABP86352.1 . Different initiation.
RefSeqi YP_001189084.1. NC_009439.1.

3D structure databases

ProteinModelPortali A4XYD6.
SMRi A4XYD6. Positions 619-693.
ModBasei Search...

Protein-protein interaction databases

STRINGi 399739.Pmen_3604.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABP86352 ; ABP86352 ; Pmen_3604 .
GeneIDi 5106151.
KEGGi pmy:Pmen_3604.
PATRICi 19913832. VBIPseMen131592_3653.

Phylogenomic databases

eggNOGi COG1185.
HOGENOMi HOG000218326.
KOi K00962.
OrthoDBi EOG6WT8CC.

Enzyme and pathway databases

BioCyci PMEN399739:GHR6-3665-MONOMER.

Family and domain databases

Gene3Di 1.10.10.400. 1 hit.
2.40.50.140. 1 hit.
3.30.1370.10. 1 hit.
3.30.230.70. 2 hits.
HAMAPi MF_01595. PNPase.
InterProi IPR001247. ExoRNase_PH_dom1.
IPR015847. ExoRNase_PH_dom2.
IPR004087. KH_dom.
IPR004088. KH_dom_type_1.
IPR012340. NA-bd_OB-fold.
IPR012162. PNPase.
IPR027408. PNPase/RNase_PH_dom.
IPR015848. PNPase_PH_RNA-bd_bac/org-type.
IPR003029. Rbsml_prot_S1_RNA-bd_dom.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR022967. RNA-binding_domain_S1.
[Graphical view ]
PANTHERi PTHR11252. PTHR11252. 1 hit.
Pfami PF00013. KH_1. 1 hit.
PF03726. PNPase. 1 hit.
PF01138. RNase_PH. 2 hits.
PF03725. RNase_PH_C. 2 hits.
PF00575. S1. 1 hit.
[Graphical view ]
PIRSFi PIRSF005499. PNPase. 1 hit.
SMARTi SM00322. KH. 1 hit.
SM00316. S1. 1 hit.
[Graphical view ]
SUPFAMi SSF50249. SSF50249. 1 hit.
SSF54211. SSF54211. 2 hits.
SSF54791. SSF54791. 1 hit.
SSF55666. SSF55666. 2 hits.
TIGRFAMsi TIGR03591. polynuc_phos. 1 hit.
PROSITEi PS50084. KH_TYPE_1. 1 hit.
PS50126. S1. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ymp.

Entry informationi

Entry nameiPNP_PSEMY
AccessioniPrimary (citable) accession number: A4XYD6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: April 29, 2008
Last modified: May 14, 2014
This is version 50 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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