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A1B5P9

- PNP_PARDP

UniProt

A1B5P9 - PNP_PARDP

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Protein
Polyribonucleotide nucleotidyltransferase
Gene
pnp, Pden_2759
Organism
Paracoccus denitrificans (strain Pd 1222)
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 bindingi490 – 4901Magnesium By similarity
Metal bindingi496 – 4961Magnesium 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

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

BioCyciPDEN318586:GCVQ-2800-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:Pden_2759
OrganismiParacoccus denitrificans (strain Pd 1222)
Taxonomic identifieri318586 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccus
ProteomesiUP000000361: Chromosome 1

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 – 715715Polyribonucleotide nucleotidyltransferaseUniRule annotation
PRO_0000329748Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi318586.Pden_2759.

Structurei

3D structure databases

ProteinModelPortaliA1B5P9.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini557 – 61660KH
Add
BLAST
Domaini626 – 69469S1 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]
SUPFAMiSSF46915. SSF46915. 1 hit.
SSF50249. 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.

A1B5P9-1 [UniParc]FASTAAdd to Basket

« Hide

MFDEVKKSIQ WGQETLTLET GKVARQADGS VIATLGETSV MANVTFAKEP    50
KPGQDFFPLT VHYQEKYYAA GKIPGGFFKR EARPSEKETL TARLIDRPIR 100
PLFVPGFKHE VLVMCTVLSH DLVNDPDIVA MIAASAALTI SGVPFMGPIA 150
AARVGFADGE YVLNPEVQDM DHLRLNPEQR LDLVVAGTRD AVMMVESEAY 200
ELTEAEMLGA VKFGHEAMQP VIDLIIDLAE AAAKEPFEFA SPDYSALYAR 250
VKSLGEADMR AAYAIHDKGE RRDAIEVAKA KVLAGLSEEE LLDPNLGSAL 300
KKLESGILRG GIIDGRPRID GRDNKTVRPI DCEVGFLPRT HGSSLFTRGE 350
TQALVVTTLG TGDDEQIIDA LHGNSRSNFL LHYNFPPYSV GEVGRVGSPG 400
RREIGHGKLA WRALQAVLPA PTDFPYTIRV VSEITESNGS SSMASVCGGS 450
LSMMDAGVPL KAPVAGVAMG LILEEDGRWA VLTDILGDED HLGDMDFKVA 500
GTENGITSLQ MDIKVAGITP EIMEQALAQA KDGRLHILGE MSKALSEGRR 550
EFSAHAPRIE TMTIPTDKIR EVIGSGGKVI REIVETSGAK VDISDDGTIK 600
IASANADSIK KAYDMIYSIV AEPEEGKIYV GKVVKLVDFG AFVNFFGKRD 650
GLVHVSQIAG KRLNHPNEVL KEGQEVKVKL LGFDDRGKVR LGMKMVDQET 700
GEEIAPEKKE ETAEG 715
Length:715
Mass (Da):77,453
Last modified:April 29, 2008 - v2
Checksum:i624D6078A9C0EFA3
GO

Sequence cautioni

The sequence ABL70843.1 differs from that shown. Reason: Erroneous initiation.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000489 Genomic DNA. Translation: ABL70843.1. Different initiation.
RefSeqiYP_916539.1. NC_008686.1.

Genome annotation databases

EnsemblBacteriaiABL70843; ABL70843; Pden_2759.
GeneIDi4580394.
KEGGipde:Pden_2759.
PATRICi22856661. VBIParDen97112_2696.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000489 Genomic DNA. Translation: ABL70843.1 . Different initiation.
RefSeqi YP_916539.1. NC_008686.1.

3D structure databases

ProteinModelPortali A1B5P9.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 318586.Pden_2759.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABL70843 ; ABL70843 ; Pden_2759 .
GeneIDi 4580394.
KEGGi pde:Pden_2759.
PATRICi 22856661. VBIParDen97112_2696.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci PDEN318586:GCVQ-2800-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 SSF46915. SSF46915. 1 hit.
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: Pd 1222.

Entry informationi

Entry nameiPNP_PARDP
AccessioniPrimary (citable) accession number: A1B5P9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: April 29, 2008
Last modified: May 14, 2014
This is version 51 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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