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A1B5P9

- PNP_PARDP

UniProt

A1B5P9 - PNP_PARDP

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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

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.UniRule annotation

Catalytic activityi

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

Cofactori

Magnesium.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi490 – 4901MagnesiumUniRule annotation
Metal bindingi496 – 4961MagnesiumUniRule annotation

GO - Molecular functioni

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

GO - Biological processi

  1. mRNA catabolic process Source: UniProtKB-HAMAP
  2. RNA processing Source: InterPro
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 nucleotidyltransferaseUniRule annotation (EC:2.7.7.8UniRule annotation)
Alternative name(s):
Polynucleotide phosphorylaseUniRule annotation
Short name:
PNPaseUniRule annotation
Gene namesi
Name:pnpUniRule annotation
Ordered Locus Names:Pden_2759
OrganismiParacoccus denitrificans (strain Pd 1222)
Taxonomic identifieri318586 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccus
ProteomesiUP000000361: Chromosome 1

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 715715Polyribonucleotide nucleotidyltransferasePRO_0000329748Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi318586.Pden_2759.

Structurei

3D structure databases

ProteinModelPortaliA1B5P9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini557 – 61660KHUniRule annotationAdd
BLAST
Domaini626 – 69469S1 motifUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the polyribonucleotide nucleotidyltransferase family.UniRule annotation
Contains 1 KH domain.UniRule annotation
Contains 1 S1 motif domain.UniRule annotation

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. S1_dom.
[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

        10         20         30         40         50
MFDEVKKSIQ WGQETLTLET GKVARQADGS VIATLGETSV MANVTFAKEP
60 70 80 90 100
KPGQDFFPLT VHYQEKYYAA GKIPGGFFKR EARPSEKETL TARLIDRPIR
110 120 130 140 150
PLFVPGFKHE VLVMCTVLSH DLVNDPDIVA MIAASAALTI SGVPFMGPIA
160 170 180 190 200
AARVGFADGE YVLNPEVQDM DHLRLNPEQR LDLVVAGTRD AVMMVESEAY
210 220 230 240 250
ELTEAEMLGA VKFGHEAMQP VIDLIIDLAE AAAKEPFEFA SPDYSALYAR
260 270 280 290 300
VKSLGEADMR AAYAIHDKGE RRDAIEVAKA KVLAGLSEEE LLDPNLGSAL
310 320 330 340 350
KKLESGILRG GIIDGRPRID GRDNKTVRPI DCEVGFLPRT HGSSLFTRGE
360 370 380 390 400
TQALVVTTLG TGDDEQIIDA LHGNSRSNFL LHYNFPPYSV GEVGRVGSPG
410 420 430 440 450
RREIGHGKLA WRALQAVLPA PTDFPYTIRV VSEITESNGS SSMASVCGGS
460 470 480 490 500
LSMMDAGVPL KAPVAGVAMG LILEEDGRWA VLTDILGDED HLGDMDFKVA
510 520 530 540 550
GTENGITSLQ MDIKVAGITP EIMEQALAQA KDGRLHILGE MSKALSEGRR
560 570 580 590 600
EFSAHAPRIE TMTIPTDKIR EVIGSGGKVI REIVETSGAK VDISDDGTIK
610 620 630 640 650
IASANADSIK KAYDMIYSIV AEPEEGKIYV GKVVKLVDFG AFVNFFGKRD
660 670 680 690 700
GLVHVSQIAG KRLNHPNEVL KEGQEVKVKL LGFDDRGKVR LGMKMVDQET
710
GEEIAPEKKE ETAEG
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. S1_dom.
[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: October 29, 2014
This is version 53 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, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3