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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Polaromonas naphthalenivorans (strain CJ2)
Status
Reviewed-Annotation score: 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

Mg2+UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi488 – 4881MagnesiumUniRule annotation
Metal bindingi494 – 4941MagnesiumUniRule 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

BioCyciPNAP365044:GJ8X-1439-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:Pnap_1420
OrganismiPolaromonas naphthalenivorans (strain CJ2)
Taxonomic identifieri365044 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaePolaromonas
ProteomesiUP000000644: Chromosome

Subcellular locationi

Cytoplasm 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 – 703703Polyribonucleotide nucleotidyltransferasePRO_0000329759Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi365044.Pnap_1420.

Structurei

3D structure databases

ProteinModelPortaliA1VM56.
SMRiA1VM56. Positions 619-692.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini555 – 61460KHUniRule annotationAdd
BLAST
Domaini624 – 69269S1 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.
OMAiRFMFHYN.
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.

A1VM56-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSIFNKVTKS FQWGQHKVTM ETGEMARQAG GAVLLDMDGT VVLATVVAKS
60 70 80 90 100
DAKPGQDFFP LTVDYLEKTY AAGRIPGSFF KREGRPSEFE TLTSRLIDRP
110 120 130 140 150
IRPLFPEGFF NEVQVVIHVL SLNPEVEGDI PALIASSAAL SISGIPFNGP
160 170 180 190 200
IGAARVAYIN GEYVLNPGKT QLQNSTMDLV VAGTEAAVLM VESEAKQLSE
210 220 230 240 250
EIMLGAIVFG HEQGNIAINA IHELVRDAGK PVWDWKAPAK DEVLIAKVVA
260 270 280 290 300
LAEEKLVAAY QIRNKQARTH ATRQVTTWTK MGLKAEGVEF DGVAVEGMLF
310 320 330 340 350
DIEAKIVRSQ ILAGDPRIDG RDTRTVRPIE IRNSVLPRTH GSALFTRGET
360 370 380 390 400
QALVVTTLGT ERDAQRIDAL SGDYEDRFML HYNMPPFATG ETGRVGSPKR
410 420 430 440 450
REIGHGRLAK RALIAVLPSK EEFPYTMRVV SEITESNGSS SMASVCGGCL
460 470 480 490 500
SLMDAGVPMK AHVAGIAMGL IKEDNRFAVL TDILGDEDHL GDMDFKVAGT
510 520 530 540 550
TFGITALQMD IKIQGITKEI MQVALAQAKE ARMHILGKMQ EAMGQANAEV
560 570 580 590 600
SDFAPRLYVM KINPEKIRDV IGKGGAVIRA LTEETGTQIN IEEDGTITIA
610 620 630 640 650
SNDSAKADEA KRRIAEITAE VEIGKVYEGA ITKILDFGAL VNLMPGKDGL
660 670 680 690 700
LHISQIAHER VEKVTDYLSE GQIIKVKVLE TDEKGRVKLS MKALLDRPSQ

HQG
Length:703
Mass (Da):76,497
Last modified:February 6, 2007 - v1
Checksum:i848FA4A77562D298
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000529 Genomic DNA. Translation: ABM36734.1.
RefSeqiWP_011800821.1. NC_008781.1.
YP_981655.1. NC_008781.1.

Genome annotation databases

EnsemblBacteriaiABM36734; ABM36734; Pnap_1420.
GeneIDi4687008.
KEGGipna:Pnap_1420.
PATRICi22947445. VBIPolNap76733_2273.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000529 Genomic DNA. Translation: ABM36734.1.
RefSeqiWP_011800821.1. NC_008781.1.
YP_981655.1. NC_008781.1.

3D structure databases

ProteinModelPortaliA1VM56.
SMRiA1VM56. Positions 619-692.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi365044.Pnap_1420.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABM36734; ABM36734; Pnap_1420.
GeneIDi4687008.
KEGGipna:Pnap_1420.
PATRICi22947445. VBIPolNap76733_2273.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OMAiRFMFHYN.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciPNAP365044:GJ8X-1439-MONOMER.

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]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: CJ2.

Entry informationi

Entry nameiPNP_POLNA
AccessioniPrimary (citable) accession number: A1VM56
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: February 6, 2007
Last modified: March 4, 2015
This is version 58 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.