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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Delftia acidovorans (strain DSM 14801 / SPH-1)
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

BioCyciDACI398578:GHK3-5260-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:Daci_5184
OrganismiDelftia acidovorans (strain DSM 14801 / SPH-1)
Taxonomic identifieri398578 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeDelftia
ProteomesiUP000000784: 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 – 753753Polyribonucleotide nucleotidyltransferasePRO_1000147914Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi398578.Daci_5184.

Structurei

3D structure databases

ProteinModelPortaliA9BNB8.
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.

A9BNB8-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSIFNKVTKT FQWGQHTVTM ETGEIARQAS GAVLVNIDDT VVLATVVASK
60 70 80 90 100
QAKSGQDFFP LTVDYIEKTY AAGKIPGSFF KREAKPSELE TLTSRLIDRP
110 120 130 140 150
IRPLFPEGFY NDVHVVIHTV SLNPEVDADI AALIATSAAL SVSGIPFNGP
160 170 180 190 200
IGAARVGFIN GEYVLNPGQT QRKDSQMDLV VAGTEAAVLM VESEAQQLPE
210 220 230 240 250
DVMLGAVVFG HEQGRIAIDA IHELVREAGK PVWDWVAPAK DEELIAKVAA
260 270 280 290 300
LGDEALRTAY QIRNKQSRTQ ACREAYAAVK AGLTAQGVEF DGVKVEGMLF
310 320 330 340 350
DIEARIVRSQ ILAGEPRIDG RDTRTVRPIE IRNSVLPRTH GSALFTRGET
360 370 380 390 400
QALVVSTLGT ERDAQRIDAL AGEFEDRFLF HYNMPPFATG EVGRMGSTKR
410 420 430 440 450
REIGHGRLAK RALAACLPSK EEFPYTIRVV SEITESNGSS SMASVCGGCL
460 470 480 490 500
SMMDAGVPMK AHVAGIAMGL IKEDNRFAVL TDILGDEDHL GDMDFKVAGT
510 520 530 540 550
TSGITALQMD IKIQGITKEI MQVALAQAKE ARMHILGKMQ EAMGEAKAEI
560 570 580 590 600
SSFAPKLYTM KINPEKIRDV IGKGGSTIRA LTEETGTQID IGEDGTITIA
610 620 630 640 650
SSDAAKADEA KRRIEEITAE VEIGKIYEGP VTKILDFGAL VNLLPGKDGL
660 670 680 690 700
LHISQIAHER VERVADYLQE GQIIKVKVME TDEKGRVKLS LKALTERPAG
710 720 730 740 750
MERSDRPAPA EREFRQPREP RQQREFREPR EPREPRDGGR PAAEGEQQQQ

QQQ
Length:753
Mass (Da):82,288
Last modified:January 15, 2008 - v1
Checksum:iBF720B0B1E872316
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000884 Genomic DNA. Translation: ABX37813.1.
RefSeqiYP_001566198.1. NC_010002.1.

Genome annotation databases

EnsemblBacteriaiABX37813; ABX37813; Daci_5184.
GeneIDi5750796.
KEGGidac:Daci_5184.
PATRICi21644407. VBIDelAci41351_5236.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000884 Genomic DNA. Translation: ABX37813.1.
RefSeqiYP_001566198.1. NC_010002.1.

3D structure databases

ProteinModelPortaliA9BNB8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi398578.Daci_5184.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABX37813; ABX37813; Daci_5184.
GeneIDi5750796.
KEGGidac:Daci_5184.
PATRICi21644407. VBIDelAci41351_5236.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OMAiRFMFHYN.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciDACI398578:GHK3-5260-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. "Complete sequence of Delftia acidovorans DSM 14801 / SPH-1."
    Copeland A., Lucas S., Lapidus A., Barry K., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Lowry S., Clum A., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Kim E., Schleheck D., Richardson P.
    Submitted (NOV-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 14801 / SPH-1.

Entry informationi

Entry nameiPNP_DELAS
AccessioniPrimary (citable) accession number: A9BNB8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: January 15, 2008
Last modified: February 4, 2015
This is version 51 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.