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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Azorhizobium caulinodans (strain ATCC 43989 / DSM 5975 / JCM 20966 / NBRC 14845 / NCIMB 13405 / ORS 571)
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 bindingi489 – 4891MagnesiumUniRule annotation
Metal bindingi495 – 4951MagnesiumUniRule 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

BioCyciACAU438753:GJF3-63-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:AZC_0063
OrganismiAzorhizobium caulinodans (strain ATCC 43989 / DSM 5975 / JCM 20966 / NBRC 14845 / NCIMB 13405 / ORS 571)
Taxonomic identifieri438753 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesXanthobacteraceaeAzorhizobium
ProteomesiUP000000270 Componenti: Chromosome

Subcellular locationi

  1. 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 – 724724Polyribonucleotide nucleotidyltransferasePRO_0000329509Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi438753.AZC_0063.

Structurei

3D structure databases

ProteinModelPortaliA8IGA3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini556 – 61560KHUniRule annotationAdd
BLAST
Domaini625 – 69369S1 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.

A8IGA3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFDIHREELD WGGRTLVLET GKMARQADGA VFASYGDTTV LATVVSAREP
60 70 80 90 100
KPGQDFFPLT VNYQEKTYAA GRIPGGYFKR EGRPSEKETL VSRLIDRPIR
110 120 130 140 150
PLFADGYKND TQVVVTVLAH DLENDPDVLS MVAASAALTL SGVPFMGPIG
160 170 180 190 200
GARVGFVGDE YVLNPTIEEL KDSALDLVVA GTSDAVLMVE SEAKELSEEV
210 220 230 240 250
MLGAVMFGHR HFQPVIEAII RLAEKAAKEP RPFEPVDHSA LEAKIREIAE
260 270 280 290 300
ADLRAAYKIK QKQARYEAVG AAKSKVKKYF EQLAIDGQEA PKAQDVAEVL
310 320 330 340 350
KGLEAKIVRW AILDDGIRID GRDVKTVRPI VSEVGILPRA HGSALFTRGE
360 370 380 390 400
TQALVVATLG TGEDEQFIDS LEGTYKEHFL LHYNFPPFSV GETGRMGSPG
410 420 430 440 450
RREIGHGKLA WRAIHPMLPA KHEFPYTLRV VSEILESNGS SSMATVCGTS
460 470 480 490 500
LSLMDAGVPL KSPVAGIAMG LILEGEKFAV LSDILGDEDH LGDMDFKVAG
510 520 530 540 550
TESGVTALQM DIKIAGITEE IMKVALAQAK DGRAHILGEM SKALTSARAE
560 570 580 590 600
LGEHAPRIEV MKIAVDKIRE VIGSGGKVIR EIVEKTGAKI NIEDDGTIKI
610 620 630 640 650
ASASGDSIKA AINWIKSIAS EPEVGAIYDG TVVKVVDFGA FVNFFGSKDG
660 670 680 690 700
LVHISQLSKE RVAKSSDVVK EGDKVKVKLV GFDERGKTRL SMKAVDQTTG
710 720
EDLEAKAKSE KDAAKEGDEA GAAE
Length:724
Mass (Da):78,044
Last modified:April 29, 2008 - v2
Checksum:i296247796A09D751
GO

Sequence cautioni

The sequence BAF86061.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP009384 Genomic DNA. Translation: BAF86061.1. Different initiation.
RefSeqiYP_001522979.1. NC_009937.1.

Genome annotation databases

EnsemblBacteriaiBAF86061; BAF86061; AZC_0063.
KEGGiazc:AZC_0063.
PATRICi21016559. VBIAzoCau17976_0064.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP009384 Genomic DNA. Translation: BAF86061.1. Different initiation.
RefSeqiYP_001522979.1. NC_009937.1.

3D structure databases

ProteinModelPortaliA8IGA3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi438753.AZC_0063.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAF86061; BAF86061; AZC_0063.
KEGGiazc:AZC_0063.
PATRICi21016559. VBIAzoCau17976_0064.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciACAU438753:GJF3-63-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 genome sequence of the nitrogen-fixing bacterium Azorhizobium caulinodans ORS571."
    Lee K.B., Backer P.D., Aono T., Liu C.T., Suzuki S., Suzuki T., Kaneko T., Yamada M., Tabata S., Kupfer D.M., Najar F.Z., Wiley G.B., Roe B., Binnewies T., Ussery D., Vereecke D., Gevers D., Holsters M., Oyaizu H.
    Submitted (APR-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43989 / DSM 5975 / JCM 20966 / NBRC 14845 / NCIMB 13405 / ORS 571.

Entry informationi

Entry nameiPNP_AZOC5
AccessioniPrimary (citable) accession number: A8IGA3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: April 29, 2008
Last modified: April 29, 2015
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

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.