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B0U1R2

- PNP_XYLFM

UniProt

B0U1R2 - PNP_XYLFM

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Protein
Polyribonucleotide nucleotidyltransferase
Gene
pnp, Xfasm12_0207
Organism
Xylella fastidiosa (strain M12)
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 bindingi487 – 4871Magnesium By similarity
Metal bindingi493 – 4931Magnesium 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
Complete GO annotation...

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

BioCyciXFAS405440:GH0D-222-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:Xfasm12_0207
OrganismiXylella fastidiosa (strain M12)
Taxonomic identifieri405440 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella
ProteomesiUP000008539: Chromosome

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 – 700700Polyribonucleotide nucleotidyltransferaseUniRule annotation
PRO_1000192508Add
BLAST

Interactioni

Subunit structurei

Component of the RNA degradosome, which is a multiprotein complex involved in RNA processing and mRNA degradation By similarity.

Protein-protein interaction databases

STRINGi405440.Xfasm12_0207.

Structurei

3D structure databases

ProteinModelPortaliB0U1R2.
SMRiB0U1R2. Positions 618-691.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini554 – 61360KH
Add
BLAST
Domaini623 – 69169S1 motif
Add
BLAST

Sequence similaritiesi

Contains 1 KH domain.
Contains 1 S1 motif domain.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OMAiPRWDWVA.
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.

B0U1R2-1 [UniParc]FASTAAdd to Basket

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MAKITKTFQY GKHTVTLETG EVARQASGAV IVKMDDTVLL VTVVAAKTAR    50
EGQDFFPLTV DYQEKFYAGG RIPGSFFKRE GRATEKETLI SRLIDRPIRP 100
LFPEDYKNEV QIIAMVMSLD PEIDGDIPAM IGASAALSLA GIPFKGPIGA 150
AKVGYNDGQY ILNPTVSELK KSQLELVVAG TANAVLMVES EAALLSEEVM 200
LGAVIFGHRE MQKVIQVIDS LTAEAGTEPS DWVPPAKNDA LVIALKEVIG 250
GRLSDAFHIR EKLQRRDAIA AVKDDVIQQL AGRLEVEGWN LAELLKEFGE 300
LEYRTMRDAL LDTKVRIDGR SLEAVRPITV KVGVLPRVHG SGLFTRGETQ 350
AIVVTTLGTA RDGQVIDAVT GEYKENFLFH YNFPPYSVGE CGRFGVQKRR 400
EIGHGRLARR GVLAVMPSLD EFPYTIRVVS EITESNGSSS MASVCGSSLA 450
LMDAGVPVKA PVAGIAMGLV KEGERFVVLS DILGDEDHLG DMDFKVAGTS 500
EGVSALQMDI KIEGITEEIM RQALQQAKVG RLHILGEMDK ALAAPRAELS 550
DYAPRLLTIK IHPDKIRDVI GKGGSTIQAI TKDTGTQIDI QDDGTIVIAS 600
VNNAAAREAK RRIEQITSDV EPGRIYEGKV AKIMDFGAFV TILPGKDGLV 650
HVSQISSERV ERVGDKLKEG DVVRVKVLEV DKQGRIRLSI KAVEEEVASI 700
Length:700
Mass (Da):76,005
Last modified:April 8, 2008 - v1
Checksum:iB8CB3D19FC3F5F87
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000941 Genomic DNA. Translation: ACA11240.1.
RefSeqiYP_001774870.1. NC_010513.1.

Genome annotation databases

EnsemblBacteriaiACA11240; ACA11240; Xfasm12_0207.
GeneIDi6119709.
KEGGixfm:Xfasm12_0207.
PATRICi24136579. VBIXylFas124301_0256.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000941 Genomic DNA. Translation: ACA11240.1 .
RefSeqi YP_001774870.1. NC_010513.1.

3D structure databases

ProteinModelPortali B0U1R2.
SMRi B0U1R2. Positions 618-691.
ModBasei Search...

Protein-protein interaction databases

STRINGi 405440.Xfasm12_0207.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACA11240 ; ACA11240 ; Xfasm12_0207 .
GeneIDi 6119709.
KEGGi xfm:Xfasm12_0207.
PATRICi 24136579. VBIXylFas124301_0256.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci XFAS405440:GH0D-222-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. "Whole genome sequences of two Xylella fastidiosa strains (M12 and M23) causing almond leaf scorch disease in California."
    Chen J., Xie G., Han S., Chertkov O., Sims D., Civerolo E.L.
    J. Bacteriol. 192:4534-4534(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: M12.

Entry informationi

Entry nameiPNP_XYLFM
AccessioniPrimary (citable) accession number: B0U1R2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: April 8, 2008
Last modified: May 14, 2014
This is version 48 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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