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Q8DBU9

- PNP_VIBVU

UniProt

Q8DBU9 - PNP_VIBVU

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Protein

Polyribonucleotide nucleotidyltransferase

Gene
pnp, VV1_1708
Organism
Vibrio vulnificus (strain CMCP6)
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. 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

BioCyciVVUL216895:GIYM-1508-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:VV1_1708
OrganismiVibrio vulnificus (strain CMCP6)
Taxonomic identifieri216895 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000002275: Chromosome 1

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 – 708708Polyribonucleotide nucleotidyltransferaseUniRule annotationPRO_0000329932Add
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

STRINGi216895.VV1_1708.

Structurei

3D structure databases

ProteinModelPortaliQ8DBU9.
SMRiQ8DBU9. Positions 618-693.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini554 – 61360KHAdd
BLAST
Domaini623 – 69169S1 motifAdd
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]
SUPFAMiSSF50249. 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.

Q8DBU9-1 [UniParc]FASTAAdd to Basket

« Hide

MFEKPVVKTF QYGNHTVTLE TGVIARQATA AVMVTMDDTA VFVSVVGKKE    50
AVPGQDFFPL TVNYQERTYA AGKIPGGFFK REGRPSEGET LTARLIDRPI 100
RPLFPEGFNN EVQVIATVVS VNPDVQPDIP TMIGTSAALA ISGIPFNGPI 150
GAARVGHIDG QLVLNPSNTE LNASRLDLVV AGTESAVLMV ESEADNLTEE 200
EMLSAVVFGH DQQQAVIKAI NEFAAEVATP SWNWVAPEAN TALNEKVADL 250
AEAKLVEAYK ITEKMARYDR IHEIAAEVNA VILAEDPEAD AKEIHTIFHD 300
LEKTVVRRSI IAGNPRIDGR EKDMVRALDV RTGVLPRTHG SSLFTRGETQ 350
ALVTATLGTQ RDAQIIDELT GEKKDYFLLH YNFPPYCVGE TGFVGSPKRR 400
EIGHGKLAKR GIAAVMPSID EFPYTVRVVS EITESNGSSS MASVCGTSLA 450
LMDAGVPIKA SVAGIAMGLV KEGDDFVVLS DILGDEDHLG DMDFKVAGTS 500
TGITALQMDI KIEGITKEIM QIALNQAQGA RKHILSVMDQ AISGARDDIS 550
EFAPRIHTMK ISADKIKDVI GKGGAVIRAL TEETGTTIEI EDDGTIKIAA 600
TEGAAAKEAI RRIQEITAEV EVGVIYTGKV ARLADFGAFV TILPGKDGLV 650
HISQIADKRV EKVSDYLTEG QEVQVKVLEI DRQGRVRLSM KEAVEKPVEA 700
EAPAAEEE 708
Length:708
Mass (Da):76,308
Last modified:March 1, 2003 - v1
Checksum:i4A6E7A8A31FF24C6
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE016795 Genomic DNA. Translation: AAO10123.1.
RefSeqiNP_760596.1. NC_004459.3.

Genome annotation databases

EnsemblBacteriaiAAO10123; AAO10123; VV1_1708.
GeneIDi1178622.
KEGGivvu:VV1_1708.
PATRICi20160207. VBIVibVul94426_1585.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE016795 Genomic DNA. Translation: AAO10123.1 .
RefSeqi NP_760596.1. NC_004459.3.

3D structure databases

ProteinModelPortali Q8DBU9.
SMRi Q8DBU9. Positions 618-693.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 216895.VV1_1708.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAO10123 ; AAO10123 ; VV1_1708 .
GeneIDi 1178622.
KEGGi vvu:VV1_1708.
PATRICi 20160207. VBIVibVul94426_1585.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci VVUL216895:GIYM-1508-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 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. "Complete genome sequence of Vibrio vulnificus CMCP6."
    Rhee J.H., Kim S.Y., Chung S.S., Kim J.J., Moon Y.H., Jeong H., Choy H.E.
    Submitted (DEC-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: CMCP6.

Entry informationi

Entry nameiPNP_VIBVU
AccessioniPrimary (citable) accession number: Q8DBU9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: March 1, 2003
Last modified: May 14, 2014
This is version 70 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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