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Q8DBU9

- PNP_VIBVU

UniProt

Q8DBU9 - PNP_VIBVU

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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

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.UniRule annotation

Catalytic activityi

RNA(n+1) + phosphate = RNA(n) + a nucleoside diphosphate.UniRule annotation

Cofactori

Magnesium.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi487 – 4871MagnesiumUniRule annotation
Metal bindingi493 – 4931MagnesiumUniRule 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

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

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 708708Polyribonucleotide nucleotidyltransferasePRO_0000329932Add
BLAST

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi216895.VV1_1708.

Structurei

3D structure databases

ProteinModelPortaliQ8DBU9.
SMRiQ8DBU9. Positions 618-693.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini554 – 61360KHUniRule annotationAdd
BLAST
Domaini623 – 69169S1 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.
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. 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]
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

        10         20         30         40         50
MFEKPVVKTF QYGNHTVTLE TGVIARQATA AVMVTMDDTA VFVSVVGKKE
60 70 80 90 100
AVPGQDFFPL TVNYQERTYA AGKIPGGFFK REGRPSEGET LTARLIDRPI
110 120 130 140 150
RPLFPEGFNN EVQVIATVVS VNPDVQPDIP TMIGTSAALA ISGIPFNGPI
160 170 180 190 200
GAARVGHIDG QLVLNPSNTE LNASRLDLVV AGTESAVLMV ESEADNLTEE
210 220 230 240 250
EMLSAVVFGH DQQQAVIKAI NEFAAEVATP SWNWVAPEAN TALNEKVADL
260 270 280 290 300
AEAKLVEAYK ITEKMARYDR IHEIAAEVNA VILAEDPEAD AKEIHTIFHD
310 320 330 340 350
LEKTVVRRSI IAGNPRIDGR EKDMVRALDV RTGVLPRTHG SSLFTRGETQ
360 370 380 390 400
ALVTATLGTQ RDAQIIDELT GEKKDYFLLH YNFPPYCVGE TGFVGSPKRR
410 420 430 440 450
EIGHGKLAKR GIAAVMPSID EFPYTVRVVS EITESNGSSS MASVCGTSLA
460 470 480 490 500
LMDAGVPIKA SVAGIAMGLV KEGDDFVVLS DILGDEDHLG DMDFKVAGTS
510 520 530 540 550
TGITALQMDI KIEGITKEIM QIALNQAQGA RKHILSVMDQ AISGARDDIS
560 570 580 590 600
EFAPRIHTMK ISADKIKDVI GKGGAVIRAL TEETGTTIEI EDDGTIKIAA
610 620 630 640 650
TEGAAAKEAI RRIQEITAEV EVGVIYTGKV ARLADFGAFV TILPGKDGLV
660 670 680 690 700
HISQIADKRV EKVSDYLTEG QEVQVKVLEI DRQGRVRLSM KEAVEKPVEA

EAPAAEEE
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. S1_dom.
[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: October 29, 2014
This is version 72 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