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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Vibrio fischeri (strain MJ11)
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 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

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:VFMJ11_0491
OrganismiVibrio fischeri (strain MJ11)
Taxonomic identifieri388396 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeAliivibrio
ProteomesiUP000001857 Componenti: Chromosome I

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 – 709709Polyribonucleotide nucleotidyltransferasePRO_1000192504Add
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

STRINGi388396.VFMJ11_0491.

Structurei

3D structure databases

ProteinModelPortaliB5FA83.
SMRiB5FA83. 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.
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]
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.

B5FA83-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFANPVVKSF QYGNHTVTLE TGVIARQATA AVMASMDDTS VFVSVVAKKE
60 70 80 90 100
AVPGQDFFPL TVNYQERTYA AGKIPGGFFK REGRPSEAET LTARLIDRPI
110 120 130 140 150
RPLFPDAFKN EVQVIATVVS INPEVNPDMI TMIGTSAALA IAGIPFNGPI
160 170 180 190 200
GAARVGHING ELVLNPSNTE LENSKLDLVV SGTEGAVLMV ESEADNLTEE
210 220 230 240 250
EMLSAVVFGH DQQQVVIKAI NEFAAEVATP AWDWVAPEEN TVLNSRIAEL
260 270 280 290 300
AEAKLVEAYQ ITEKMTRYDR IHEIAAEVNE VLVSENEDVN LKEVHTIFHD
310 320 330 340 350
LEKTVVRRSI IAGNPRIDGR EKDMVRALDV RTGVLPRTHG SSLFTRGETQ
360 370 380 390 400
ALVTATLGTQ RDAQIIDSLM GEKKDHFLLH YNFPPYCVGE TGFVGSPKRR
410 420 430 440 450
EIGHGKLAKR GIQAVMPSIE EFPYTVRVVS EITESNGSSS MASVCGTSLA
460 470 480 490 500
LMDAGVPIKA SVAGIAMGLV KEGDDFVVLS DILGDEDHLG DMDFKVAGTN
510 520 530 540 550
EGITALQMDI KIEGITKEIM QIALNQAQGA RKHILKVMDE AISGAREDIS
560 570 580 590 600
EFAPRIHTMK ISSDKIKDVI GKGGAVIRAL CEETGTTIEI EDDGTIKIAA
610 620 630 640 650
TEGAAAKEAI RRIEEITAEV EVGKIYTGKV MRIVDFGAFV TVLGPKEGLV
660 670 680 690 700
HISQIAEERI EKVADHLQVG QEVKTKVLEI DRQGRIRLSI KEANAELNPA

PAAEAKDAE
Length:709
Mass (Da):76,837
Last modified:October 13, 2008 - v1
Checksum:i64A0A37B31EF246E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001139 Genomic DNA. Translation: ACH67066.1.
RefSeqiYP_002155245.1. NC_011184.1.

Genome annotation databases

EnsemblBacteriaiACH67066; ACH67066; VFMJ11_0491.
KEGGivfm:VFMJ11_0491.
PATRICi20119443. VBIVibFis37164_0474.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001139 Genomic DNA. Translation: ACH67066.1.
RefSeqiYP_002155245.1. NC_011184.1.

3D structure databases

ProteinModelPortaliB5FA83.
SMRiB5FA83. Positions 618-693.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi388396.VFMJ11_0491.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACH67066; ACH67066; VFMJ11_0491.
KEGGivfm:VFMJ11_0491.
PATRICi20119443. VBIVibFis37164_0474.

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]
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]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of Vibrio fischeri strain MJ11."
    Mandel M.J., Stabb E.V., Ruby E.G., Ferriera S., Johnson J., Kravitz S., Beeson K., Sutton G., Rogers Y.-H., Friedman R., Frazier M., Venter J.C.
    Submitted (JUL-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: MJ11.

Entry informationi

Entry nameiPNP_VIBFM
AccessioniPrimary (citable) accession number: B5FA83
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 13, 2009
Last sequence update: October 13, 2008
Last modified: March 31, 2015
This is version 50 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

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.