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A5F913

- PNP_VIBC3

UniProt

A5F913 - PNP_VIBC3

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Protein
Polyribonucleotide nucleotidyltransferase
Gene
pnp, VC0395_A0178, VC395_0664
Organism
Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)
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

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

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:VC0395_A0178, VC395_0664
OrganismiVibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)
Taxonomic identifieri345073 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000000249: Chromosome 2, UP000001630: Chromosome I

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 – 712712Polyribonucleotide nucleotidyltransferaseUniRule annotation
PRO_0000329928Add
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

STRINGi345073.VC0395_A0178.

Structurei

3D structure databases

ProteinModelPortaliA5F913.
SMRiA5F913. Positions 618-693.

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.

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.

A5F913-1 [UniParc]FASTAAdd to Basket

« Hide

MFEKPVVKTF QYGNHTVTLE TGVMARQATA AVMATMDDTA VFVSVVGKKE    50
AVVGQDFFPL TVNYQERTYA AGKIPGGFFK REGRPSEGET LIARLIDRPI 100
RPLFPDGFTN EVQVIATVVS VNPDVQPDII SMIGTSAALA ISGLPFNGPI 150
GAARVGHIDG QLVLNPSEKE LKQSRLDLVV AGTDNAVLMV ESEAQILTEE 200
EMLAAVVFGH DQQQAVIKAI NEFAAEVATP AWEWVAPAEN TELKAKVAAL 250
AETRLVEAYQ ITEKMARYDR IHAISSEVTA ALLAENEALD TKEIHTIFHD 300
LEKTVVRRSI IAGNPRIDGR EKDMVRALDV RTGVLPRTHG SALFTRGETQ 350
ALVTATLGTQ RDAQIIDELT GEKKDHFLLH YNFPPYCVGE TGFVGSPKRR 400
EIGHGRLAKR GIAAVMPSPE EFPYTVRVVS EITESNGSSS MASVCGSSLA 450
LMDAGVPIKA SVAGIAMGLV KEENDFVVLS DILGDEDHLG DMDFKVAGTA 500
TGVTALQMDI KIEGITKEIM QIALNQAKGA RLHILSVMDQ AISAARSDIS 550
EFAPRIHTMK ISVEKIKDVI GKGGAVIRQL TEETGTTIEI EDDGTIKIAA 600
TDGDQAKEAI RRIQEITAEV EVGVIYTGKV ARLADFGAFV TILPGKDGLV 650
HISQIADKRV EKVSDYLTEG QEVQVKVLEI DRQGRVRLSM KEAVETSDAA 700
AEVAPQAAPQ AE 712
Length:712
Mass (Da):76,840
Last modified:June 12, 2007 - v1
Checksum:i76377F86BCF11F30
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000627 Genomic DNA. Translation: ABQ21149.1.
CP001235 Genomic DNA. Translation: ACP08682.1.
RefSeqiYP_001216141.1. NC_009457.1.
YP_002818918.1. NC_012582.1.

Genome annotation databases

EnsemblBacteriaiABQ21149; ABQ21149; VC0395_A0178.
ACP08682; ACP08682; VC395_0664.
GeneIDi5135826.
7774688.
KEGGivco:VC0395_A0178.
vcr:VC395_0664.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000627 Genomic DNA. Translation: ABQ21149.1 .
CP001235 Genomic DNA. Translation: ACP08682.1 .
RefSeqi YP_001216141.1. NC_009457.1.
YP_002818918.1. NC_012582.1.

3D structure databases

ProteinModelPortali A5F913.
SMRi A5F913. Positions 618-693.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 345073.VC0395_A0178.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABQ21149 ; ABQ21149 ; VC0395_A0178 .
ACP08682 ; ACP08682 ; VC395_0664 .
GeneIDi 5135826.
7774688.
KEGGi vco:VC0395_A0178.
vcr:VC395_0664.

Phylogenomic databases

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

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. Heidelberg J.
    Submitted (MAR-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 39541 / Classical Ogawa 395 / O395.
  2. "A recalibrated molecular clock and independent origins for the cholera pandemic clones."
    Feng L., Reeves P.R., Lan R., Ren Y., Gao C., Zhou Z., Ren Y., Cheng J., Wang W., Wang J., Qian W., Li D., Wang L.
    PLoS ONE 3:E4053-E4053(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 39541 / Classical Ogawa 395 / O395.

Entry informationi

Entry nameiPNP_VIBC3
AccessioniPrimary (citable) accession number: A5F913
Secondary accession number(s): C3LXV8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: June 12, 2007
Last modified: May 14, 2014
This is version 53 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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