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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Yersinia pestis bv. Antiqua (strain Nepal516)
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 bindingi486 – 4861MagnesiumUniRule annotation
Metal bindingi492 – 4921MagnesiumUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, Transferase

Keywords - Ligandi

Magnesium, Metal-binding, RNA-binding

Enzyme and pathway databases

BioCyciYPES377628:GIXK-632-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:YPN_0597
ORF Names:YP516_0628
OrganismiYersinia pestis bv. Antiqua (strain Nepal516)
Taxonomic identifieri377628 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
ProteomesiUP000008936 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 705705Polyribonucleotide nucleotidyltransferasePRO_0000329949Add
BLAST

Interactioni

Subunit structurei

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

Structurei

3D structure databases

ProteinModelPortaliQ1CM51.
SMRiQ1CM51. Positions 617-692.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini553 – 61260KHUniRule annotationAdd
BLAST
Domaini622 – 69069S1 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.
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]
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.

Q1CM51-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLTPIIRKFQ YGQHTVTIET GMMARQATAA VMVSMDDTAV FVTVVGQKKA
60 70 80 90 100
KPGQSFFPLT VNYQERTYAA GRIPGSFFRR EGRPSEGETL TSRLIDRPIR
110 120 130 140 150
PLFPDSFLNE VQVIATVVSV NPQINPDIVA LIGASAVLSL SGIPFNGPIG
160 170 180 190 200
AARVGFINDQ YVLNPTTDEL KESRLDLVVA GTAGAVLMVE SEADILSEEQ
210 220 230 240 250
MLGAVVFGHE QQQVVIENIN ALVAEAGKPK WDWQAEPVNE ALHARVAELA
260 270 280 290 300
EARLGDAYRI TEKQERYTQV DAIKADVTEA LLAQDDTLDA AEIQDILASV
310 320 330 340 350
EKNVVRSRVL RGEPRIDGRE KDMIRGLDVR TGILPRTHGS ALFTRGETQA
360 370 380 390 400
LVTATLGTAR DAQNIDELMG ERTDSFLLHY NFPPYCVGET GMVGSPKRRE
410 420 430 440 450
IGHGRLAKRG VLAVMPSASE FPYTIRVVSE ITESNGSSSM ASVCGASLAL
460 470 480 490 500
MDAGVPIKAA VAGIAMGLVK EGDNFVVLSD ILGDEDHLGD MDFKVAGSRD
510 520 530 540 550
GVTALQMDIK IEGITREIMQ VALNQAKGAR LHILGVMEQA ISTPRGDISE
560 570 580 590 600
FAPRIYTMKI NPEKIKDVIG KGGSVIRALT DETGTTIEIE DDGTIKIAAT
610 620 630 640 650
DGDKAKHAIR RIEEITAEIE VGRIYAGKVT RIVDFGAFVA IGGGKEGLVH
660 670 680 690 700
ISQIADKRVE KVTDYLQMGQ DVPVKVMEVD RQGRIRLSIK EATTPDAEAP

EAAAE
Length:705
Mass (Da):76,224
Last modified:April 29, 2008 - v2
Checksum:iE34E6E26F4B67022
GO

Sequence cautioni

The sequence ABG16929.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000305 Genomic DNA. Translation: ABG16929.1. Different initiation.
ACNQ01000006 Genomic DNA. Translation: EEO78391.1.
RefSeqiWP_002228303.1. NZ_ACNQ01000006.1.

Genome annotation databases

EnsemblBacteriaiABG16929; ABG16929; YPN_0597.
EEO78391; EEO78391; YP516_0628.
PATRICi18600243. VBIYerPes46733_0806.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000305 Genomic DNA. Translation: ABG16929.1. Different initiation.
ACNQ01000006 Genomic DNA. Translation: EEO78391.1.
RefSeqiWP_002228303.1. NZ_ACNQ01000006.1.

3D structure databases

ProteinModelPortaliQ1CM51.
SMRiQ1CM51. Positions 617-692.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABG16929; ABG16929; YPN_0597.
EEO78391; EEO78391; YP516_0628.
PATRICi18600243. VBIYerPes46733_0806.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciYPES377628:GIXK-632-MONOMER.

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]
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]
ProtoNetiSearch...

Publicationsi

  1. "Complete genome sequence of Yersinia pestis strains Antiqua and Nepal516: evidence of gene reduction in an emerging pathogen."
    Chain P.S.G., Hu P., Malfatti S.A., Radnedge L., Larimer F., Vergez L.M., Worsham P., Chu M.C., Andersen G.L.
    J. Bacteriol. 188:4453-4463(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Nepal516.
  2. "Yersinia pestis Nepal516A whole genome shotgun sequencing project."
    Plunkett G. III, Anderson B.D., Baumler D.J., Burland V., Cabot E.L., Glasner J.D., Mau B., Neeno-Eckwall E., Perna N.T., Munk A.C., Tapia R., Green L.D., Rogers Y.C., Detter J.C., Bruce D.C., Brettin T.S.
    Submitted (APR-2009) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Nepal516.

Entry informationi

Entry nameiPNP_YERPN
AccessioniPrimary (citable) accession number: Q1CM51
Secondary accession number(s): C4GPF9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: April 29, 2008
Last modified: July 22, 2015
This is version 66 of the entry and version 2 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.