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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Shewanella woodyi (strain ATCC 51908 / MS32)
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 bindingi485 – 4851MagnesiumUniRule annotation
Metal bindingi491 – 4911MagnesiumUniRule 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

BioCyciSWOO392500:GI2C-3671-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:Swoo_3556
OrganismiShewanella woodyi (strain ATCC 51908 / MS32)
Taxonomic identifieri392500 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesShewanellaceaeShewanella
ProteomesiUP000002168 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 – 702702Polyribonucleotide nucleotidyltransferasePRO_1000192491Add
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

STRINGi392500.Swoo_3556.

Structurei

3D structure databases

ProteinModelPortaliB1KRQ5.
SMRiB1KRQ5. Positions 616-691.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini552 – 61160KHUniRule annotationAdd
BLAST
Domaini621 – 68969S1 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.
HOGENOMiHOG000218327.
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]
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.

B1KRQ5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNPIVKSFEY GQHTVTLETG VIARQANAAV LASMGDTTVL VTVVGKKAED
60 70 80 90 100
VGRDFFPLTV NYQEKTYAAG KIPGGFFKRE GRPSENETLI ARLIDRPIRP
110 120 130 140 150
LFPNGFKNEV QVIITVVSVD PEINPDVISM IGTSAALSIS DLPFNGPLGV
160 170 180 190 200
ARVGYTNGEY VLNPNVSQLA ESDLDLVVAG TQGAVLMVES EAASLPEEVM
210 220 230 240 250
LGGVVYGHDQ QQVVINAINE LTAEAGKTKW DWTAPAEDTD LVEKIKGLAE
260 270 280 290 300
AELTNAYQIA DKHERRDAVI ALKNAAVAKL VEENADVDLR EVDKLLGSLE
310 320 330 340 350
KKVVRSRIIS GSPRIDGREP DMVRALNVMA GVLPRTHGSS LFTRGETQAL
360 370 380 390 400
VTCTLGTERD AQKVDSIMGE YTNRFMLHYN FPPYSVGETG MVGSPKRREI
410 420 430 440 450
GHGKLAWRGI NAVMPTAEEF PYSVRVVSEI TESNGSSSMA SVCGTSLALM
460 470 480 490 500
DAGVPIKTSV AGIAMGLVKE GDDFVVLSDI LGDEDHLGDM DFKVAGTRDG
510 520 530 540 550
ITALQMDIKI EGITKEIMQI ALQQAYGARV HILNVMDQAI SGHREDISDH
560 570 580 590 600
APRITTLKIN PEKIRDVIGK GGATIRALTE ETGTTIELED DGTVKIASAN
610 620 630 640 650
GEATKEAIRR IEEITAEVEV GTVYNGKVVR IVDFGAFVTI LPGKDGLVHI
660 670 680 690 700
SQIAEERVAN VSDYLQVGQE VKVKVMEVDR QGRVRLSMKE AQPKAEAAPA

AE
Length:702
Mass (Da):75,726
Last modified:April 29, 2008 - v1
Checksum:i8AA863EAB0F7E266
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000961 Genomic DNA. Translation: ACA87820.1.
RefSeqiWP_012326153.1. NC_010506.1.
YP_001761915.1. NC_010506.1.

Genome annotation databases

EnsemblBacteriaiACA87820; ACA87820; Swoo_3556.
KEGGiswd:Swoo_3556.
PATRICi23609719. VBISheWoo126588_3661.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000961 Genomic DNA. Translation: ACA87820.1.
RefSeqiWP_012326153.1. NC_010506.1.
YP_001761915.1. NC_010506.1.

3D structure databases

ProteinModelPortaliB1KRQ5.
SMRiB1KRQ5. Positions 616-691.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi392500.Swoo_3556.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACA87820; ACA87820; Swoo_3556.
KEGGiswd:Swoo_3556.
PATRICi23609719. VBISheWoo126588_3661.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218327.
KOiK00962.
OMAiRFMFHYN.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciSWOO392500:GI2C-3671-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 51908 / MS32.

Entry informationi

Entry nameiPNP_SHEWM
AccessioniPrimary (citable) accession number: B1KRQ5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: April 29, 2008
Last modified: April 29, 2015
This is version 52 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, Reference 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.