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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Desulfovibrio vulgaris subsp. vulgaris (strain DP4)
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 bindingi492 – 4921MagnesiumUniRule annotation
Metal bindingi498 – 4981MagnesiumUniRule 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

BioCyciDVUL391774:GHS0-2504-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:Dvul_2438
OrganismiDesulfovibrio vulgaris subsp. vulgaris (strain DP4)
Taxonomic identifieri391774 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
ProteomesiUP000009173 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 – 760760Polyribonucleotide nucleotidyltransferasePRO_0000329627Add
BLAST

Proteomic databases

PRIDEiA1VG88.

Structurei

3D structure databases

ProteinModelPortaliA1VG88.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini559 – 61860KHUniRule annotationAdd
BLAST
Domaini628 – 70275S1 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.

A1VG88-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTNIFNAMRV TATVGGKEIV FETGRLANQA DGAVWIQCGG TVVLVTACSQ
60 70 80 90 100
ATDRDLGFFP LTVEYSEKMY AAGRIPGSFF RREIGRPSER ETLVSRLIDR
110 120 130 140 150
PIRPLFPKGL KDEVQVLANV ISSDQNNDSD VLAVTGASTA LGLSSIPFDG
160 170 180 190 200
PVAGARIGRI DGQFVINPTI KEMERSDLNI VLAASRDAVV MVEGEASFVP
210 220 230 240 250
EAVIVEALEW GHKEIQPLID AQLKLREMAG KAKREFTAPV EDADLAARVA
260 270 280 290 300
ALATADLDVA LRIPEKMARK DARKAVKEKV MEALVADPAY AEDTTPLRAV
310 320 330 340 350
GDILSALEKR IVRERIVREG RRIDGRDTTT VRPILIEAGI LPRAHGSALF
360 370 380 390 400
ARGETKSLVV ATLGSSTDEQ RMDSLTGDVT KRFMLHYNFA PYCVGEVKPV
410 420 430 440 450
RVSRREIGHG ALAEKALRPI LPLGEDFPFT LRVVAETMES NGSSSMAAVC
460 470 480 490 500
GGCLSLMDAG VPITAPVAGV AMGLIKEGDQ YVVLTDILGD EDALGDMDFK
510 520 530 540 550
IAGTSEGITA VQMDIKVKGL PTDVMARAMQ QARDARLHIL GEMGKVLEAP
560 570 580 590 600
RAELSAYAPQ HAEVFVNPDI IRIIIGPGGK NIKAITATTG ASIDIEDSGR
610 620 630 640 650
VSIFAPTLEA MEMAREMVQY YDQRADIGKN YTGKVRKVLE IGAIVEILPN
660 670 680 690 700
LEALVHISQL DTNRVEQASD VARLGEDMVV KVIEINGDRI RASRKAVLLE
710 720 730 740 750
EQGIEWKPED TARPSGPREG GRRDGGRDGR RDGGRDGRRD GGRDGGRRDG
760
GRRDGGRDRN
Length:760
Mass (Da):82,199
Last modified:February 6, 2007 - v1
Checksum:i5F4C773F580B1515
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000527 Genomic DNA. Translation: ABM29454.1.
RefSeqiWP_010937809.1. NC_008751.1.

Genome annotation databases

EnsemblBacteriaiABM29454; ABM29454; Dvul_2438.
KEGGidvl:Dvul_2438.
PATRICi21768802. VBIDesVul62463_2666.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000527 Genomic DNA. Translation: ABM29454.1.
RefSeqiWP_010937809.1. NC_008751.1.

3D structure databases

ProteinModelPortaliA1VG88.
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiA1VG88.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABM29454; ABM29454; Dvul_2438.
KEGGidvl:Dvul_2438.
PATRICi21768802. VBIDesVul62463_2666.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OMAiRFMFHYN.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciDVUL391774:GHS0-2504-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]
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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DP4.

Entry informationi

Entry nameiPNP_DESVV
AccessioniPrimary (citable) accession number: A1VG88
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: February 6, 2007
Last modified: July 22, 2015
This is version 60 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.