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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Sinorhizobium medicae (strain WSM419) (Ensifer medicae)
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 bindingi488 – 4881MagnesiumUniRule annotation
Metal bindingi494 – 4941MagnesiumUniRule 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

BioCyciSMED366394:GJAL-3505-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:Smed_3446
OrganismiSinorhizobium medicae (strain WSM419) (Ensifer medicae)
Taxonomic identifieri366394 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeSinorhizobium/Ensifer groupSinorhizobium
ProteomesiUP000001108 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 – 714714Polyribonucleotide nucleotidyltransferasePRO_0000329855Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi366394.Smed_3446.

Structurei

3D structure databases

ProteinModelPortaliA6UF34.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini555 – 61460KHUniRule annotationAdd
BLAST
Domaini624 – 69269S1 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]
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.

A6UF34-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFETHKVEIE WAGRPLKLET GKIARQADGA VLATYGETVV LATVVSAKAP
60 70 80 90 100
KPGQDFFPLT VNYQEKTYAA GKIPGGYFKR EGRPSENETL VSRLIDRPIR
110 120 130 140 150
PLFPEGYKND TQVIITVMQH DLENNPDVVA MVAASAALTL SGVPFMGPVG
160 170 180 190 200
GARVGYINGE YVLNPHLDEM DESTLDLVVA GTQDAVLMVE SEAKELSEEI
210 220 230 240 250
MLGAVVFGQK GFQPVIDAVI RLAEVAAKEP REFEPDDHSA LENAMLSIAE
260 270 280 290 300
EDLRKAYKIT EKAQRYAAVD AVKAKVKEHF LPEGVENPAH TAEEIASVFK
310 320 330 340 350
HLQAKIVRWN ILDTKSRIDG RDLVTVRPIV AEVGLLPRTH GSALFTRGET
360 370 380 390 400
QAIVVATLGT GEDEQYVDSL TGMYKENFML HYNFPPYSVG ETGRMGSPGR
410 420 430 440 450
REIGHGKLAW RAIHPMLPTA EQFPYTLRVV SEITESNGSS SMATVCGTSL
460 470 480 490 500
ALMDAGVPLA KPVAGIAMGL IKEDDRFAVL SDILGDEDHL GDMDFKVAGT
510 520 530 540 550
EAGVTSLQMD IKIAGITEEI MKVALDQAKH GRVHILGEMA KAISESRGQL
560 570 580 590 600
GEFAPRIEVM NIPVDKIREV IGSGGKVIRE IVEKTGAKIN IDDDGTVKIA
610 620 630 640 650
SASGKEIEAA RKWIHSIVAE PEVGQVYEGT VVKTADFGAF VNFFGARDGL
660 670 680 690 700
VHISQLASER VAKTTDVVKE GDKVWVKLMG FDERGKVRLS MKVVDQATGK
710
EIAAEKKDGG EAAE
Length:714
Mass (Da):77,456
Last modified:August 21, 2007 - v1
Checksum:iFC29CF5FEEF898FA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000738 Genomic DNA. Translation: ABR62264.1.
RefSeqiWP_012067644.1. NC_009636.1.
YP_001329099.1. NC_009636.1.

Genome annotation databases

EnsemblBacteriaiABR62264; ABR62264; Smed_3446.
GeneIDi5324332.
KEGGismd:Smed_3446.
PATRICi23626171. VBISinMed134228_6696.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000738 Genomic DNA. Translation: ABR62264.1.
RefSeqiWP_012067644.1. NC_009636.1.
YP_001329099.1. NC_009636.1.

3D structure databases

ProteinModelPortaliA6UF34.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi366394.Smed_3446.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABR62264; ABR62264; Smed_3446.
GeneIDi5324332.
KEGGismd:Smed_3446.
PATRICi23626171. VBISinMed134228_6696.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218327.
KOiK00962.
OMAiRFMFHYN.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciSMED366394:GJAL-3505-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. "Complete sequence of Sinorhizobium medicae WSM419 chromosome."
    US DOE Joint Genome Institute
    Copeland A., Lucas S., Lapidus A., Barry K., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Chain P., Malfatti S., Shin M., Vergez L., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Reeve W.G., Richardson P.
    Submitted (JUN-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: WSM419.

Entry informationi

Entry nameiPNP_SINMW
AccessioniPrimary (citable) accession number: A6UF34
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: August 21, 2007
Last modified: May 27, 2015
This is version 56 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.