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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Rhodoferax ferrireducens (strain ATCC BAA-621 / DSM 15236 / T118) (Albidiferax ferrireducens)
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

BioCyciAFER338969:GHU9-1499-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:Rfer_1489
OrganismiRhodoferax ferrireducens (strain ATCC BAA-621 / DSM 15236 / T118) (Albidiferax ferrireducens)
Taxonomic identifieri338969 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeRhodoferax
ProteomesiUP000008332 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 – 706706Polyribonucleotide nucleotidyltransferasePRO_0000329807Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi338969.Rfer_1489.

Structurei

3D structure databases

ProteinModelPortaliQ21YD1.
SMRiQ21YD1. Positions 619-692.
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.
HOGENOMiHOG000218326.
KOiK00962.
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.

Q21YD1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSIFNKVTKT FQWGQNTVTM ETGEIARQAS GAVLLDMDGT VVLATVVAKT
60 70 80 90 100
EGKAGQDFFP LTVDYLEKTY AAGKIPGSFF KREGRPSEFE TLTSRLIDRP
110 120 130 140 150
IRPLFPEGFF NEVHVVVHTL SLNPEVDADI AALIAVSAAL SVSGIPFSGP
160 170 180 190 200
IGAARVGYIN GEYVLNPGQT ARKDSVMDLV VAGTEAAVLM VESEAQQLSE
210 220 230 240 250
EIMLGAVVFG HEQGNIAINA IHELVRDAGK PVWDWKAPAK DEPLIAKVGA
260 270 280 290 300
LAAHKLEAAY QIRNKQARTR ACREAYAVVM ADLKLDGVAF DSVAVEGMLF
310 320 330 340 350
DIEAKIVRSQ ILAGEPRIDG RDTRTVRPIE IRNSVLPRTH GSALFTRGET
360 370 380 390 400
QALVVTTLGT ERDAQRIDAL SGDYEDRFML HYNMPPFATG ETGRVGTPKR
410 420 430 440 450
REIGHGRLAK RALMAVLPSK EEFPYTMRVV SEITESNGSS SMASVCGGCL
460 470 480 490 500
SLMDAGVPMK AHVAGIAMGL IKEENRFAVL TDILGDEDHL GDMDFKVAGT
510 520 530 540 550
TNGITALQMD IKIQGITKEI MQVALAQAKE ARMHILGKMQ EAMAEAKTEV
560 570 580 590 600
STFAPRLFTM KINPDKIRDV IGKGGSVIRA LTEETGTQIN IDEDGTITIA
610 620 630 640 650
SADPAKAEEA KRRIQQITAE VEIGKIYEGP ITKILDFGAL VNLLPGKDGL
660 670 680 690 700
LHISQIAHER VEKVTDYLSE GQIVKVKVME TDEKGRIKLS MKVLLDRPGQ

GGPEHV
Length:706
Mass (Da):76,581
Last modified:April 18, 2006 - v1
Checksum:i2A2A0F2DBE0F6CDB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000267 Genomic DNA. Translation: ABD69222.1.
RefSeqiWP_011463790.1. NC_007908.1.

Genome annotation databases

EnsemblBacteriaiABD69222; ABD69222; Rfer_1489.
KEGGirfr:Rfer_1489.
PATRICi23235559. VBIRhoFer131161_1798.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000267 Genomic DNA. Translation: ABD69222.1.
RefSeqiWP_011463790.1. NC_007908.1.

3D structure databases

ProteinModelPortaliQ21YD1.
SMRiQ21YD1. Positions 619-692.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi338969.Rfer_1489.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABD69222; ABD69222; Rfer_1489.
KEGGirfr:Rfer_1489.
PATRICi23235559. VBIRhoFer131161_1798.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciAFER338969:GHU9-1499-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 sequence of chromosome of Rhodoferax ferrireducens DSM 15236."
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Pitluck S., Brettin T., Bruce D., Han C., Tapia R., Gilna P., Kiss H., Schmutz J., Larimer F., Land M.
    , Kyrpides N., Ivanova N., Richardson P.
    Submitted (FEB-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-621 / DSM 15236 / T118.

Entry informationi

Entry nameiPNP_RHOFT
AccessioniPrimary (citable) accession number: Q21YD1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: April 18, 2006
Last modified: July 22, 2015
This is version 66 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.