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Q21YD1

- PNP_ALBFT

UniProt

Q21YD1 - PNP_ALBFT

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Protein
Polyribonucleotide nucleotidyltransferase
Gene
pnp, Rfer_1489
Organism
Albidiferax ferrireducens (strain ATCC BAA-621 / DSM 15236 / T118) (Rhodoferax ferrireducens)
Status
Reviewed - 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 By similarity.UniRule annotation

Catalytic activityi

RNA(n+1) + phosphate = RNA(n) + a nucleoside diphosphate.UniRule annotation

Cofactori

Magnesium By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi488 – 4881Magnesium By similarity
Metal bindingi494 – 4941Magnesium By similarity

GO - Molecular functioni

  1. 3'-5'-exoribonuclease activity Source: InterPro
  2. RNA binding Source: UniProtKB-HAMAP
  3. magnesium ion binding Source: UniProtKB-HAMAP
  4. polyribonucleotide nucleotidyltransferase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. RNA processing Source: InterPro
  2. mRNA catabolic process Source: UniProtKB-HAMAP
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 nucleotidyltransferase (EC:2.7.7.8)
Alternative name(s):
Polynucleotide phosphorylase
Short name:
PNPase
Gene namesi
Name:pnp
Ordered Locus Names:Rfer_1489
OrganismiAlbidiferax ferrireducens (strain ATCC BAA-621 / DSM 15236 / T118) (Rhodoferax ferrireducens)
Taxonomic identifieri338969 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeRhodoferax
ProteomesiUP000008332: Chromosome

Subcellular locationi

Cytoplasm By similarity UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 706706Polyribonucleotide nucleotidyltransferaseUniRule annotation
PRO_0000329807Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi338969.Rfer_1489.

Structurei

3D structure databases

ProteinModelPortaliQ21YD1.
SMRiQ21YD1. Positions 619-692.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini555 – 61460KH
Add
BLAST
Domaini624 – 69269S1 motif
Add
BLAST

Sequence similaritiesi

Contains 1 KH domain.
Contains 1 S1 motif domain.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OMAiHGNFKSN.
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. RNA-binding_domain_S1.
[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

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MSIFNKVTKT FQWGQNTVTM ETGEIARQAS GAVLLDMDGT VVLATVVAKT    50
EGKAGQDFFP LTVDYLEKTY AAGKIPGSFF KREGRPSEFE TLTSRLIDRP 100
IRPLFPEGFF NEVHVVVHTL SLNPEVDADI AALIAVSAAL SVSGIPFSGP 150
IGAARVGYIN GEYVLNPGQT ARKDSVMDLV VAGTEAAVLM VESEAQQLSE 200
EIMLGAVVFG HEQGNIAINA IHELVRDAGK PVWDWKAPAK DEPLIAKVGA 250
LAAHKLEAAY QIRNKQARTR ACREAYAVVM ADLKLDGVAF DSVAVEGMLF 300
DIEAKIVRSQ ILAGEPRIDG RDTRTVRPIE IRNSVLPRTH GSALFTRGET 350
QALVVTTLGT ERDAQRIDAL SGDYEDRFML HYNMPPFATG ETGRVGTPKR 400
REIGHGRLAK RALMAVLPSK EEFPYTMRVV SEITESNGSS SMASVCGGCL 450
SLMDAGVPMK AHVAGIAMGL IKEENRFAVL TDILGDEDHL GDMDFKVAGT 500
TNGITALQMD IKIQGITKEI MQVALAQAKE ARMHILGKMQ EAMAEAKTEV 550
STFAPRLFTM KINPDKIRDV IGKGGSVIRA LTEETGTQIN IDEDGTITIA 600
SADPAKAEEA KRRIQQITAE VEIGKIYEGP ITKILDFGAL VNLLPGKDGL 650
LHISQIAHER VEKVTDYLSE GQIVKVKVME TDEKGRIKLS MKVLLDRPGQ 700
GGPEHV 706
Length:706
Mass (Da):76,581
Last modified:April 18, 2006 - v1
Checksum:i2A2A0F2DBE0F6CDB
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000267 Genomic DNA. Translation: ABD69222.1.
RefSeqiWP_011463790.1. NC_007908.1.
YP_522753.1. NC_007908.1.

Genome annotation databases

EnsemblBacteriaiABD69222; ABD69222; Rfer_1489.
GeneIDi3960930.
KEGGirfr:Rfer_1489.
PATRICi23235559. VBIRhoFer131161_1798.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000267 Genomic DNA. Translation: ABD69222.1 .
RefSeqi WP_011463790.1. NC_007908.1.
YP_522753.1. NC_007908.1.

3D structure databases

ProteinModelPortali Q21YD1.
SMRi Q21YD1. Positions 619-692.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 338969.Rfer_1489.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABD69222 ; ABD69222 ; Rfer_1489 .
GeneIDi 3960930.
KEGGi rfr:Rfer_1489.
PATRICi 23235559. VBIRhoFer131161_1798.

Phylogenomic databases

eggNOGi COG1185.
HOGENOMi HOG000218326.
KOi K00962.
OMAi HGNFKSN.
OrthoDBi EOG6WT8CC.

Enzyme and pathway databases

BioCyci AFER338969:GHU9-1499-MONOMER.

Family and domain databases

Gene3Di 1.10.10.400. 1 hit.
2.40.50.140. 1 hit.
3.30.1370.10. 1 hit.
3.30.230.70. 2 hits.
HAMAPi MF_01595. PNPase.
InterProi IPR001247. 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. RNA-binding_domain_S1.
[Graphical view ]
PANTHERi PTHR11252. PTHR11252. 1 hit.
Pfami PF00013. 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 ]
PIRSFi PIRSF005499. PNPase. 1 hit.
SMARTi SM00322. KH. 1 hit.
SM00316. S1. 1 hit.
[Graphical view ]
SUPFAMi SSF46915. SSF46915. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF54211. SSF54211. 2 hits.
SSF54791. SSF54791. 1 hit.
SSF55666. SSF55666. 2 hits.
TIGRFAMsi TIGR03591. polynuc_phos. 1 hit.
PROSITEi PS50084. KH_TYPE_1. 1 hit.
PS50126. S1. 1 hit.
[Graphical view ]
ProtoNeti Search...

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_ALBFT
AccessioniPrimary (citable) accession number: Q21YD1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: April 18, 2006
Last modified: September 3, 2014
This is version 58 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

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