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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Gluconacetobacter diazotrophicus (strain ATCC 49037 / DSM 5601 / PAl5)
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

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

GO - Biological processi

  1. mRNA catabolic process Source: UniProtKB-HAMAP
  2. RNA processing Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, Transferase

Keywords - Ligandi

Magnesium, Metal-binding, RNA-binding

Enzyme and pathway databases

BioCyciGDIA272568:GJPS-1394-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:GDI1371, Gdia_2075
OrganismiGluconacetobacter diazotrophicus (strain ATCC 49037 / DSM 5601 / PAl5)
Taxonomic identifieri272568 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodospirillalesAcetobacteraceaeGluconacetobacter
ProteomesiUP000000736: Chromosome, UP000001176: Chromosome

Subcellular locationi

Cytoplasm 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 – 712712Polyribonucleotide nucleotidyltransferasePRO_0000329665Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi272568.GDI_1371.

Structurei

3D structure databases

ProteinModelPortaliA9HF35.
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.
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.
PfamiPF13014. KH_3. 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.

A9HF35-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MFNYYRKEIE WGGRPLVLET GKIARQADGA VVVTYGDTVV LCTAVGARSV
60 70 80 90 100
KPGQDFFPLT VNYQEKAFAA GKIPGGFFKR EGRPSEIEVL NSRLIDRPIR
110 120 130 140 150
PLFPENFRNE VQVVATVLSH DLENDPAIAA LIGCSAALTL SGIPFFGPVA
160 170 180 190 200
ACRVGYADGA YILNPTLPEM KESALDLVVA GTSEGVLMVE SEASELSEDV
210 220 230 240 250
MLGAVTFGHE AFQAVIDAII SLAEHAAKAP WDLAEPSAEE IALKQRIDTL
260 270 280 290 300
GRAAIAEAYQ ERVKQQRYKK VGAAKEAVLA ALATEGLDVT AAKPILKDLE
310 320 330 340 350
ADVVRSAVLD TGYRIDGRDL KTVRPIVSEV GILPRAHGSA LFTRGETQAL
360 370 380 390 400
VVATLGTAQD EQVIDALEGE YRTNFMLHYN FPPYSVGECG RMGSPGRREI
410 420 430 440 450
GHGKLAWRAI HPLLPGKDTF PYTMRIVSEI TESNGSSSMA TVCGTSLALM
460 470 480 490 500
DAGVPLKRPV AGIAMGLIKE DRGFAVLSDI LGDEDHLGDM DFKVAGTESG
510 520 530 540 550
ITALQMDIKI TSITPEIMKI ALGQARDGRL HILGEMSKAL TEGRSDVSST
560 570 580 590 600
APKITTISVP KEKIRDVIGQ GGKVIREIVE YSGAKIDIND DGTIMIAASS
610 620 630 640 650
EDQATRAIER IRGIVAEPEL GAIYTGKVVK TADFGAFVNF LGARDGLVHI
660 670 680 690 700
SELAQGRVAK TTDVVNQGDV VKVKVLGFDD RGKVKLSMRV VDQQTGADIT
710
ESVGERPGRP AR
Length:712
Mass (Da):76,309
Last modified:February 5, 2008 - v1
Checksum:iDB718FD99A59704E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM889285 Genomic DNA. Translation: CAP55314.1.
CP001189 Genomic DNA. Translation: ACI51835.1.
RefSeqiYP_001601627.1. NC_010125.1.
YP_002276450.1. NC_011365.1.

Genome annotation databases

EnsemblBacteriaiACI51835; ACI51835; Gdia_2075.
CAP55314; CAP55314; GDI1371.
GeneIDi5792130.
6975502.
KEGGigdi:GDI_1371.
gdj:Gdia_2075.
PATRICi22052576. VBIGluDia203729_2070.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM889285 Genomic DNA. Translation: CAP55314.1.
CP001189 Genomic DNA. Translation: ACI51835.1.
RefSeqiYP_001601627.1. NC_010125.1.
YP_002276450.1. NC_011365.1.

3D structure databases

ProteinModelPortaliA9HF35.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272568.GDI_1371.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACI51835; ACI51835; Gdia_2075.
CAP55314; CAP55314; GDI1371.
GeneIDi5792130.
6975502.
KEGGigdi:GDI_1371.
gdj:Gdia_2075.
PATRICi22052576. VBIGluDia203729_2070.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OMAiRFMFHYN.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciGDIA272568:GJPS-1394-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.
PfamiPF13014. KH_3. 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 genome sequence of the sugarcane nitrogen-fixing endophyte Gluconacetobacter diazotrophicus Pal5."
    Bertalan M., Albano R., de Padua V., Rouws L., Rojas C., Hemerly A., Teixeira K., Schwab S., Araujo J., Oliveira A., Franca L., Magalhaes V., Alqueres S., Cardoso A., Almeida W., Loureiro M.M., Nogueira E., Cidade D.
    , Oliveira D., Simao T., Macedo J., Valadao A., Dreschsel M., Freitas F., Vidal M., Guedes H., Rodrigues E., Meneses C., Brioso P., Pozzer L., Figueiredo D., Montano H., Junior J., de Souza Filho G., Martin Quintana Flores V., Ferreira B., Branco A., Gonzalez P., Guillobel H., Lemos M., Seibel L., Macedo J., Alves-Ferreira M., Sachetto-Martins G., Coelho A., Santos E., Amaral G., Neves A., Pacheco A.B., Carvalho D., Lery L., Bisch P., Rossle S.C., Urmenyi T., Rael Pereira A., Silva R., Rondinelli E., von Kruger W., Martins O., Baldani J.I., Ferreira P.C.
    BMC Genomics 10:450-450(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 49037 / DSM 5601 / PAl5.
  2. "Two genome sequences of the same bacterial strain, Gluconacetobacter diazotrophicus PAl 5, suggest a new standard in genome sequence submission."
    Giongo A., Tyler H.L., Zipperer U.N., Triplett E.W.
    Stand. Genomic Sci. 2:309-317(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 49037 / DSM 5601 / PAl5.

Entry informationi

Entry nameiPNP_GLUDA
AccessioniPrimary (citable) accession number: A9HF35
Secondary accession number(s): B5ZDK5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: February 5, 2008
Last modified: January 7, 2015
This is version 51 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.