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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5)
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 bindingi487 – 4871MagnesiumUniRule annotation
Metal bindingi493 – 4931MagnesiumUniRule 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

BioCyciOCAR504832:GJPZ-31-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:OCAR_4503, OCA5_c00310
OrganismiOligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5)
Taxonomic identifieri504832 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeOligotropha
ProteomesiUP000007730 Componenti: Chromosome UP000001678 Componenti: Chromosome

Subcellular locationi

  1. 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 – 714714Polyribonucleotide nucleotidyltransferasePRO_1000192477Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi504832.OCAR_4503.

Structurei

3D structure databases

ProteinModelPortaliB6JCR8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini554 – 61360KHUniRule annotationAdd
BLAST
Domaini623 – 69169S1 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]
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.

B6JCR8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFNTHSVELD WGGRPLKLET GKVARQADGA VIATYGETVV MATVVSAKTP
60 70 80 90 100
KEGIDFLPLT VNYQEKTYAA GRIPGGYFKR EGRPSEKETL VSRLIDRPIR
110 120 130 140 150
PLFADGYRCD TQVIVTTLSH DMENDPDIVA MVAASAALTL SGVPFMGPVG
160 170 180 190 200
AARVAFVNNE FILNPTLDEM VDTQLDLVVA GTATAVLMVE SEAKELPEEI
210 220 230 240 250
MLGAVMFGHK HFQPVLKAII ELAEQAAKEP RDVVATVNAD LEKEILGIVE
260 270 280 290 300
QDLRKAYSIP VKQDRYAAVG AAKDKVLEHF FPEGIEPRYE KLRVLDVFKD
310 320 330 340 350
LEAKIVRWNI LDTGRRIDGR DLKTVRPIVA EVGVLPRAHG SALFTRGETQ
360 370 380 390 400
ALVVTTLGTG EDEQYIDSLA GTYKETFLLH YNFPPFSVGE TGRIGSPGRR
410 420 430 440 450
EIGHGKLAWR AIHPVLPAHH EFPYTLRVVS EITESNGSSS MATVCGSSLA
460 470 480 490 500
LMDAGVPLKR PTAGIAMGLI LEGDRFAVLS DILGDEDHLG DMDFKVAGTE
510 520 530 540 550
KGVTSLQMDI KIAGITEEIM KVALTQAKDG RMHILGEMAK ALTAARAELG
560 570 580 590 600
EHAPRIEVLQ IPTDKIRDVI GTGGKVIREI VEKTGAKINI EDDGTVKVAS
610 620 630 640 650
ANGESIRAAI KWIKSITSEP EVGQIYDGTV VKVMEFGAFV NFFGPKDGLV
660 670 680 690 700
HISQLAASRV QKTSDVVKEG DKVKVKLLGL DDRGKVRLSM KAVDQTTGED
710
LEAKQKAENA PAAE
Length:714
Mass (Da):77,474
Last modified:December 16, 2008 - v1
Checksum:i18034AC38A1E1E03
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001196 Genomic DNA. Translation: ACI91648.1.
CP002826 Genomic DNA. Translation: AEI04765.1.
RefSeqiYP_002287513.1. NC_011386.1.
YP_004631006.1. NC_015684.1.

Genome annotation databases

EnsemblBacteriaiACI91648; ACI91648; OCAR_4503.
AEI04765; AEI04765; OCA5_c00310.
KEGGioca:OCAR_4503.
ocg:OCA5_c00310.
PATRICi22802987. VBIOliCar134280_0479.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001196 Genomic DNA. Translation: ACI91648.1.
CP002826 Genomic DNA. Translation: AEI04765.1.
RefSeqiYP_002287513.1. NC_011386.1.
YP_004631006.1. NC_015684.1.

3D structure databases

ProteinModelPortaliB6JCR8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi504832.OCAR_4503.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACI91648; ACI91648; OCAR_4503.
AEI04765; AEI04765; OCA5_c00310.
KEGGioca:OCAR_4503.
ocg:OCA5_c00310.
PATRICi22802987. VBIOliCar134280_0479.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OMAiRFMFHYN.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciOCAR504832:GJPZ-31-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. "Genome sequence of the chemolithoautotrophic bacterium Oligotropha carboxidovorans OM5T."
    Paul D., Bridges S., Burgess S.C., Dandass Y., Lawrence M.L.
    J. Bacteriol. 190:5531-5532(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 49405 / DSM 1227 / OM5.
  2. "Complete genome sequences of the chemolithoautotrophic Oligotropha carboxidovorans strains OM4 and OM5."
    Volland S., Rachinger M., Strittmatter A., Daniel R., Gottschalk G., Meyer O.
    J. Bacteriol. 193:5043-5043(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 49405 / DSM 1227 / OM5.

Entry informationi

Entry nameiPNP_OLICO
AccessioniPrimary (citable) accession number: B6JCR8
Secondary accession number(s): F8BZN1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: December 16, 2008
Last modified: April 1, 2015
This is version 49 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.