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Q16CF6 (PNP_ROSDO) Reviewed, UniProtKB/Swiss-Prot

Last modified May 29, 2013. Version 54. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Polyribonucleotide nucleotidyltransferase
EC=2.7.7.8
Alternative name(s):
Polynucleotide phosphorylase
Short name=PNPase
Gene names
Name:pnp
Ordered Locus Names:RD1_0637
OrganismRoseobacter denitrificans (strain ATCC 33942 / OCh 114) (Erythrobacter sp. (strain OCh 114)) (Roseobacter denitrificans) [Complete proteome] [HAMAP]
Taxonomic identifier375451 [NCBI]
Taxonomic lineageBacteria › Proteobacteria › Alphaproteobacteria › Rhodobacterales › Rhodobacteraceae › Roseobacter ›

Protein attributes

Sequence length711 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3'- to 5'-direction By similarity. HAMAP-Rule MF_01595

Catalytic activity

RNA(n+1) + phosphate = RNA(n) + a nucleoside diphosphate. HAMAP-Rule MF_01595

Subunit structure

Homotrimer. Organized into a structure (processome or RNA degradosome) containing a number of RNA-processing enzymes By similarity.

Subcellular location

Cytoplasm By similarity HAMAP-Rule MF_01595.

Sequence similarities

Belongs to the polyribonucleotide nucleotidyltransferase family.

Contains 1 KH domain.

Contains 1 S1 motif domain.

Ontologies

Keywords
   Cellular componentCytoplasm
   LigandRNA-binding
   Molecular functionNucleotidyltransferase
Transferase
   Technical termComplete proteome
Gene Ontology (GO)
   Biological_processRNA processing

Inferred from electronic annotation. Source: InterPro

mRNA catabolic process

Inferred from electronic annotation. Source: HAMAP

   Cellular_componentcytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_function3'-5'-exoribonuclease activity

Inferred from electronic annotation. Source: InterPro

RNA binding

Inferred from electronic annotation. Source: HAMAP

polyribonucleotide nucleotidyltransferase activity

Inferred from electronic annotation. Source: HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 711711Polyribonucleotide nucleotidyltransferase HAMAP-Rule MF_01595
PRO_0000329821

Regions

Domain556 – 61560KH
Domain625 – 69369S1 motif

Sequences

Sequence LengthMass (Da)Tools
Q16CF6 [UniParc].

Last modified July 25, 2006. Version 1.
Checksum: 1A0629E6E76FB44E

FASTA71176,804
        10         20         30         40         50         60 
MFNETKKSIE WGEETLTLET GKVARQADGS VIATLGETSV MANVTFAKKQ KPGQDFFPLT 

        70         80         90        100        110        120 
VHYQEKYYAA GKVPGGFFKR EARPTEKETL TARLIDRPLR PLFVPGFKNE VLVMCTVLSH 

       130        140        150        160        170        180 
DLVNDPDMVA MIAASAALTI SGAPFMGPIA GARVGFEDGE YILNPTVDDM QDLRLNPEQR 

       190        200        210        220        230        240 
LDLVVAGTKD AVMMVESEAY ELSEAEMLGA VKFAHDAIQP VLDLIIDLAE DCAKEPFDFS 

       250        260        270        280        290        300 
PPDYSELSAA VKAAGETEMR AAFAISDKQE RTTAVAAARE TIMAALSDEQ KEDPNLGSAM 

       310        320        330        340        350        360 
KGLEASILRG DVVKTGKRID GRKTDEIRDI VCETGLLPRT HGSALFTRGE TQGLVVTTLG 

       370        380        390        400        410        420 
TGDDEQFIDA LHGNFKSNFL LHYNFPPYSV GEAGRVGPPG RREIGHGKLA WRALQAVLPA 

       430        440        450        460        470        480 
ATDFPYTVRV VSEITESNGS SSMASVCGGS LSMMDAGVPL KAPVAGVAMG LILEEDGSYA 

       490        500        510        520        530        540 
ILSDILGDED HLGDMDFKVA GTEAGITSLQ MDIKIAGITP EIMEKALEQA KAGRIHILGE 

       550        560        570        580        590        600 
MAKSITGAQD FSIHAPRIET MQIPTDKIRE VIGSGGKVIR EIVEVSGAKV DINDEGIIKI 

       610        620        630        640        650        660 
ASPNGEAIKK AYDMIHSIVA EPEEGMVYTG TVVKIVDFGA FVNFFGKRDG LVHVSQIENR 

       670        680        690        700        710 
RLNHPSDVLK EGQEVKVKLL GFDDRGKVRL SMKVVDQETG EEIKKEEAPA D

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References

[1]"The complete genome sequence of Roseobacter denitrificans reveals a mixotrophic rather than photosynthetic metabolism."
Swingley W.D., Sadekar S., Mastrian S.D., Matthies H.J., Hao J., Ramos H., Acharya C.R., Conrad A.L., Taylor H.L., Dejesa L.C., Shah M.K., O'Huallachain M.E., Lince M.T., Blankenship R.E., Beatty J.T., Touchman J.W.
J. Bacteriol. 189:683-690(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 33942 / OCh 114.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CP000362 Genomic DNA. Translation: ABG30337.1.
RefSeqYP_681023.1. NC_008209.1.

3D structure databases

ProteinModelPortalQ16CF6.
ModBaseSearch...

Protein-protein interaction databases

STRING375451.RD1_0637.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABG30337; ABG30337; RD1_0637.
GeneID4198229.
KEGGrde:RD1_0637.
PATRIC23359437. VBIRosDen86677_0622.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1185.
HOGENOMHOG000218327.
KOK00962.
OMAYTMRVVS.
ProtClustDBPRK11824.

Enzyme and pathway databases

BioCycRDEN375451:GJIZ-598-MONOMER.

Family and domain databases

Gene3D1.10.10.400. 1 hit.
2.40.50.140. 1 hit.
3.30.230.70. 2 hits.
HAMAPMF_01595. PNPase.
InterProIPR001247. 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]
PANTHERPTHR11252. PTHR11252. 1 hit.
PfamPF00013. 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]
PIRSFPIRSF005499. PNPase. 1 hit.
SMARTSM00322. KH. 1 hit.
SM00316. S1. 1 hit.
[Graphical view]
SUPFAMSSF46915. 3_ExoRNase. 1 hit.
SSF55666. 3_ExoRNase. 2 hits.
SSF50249. Nucleic_acid_OB. 1 hit.
SSF54211. Ribosomal_S5_D2-typ_fold. 2 hits.
TIGRFAMsTIGR03591. polynuc_phos. 1 hit.
PROSITEPS50084. KH_TYPE_1. 1 hit.
PS50126. S1. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry namePNP_ROSDO
AccessionPrimary (citable) accession number: Q16CF6
Entry history
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: July 25, 2006
Last modified: May 29, 2013
This is version 54 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

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