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B4SDX4

- PNP_PELPB

UniProt

B4SDX4 - PNP_PELPB

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Protein
Polyribonucleotide nucleotidyltransferase
Gene
pnp, Ppha_0666
Organism
Pelodictyon phaeoclathratiforme (strain DSM 5477 / BU-1)
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 bindingi503 – 5031Magnesium By similarity
Metal bindingi509 – 5091Magnesium 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
Complete GO annotation...

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

BioCyciPPHA324925:GHBF-680-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:Ppha_0666
OrganismiPelodictyon phaeoclathratiforme (strain DSM 5477 / BU-1)
Taxonomic identifieri324925 [NCBI]
Taxonomic lineageiBacteriaChlorobiChlorobiaChlorobialesChlorobiaceaeChlorobium/Pelodictyon groupPelodictyon
ProteomesiUP000002724: 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 – 728728Polyribonucleotide nucleotidyltransferaseUniRule annotation
PRO_1000192479Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi324925.Ppha_0666.

Structurei

3D structure databases

ProteinModelPortaliB4SDX4.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini570 – 62960KH
Add
BLAST
Domaini639 – 71375S1 motif
Add
BLAST

Sequence similaritiesi

Contains 1 KH domain.
Contains 1 S1 motif domain.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OMAiGTENTIC.
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]
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.

B4SDX4-1 [UniParc]FASTAAdd to Basket

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MIINKEIDLG QGKIISIETG KMAKQADGAV VVRQGDTMVI ATVVSSKKTP    50
PPNQDYFPLQ VEYREKYSAA GKFPGGFFKR ESRPSEKEIL SARLIDRALR 100
PLFPDGYLYE TQIIVTVISS DQINDADVLG GLAASCAIMV SDIPFQNPMS 150
EVRVGRINGL FVVNPDINEL VNSDLDICIG GTENTICMLE GEMKEISEAE 200
MLDAIKFGHA AIRKLCALQS EIAAEVAKPI RPFTPTVIPA ELTETVRVLC 250
ETRLKELAYT PLKKEERADQ TAAIYHEIIE STIEHFKATC SSEEFSTDPA 300
KALCINPHII DEQIHMVEKR VMRHMILDDA KRLDGRALDQ VRPISIELGI 350
IPRAHGSALF TRGETQALVT ITLGTKKDAQ SVDNLTSSAD KKFYLHYNFP 400
PFCVGETGRL GSIGRREIGH GNLAERSIKM VAPTEEEFPY TIRIVSDILE 450
SNGSSSMASV CGGTLALMDG GVPIKKPVSG IAMGLIKEGA SYAVLSDILG 500
NEDHLGDMDF KVSGTRDGIT ACQMDIKIDG LDYHILETAL EQARRGRLHI 550
LGEMEKAIPS TRQELANFAP KLTSIKVPVD CIGMIIGKGG ETIRSITEET 600
GAEINIDDDG TITIACSTSE GTNAALATIK NLTAKPEVGN IYIGKVRDIR 650
DELGAFVEFL PKTDGLVHIS EISSERVTKV SDHLKIGEKV RVKLVDVRKD 700
SRTGKTRFAL SIKAAEQDAP KENGAENK 728
Length:728
Mass (Da):79,422
Last modified:September 23, 2008 - v1
Checksum:iD614841BDF5142B8
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001110 Genomic DNA. Translation: ACF42965.1.
RefSeqiWP_012507460.1. NC_011060.1.
YP_002017582.1. NC_011060.1.

Genome annotation databases

EnsemblBacteriaiACF42965; ACF42965; Ppha_0666.
GeneIDi6461580.
KEGGipph:Ppha_0666.
PATRICi22901766. VBIPelPha134556_0675.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001110 Genomic DNA. Translation: ACF42965.1 .
RefSeqi WP_012507460.1. NC_011060.1.
YP_002017582.1. NC_011060.1.

3D structure databases

ProteinModelPortali B4SDX4.
ModBasei Search...

Protein-protein interaction databases

STRINGi 324925.Ppha_0666.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACF42965 ; ACF42965 ; Ppha_0666 .
GeneIDi 6461580.
KEGGi pph:Ppha_0666.
PATRICi 22901766. VBIPelPha134556_0675.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci PPHA324925:GHBF-680-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 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 Pelodictyon phaeoclathratiforme BU-1."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Liu Z., Li T., Zhao F.
    , Overmann J., Bryant D.A., Richardson P.
    Submitted (JUN-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 5477 / BU-1.

Entry informationi

Entry nameiPNP_PELPB
AccessioniPrimary (citable) accession number: B4SDX4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: September 23, 2008
Last modified: September 3, 2014
This is version 43 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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