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B4SDX4

- PNP_PELPB

UniProt

B4SDX4 - PNP_PELPB

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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

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.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 bindingi503 – 5031MagnesiumUniRule annotation
Metal bindingi509 – 5091MagnesiumUniRule 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

BioCyciPPHA324925:GHBF-680-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:Ppha_0666
OrganismiPelodictyon phaeoclathratiforme (strain DSM 5477 / BU-1)
Taxonomic identifieri324925 [NCBI]
Taxonomic lineageiBacteriaChlorobiChlorobiaChlorobialesChlorobiaceaeChlorobium/Pelodictyon groupPelodictyon
ProteomesiUP000002724: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 728728Polyribonucleotide nucleotidyltransferasePRO_1000192479Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi324925.Ppha_0666.

Structurei

3D structure databases

ProteinModelPortaliB4SDX4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini570 – 62960KHUniRule annotationAdd
BLAST
Domaini639 – 71375S1 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.
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. 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]
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

« Hide

        10         20         30         40         50
MIINKEIDLG QGKIISIETG KMAKQADGAV VVRQGDTMVI ATVVSSKKTP
60 70 80 90 100
PPNQDYFPLQ VEYREKYSAA GKFPGGFFKR ESRPSEKEIL SARLIDRALR
110 120 130 140 150
PLFPDGYLYE TQIIVTVISS DQINDADVLG GLAASCAIMV SDIPFQNPMS
160 170 180 190 200
EVRVGRINGL FVVNPDINEL VNSDLDICIG GTENTICMLE GEMKEISEAE
210 220 230 240 250
MLDAIKFGHA AIRKLCALQS EIAAEVAKPI RPFTPTVIPA ELTETVRVLC
260 270 280 290 300
ETRLKELAYT PLKKEERADQ TAAIYHEIIE STIEHFKATC SSEEFSTDPA
310 320 330 340 350
KALCINPHII DEQIHMVEKR VMRHMILDDA KRLDGRALDQ VRPISIELGI
360 370 380 390 400
IPRAHGSALF TRGETQALVT ITLGTKKDAQ SVDNLTSSAD KKFYLHYNFP
410 420 430 440 450
PFCVGETGRL GSIGRREIGH GNLAERSIKM VAPTEEEFPY TIRIVSDILE
460 470 480 490 500
SNGSSSMASV CGGTLALMDG GVPIKKPVSG IAMGLIKEGA SYAVLSDILG
510 520 530 540 550
NEDHLGDMDF KVSGTRDGIT ACQMDIKIDG LDYHILETAL EQARRGRLHI
560 570 580 590 600
LGEMEKAIPS TRQELANFAP KLTSIKVPVD CIGMIIGKGG ETIRSITEET
610 620 630 640 650
GAEINIDDDG TITIACSTSE GTNAALATIK NLTAKPEVGN IYIGKVRDIR
660 670 680 690 700
DELGAFVEFL PKTDGLVHIS EISSERVTKV SDHLKIGEKV RVKLVDVRKD
710 720
SRTGKTRFAL SIKAAEQDAP KENGAENK
Length:728
Mass (Da):79,422
Last modified:September 23, 2008 - v1
Checksum:iD614841BDF5142B8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001110 Genomic DNA. Translation: ACF42965.1.
RefSeqiYP_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:
EMBLi
GenBanki
DDBJi
Links Updated
CP001110 Genomic DNA. Translation: ACF42965.1 .
RefSeqi YP_002017582.1. NC_011060.1.

3D structure databases

ProteinModelPortali B4SDX4.
ModBasei Search...
MobiDBi 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. S1_dom.
[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: November 26, 2014
This is version 46 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