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B1YTR1

- PNP_BURA4

UniProt

B1YTR1 - PNP_BURA4

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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Burkholderia ambifaria (strain MC40-6)
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 bindingi493 – 4931MagnesiumUniRule annotation
Metal bindingi499 – 4991MagnesiumUniRule 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

BioCyciBAMB398577:GH38-2236-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:BamMC406_2170
OrganismiBurkholderia ambifaria (strain MC40-6)
Taxonomic identifieri398577 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeBurkholderiaBurkholderia cepacia complex
ProteomesiUP000001680: Chromosome 1

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 – 714714Polyribonucleotide nucleotidyltransferasePRO_1000147894Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi398577.BamMC406_2170.

Structurei

3D structure databases

ProteinModelPortaliB1YTR1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini560 – 61960KHUniRule annotationAdd
BLAST
Domaini629 – 69769S1 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.
OMAiPRWDWVA.
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.

B1YTR1-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSMFNKVVKE FQWGQHKVRL ETGEVARQAS GAVIVDVEDT VVLATVVGAK
60 70 80 90 100
SAKPGQDFFP LTVDYLEKTY SAGKIPGGFF RREGRPSEHE TLTSRLIDRP
110 120 130 140 150
LRPLFPEGFY NEVQVVIHVL SVNPEIPADI PALIGASAAL AVSGLPFNGP
160 170 180 190 200
VGAARVAYID NAYVLNPTRD QLKASSLDLV VAGTERAVLM VESEADQLPE
210 220 230 240 250
DVMLGAVVFG HEQMQTAIDA IHELVREGGK PEWDWQPAPK NEALIARVTE
260 270 280 290 300
LAHGDLLAAY QLRDKQARST KLKEVYAATS AKLEEDAQAA GTVAADKATV
310 320 330 340 350
GNVLFDIEAK IVRSQILNGE PRIDGRDTRT VRPIEIRTGV LPRTHGSALF
360 370 380 390 400
TRGETQALVV ATLGTKGDEQ IIDALEGEYR ERFMLHYNMP PFATGETGRV
410 420 430 440 450
GSPKRREIGH GRLAKRALVK CLPSADEFGY SIRVVSEITE SNGSSSMASV
460 470 480 490 500
CGGCLALMDA GVPMKAHVAG IAMGLILEGN KFAVLTDILG DEDHLGDMDF
510 520 530 540 550
KVAGTEQGVT ALQMDIKIQG ITKEIMQVAL AQAKEGRMHI LGKMTSAVSG
560 570 580 590 600
ANTQLSEFAP RMITIKINPE KIRDVIGKGG SVIRALTEET GTTIDISDDG
610 620 630 640 650
VVTIASTSSE GMAEAKKRIE NITVEIEVGQ VYEGTVLKLL DFGAIVNLLP
660 670 680 690 700
GKDGLLHISE IVNERVKDIN DYLKEGQQVK VKVIQTDEKG RVRLSAKALL
710
NEAAASQSDT PPQQ
Length:714
Mass (Da):77,008
Last modified:May 20, 2008 - v1
Checksum:i113B5BE21B149D57
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001025 Genomic DNA. Translation: ACB64649.1.
RefSeqiWP_011657486.1. NC_010551.1.
YP_001808865.1. NC_010551.1.

Genome annotation databases

EnsemblBacteriaiACB64649; ACB64649; BamMC406_2170.
GeneIDi6177701.
KEGGibac:BamMC406_2170.
PATRICi19033851. VBIBurAmb82852_2227.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001025 Genomic DNA. Translation: ACB64649.1 .
RefSeqi WP_011657486.1. NC_010551.1.
YP_001808865.1. NC_010551.1.

3D structure databases

ProteinModelPortali B1YTR1.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 398577.BamMC406_2170.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACB64649 ; ACB64649 ; BamMC406_2170 .
GeneIDi 6177701.
KEGGi bac:BamMC406_2170.
PATRICi 19033851. VBIBurAmb82852_2227.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci BAMB398577:GH38-2236-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 chromosome 1 of Burkholderia ambifaria MC40-6."
    Copeland A., Lucas S., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Chain P., Malfatti S., Shin M., Vergez L., Lang D., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Lykidis A.
    , Ramette A., Konstantinidis K., Tiedje J., Richardson P.
    Submitted (APR-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: MC40-6.

Entry informationi

Entry nameiPNP_BURA4
AccessioniPrimary (citable) accession number: B1YTR1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: May 20, 2008
Last modified: November 26, 2014
This is version 50 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