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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Thermodesulfovibrio yellowstonii (strain ATCC 51303 / DSM 11347 / YP87)
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 bindingi491 – 4911MagnesiumUniRule annotation
Metal bindingi497 – 4971MagnesiumUniRule 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

BioCyciTYEL289376:GH9L-1816-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:THEYE_A1827
OrganismiThermodesulfovibrio yellowstonii (strain ATCC 51303 / DSM 11347 / YP87)
Taxonomic identifieri289376 [NCBI]
Taxonomic lineageiBacteriaNitrospiraeNitrospiralesNitrospiraceaeThermodesulfovibrio
ProteomesiUP000000718 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 – 710710Polyribonucleotide nucleotidyltransferasePRO_0000381923Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi289376.THEYE_A1827.

Structurei

3D structure databases

ProteinModelPortaliB5YHN2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini558 – 61861KHUniRule annotationAdd
BLAST
Domaini628 – 69669S1 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.
HOGENOMiHOG000218327.
InParanoidiB5YHN2.
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.

B5YHN2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEVELEIKGK KLVLQTGIFA KQTNGSVLAK YGDTYVLCTV VAEKTPKEGL
60 70 80 90 100
DFVPLTIDYQ EKAYSAGKIP GGFFKREGKP TDREILVSRL IDRPVRPLFP
110 120 130 140 150
DGFNYETQGI ASVLSYGDEN IADILSIIGI SSALTISDIP FNGPVAAVRV
160 170 180 190 200
GMVEEEFILN PDNDEAEKSI LNLVVAGTEE AVTMVEGGAA ECSEETLVEA
210 220 230 240 250
LKFAHTHIKK IIALQKKLQQ LSGKPKREII SLNGDEEIQK AILNIIGGKI
260 270 280 290 300
ENALFLPKKV ERQQALDELL NECLQNLNTE EFRQKLYGNF DKDISLEITN
310 320 330 340 350
AFDKVIKKFM RESIVKKGIR ADGRKSDEIR PITCMIGILP RVHGSALFTR
360 370 380 390 400
GETQALVATT LGTSEDEQKV DSLEGEIFKT FMLHYNFLPF SVGEVKPLRA
410 420 430 440 450
PGRREIGHGY LAERALSYVI PSKDEFPYTI RVVSDILESN GSSSMATVCG
460 470 480 490 500
ATLSLMDAGV PIKAPVAGVA MGLIKEGDKT VVLTDILGME DHYGDMDFKV
510 520 530 540 550
AGTEKGITAF QMDVKISGIS YEIFKKALKQ AKQARLFILK KMAETISEPK
560 570 580 590 600
KELSLYAPRI YKIQVKPEKI RDIIGTGGKV IKGIIEETGV KIDIEDKEGI
610 620 630 640 650
VKIASSNESA AQKAIEIIKG ITQEAELGRI YMGKVTRIVD FGAFVEIMPG
660 670 680 690 700
VEGLLHISQI ADKRIQKVSE VLKTGEQIPV KVIEIDELGR VRLSRKEALR
710
EIENRTATKT
Length:710
Mass (Da):78,252
Last modified:November 25, 2008 - v1
Checksum:i8EF00875CB6B031B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001147 Genomic DNA. Translation: ACI21006.1.
RefSeqiYP_002249618.1. NC_011296.1.

Genome annotation databases

EnsemblBacteriaiACI21006; ACI21006; THEYE_A1827.
GeneIDi6943204.
KEGGitye:THEYE_A1827.
PATRICi23910679. VBITheYel104483_1782.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001147 Genomic DNA. Translation: ACI21006.1.
RefSeqiYP_002249618.1. NC_011296.1.

3D structure databases

ProteinModelPortaliB5YHN2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi289376.THEYE_A1827.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACI21006; ACI21006; THEYE_A1827.
GeneIDi6943204.
KEGGitye:THEYE_A1827.
PATRICi23910679. VBITheYel104483_1782.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218327.
InParanoidiB5YHN2.
KOiK00962.
OMAiRFMFHYN.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciTYEL289376:GH9L-1816-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. "The complete genome sequence of Thermodesulfovibrio yellowstonii strain ATCC 51303 / DSM 11347 / YP87."
    Dodson R.J., Durkin A.S., Wu M., Eisen J., Sutton G.
    Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 51303 / DSM 11347 / YP87.

Entry informationi

Entry nameiPNP_THEYD
AccessioniPrimary (citable) accession number: B5YHN2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 1, 2009
Last sequence update: November 25, 2008
Last modified: January 7, 2015
This is version 51 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.