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Protein

Polyribonucleotide nucleotidyltransferase 2, mitochondrial

Gene

PNP2

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Involved in the 3'-end maturation of mitochondrial mRNAs, rRNAs and tRNAs. Functions as a poly(A) mRNA 3'-5' degrading phosphorylase and is required for the degradation of highly expressed transcripts of non-coding regions.2 Publications

Catalytic activityi

RNA(n+1) + phosphate = RNA(n) + a nucleoside diphosphate.

GO - Molecular functioni

  • 3'-5'-exoribonuclease activity Source: UniProtKB
  • polyribonucleotide nucleotidyltransferase activity Source: UniProtKB
  • RNA binding Source: UniProtKB-KW

GO - Biological processi

  • mitochondrial RNA catabolic process Source: UniProtKB
  • mitochondrial RNA processing Source: UniProtKB
  • mRNA catabolic process Source: InterPro
  • mRNA processing Source: UniProtKB-KW
  • RNA phosphodiester bond hydrolysis, exonucleolytic Source: GOC
  • rRNA processing Source: UniProtKB-KW
  • tRNA processing Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Exonuclease, Hydrolase, Nuclease, Nucleotidyltransferase, Transferase

Keywords - Biological processi

mRNA processing, rRNA processing, tRNA processing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciARA:AT5G14580-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Polyribonucleotide nucleotidyltransferase 2, mitochondrial (EC:2.7.7.8)
Short name:
AtmtPNPase
Alternative name(s):
Polynucleotide phosphorylase 2
Short name:
PNPase 2
Gene namesi
Name:PNP2
Ordered Locus Names:At5g14580
ORF Names:T15N1.70
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548 Componenti: Chromosome 5

Organism-specific databases

TAIRiAT5G14580.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 3939MitochondrionSequence AnalysisAdd
BLAST
Chaini40 – 991952Polyribonucleotide nucleotidyltransferase 2, mitochondrialPRO_5001028364Add
BLAST

Proteomic databases

PRIDEiQ9S7G6.

Interactioni

Protein-protein interaction databases

STRINGi3702.AT5G14580.1.

Structurei

3D structure databases

ProteinModelPortaliQ9S7G6.
SMRiQ9S7G6. Positions 50-670, 674-746.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini609 – 66759KHAdd
BLAST
Domaini678 – 74669S1 motif 1Add
BLAST
Domaini925 – 98763S1 motif 2Add
BLAST

Sequence similaritiesi

Contains 1 KH domain.Curated
Contains 2 S1 motif domains.Curated

Keywords - Domaini

Repeat, Transit peptide

Phylogenomic databases

HOGENOMiHOG000218327.
InParanoidiQ9S7G6.
KOiK00962.
OMAiVISSPRE.
PhylomeDBiQ9S7G6.

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.
PfamiPF03726. PNPase. 1 hit.
PF01138. RNase_PH. 2 hits.
PF03725. RNase_PH_C. 2 hits.
PF00575. S1. 1 hit.
[Graphical view]
SMARTiSM00322. KH. 1 hit.
SM00316. S1. 2 hits.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF54211. SSF54211. 2 hits.
SSF54791. SSF54791. 1 hit.
SSF55666. SSF55666. 2 hits.
TIGRFAMsiTIGR03591. polynuc_phos. 1 hit.
PROSITEiPS50126. S1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q9S7G6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSIVNRASS ASLPNFLAWR ALGFRTICSG RLGFAPSVPD SPVSAGTKIL
60 70 80 90 100
ESFKEEFEVG SRVVSFETGK IARFANGSVV LGMDETKVLS TVTCAKTDSP
110 120 130 140 150
RDFLPLTVDY QEKQYAQGLI PNTYMRREGA PKERELLCGR LIDRPIRPLF
160 170 180 190 200
PTGFYHEVQI MASVLSSDGK QDPDILAANA SSAALMLSDV PWGGPIGVIR
210 220 230 240 250
IGRICGQFVV NPTMDELSSS DLNLIYACTR DKTMMIDVQS REISEKDLAA
260 270 280 290 300
ALRLAHPEAV KYLDPQIRLA EKAGKQKKEY KLSMLSDKTL EKVADLAATR
310 320 330 340 350
IESVFTDPSY GKFERGEALD NIGKDVRKVF EEEGDQESLS ILPKAVDTVR
360 370 380 390 400
KKVVRSRMIS DGFRVDGRHV DEVRPIYCES HYLPALHGSA LFSRGDTQVL
410 420 430 440 450
CTVTLGAPAE AQSLDSLVGP PKKRFMLHYS FPPYCTNEVG KRGGLNRREV
460 470 480 490 500
GHGTLAEKAL LAVLPPEEAF PYTIRINSEV MSSDGSTSMA SVCGGSMALM
510 520 530 540 550
DAGIPLRAHV AGVSVGLITD VDPSSGEIKD YRIVTDILGL EDHLGDMDFK
560 570 580 590 600
IAGTRDGVTA IQLDIKPAGI PLDIVCESLE NAREARLQIL DHMERNINSP
610 620 630 640 650
RGQDGAYSPR LATLKYSNDS LRTLIGPMGV LKRKIEVETG ARLSIDNGTL
660 670 680 690 700
TIVAKNQDVM EKAQEQVDFI IGRELVVGGV YKGTVSSIKE YGAFVEFPGG
710 720 730 740 750
QQGLLHMSEL SHEPVSKVSD VLDIGQCITT MCIETDVRGN IKLSRKALLP
760 770 780 790 800
KPKRKPASDA GKDPVMKESS TVYIENSSVG EIVASMPSIV TPLQKSRLSV
810 820 830 840 850
PAVVIRTAVE CNEAEKSSPV NDNDKPRRAA TSKPDRKPKS TASKLIATQK
860 870 880 890 900
EEEALESIAP EETSAECGEI LKQDGKLKSV SPKNNSTASN LVSFSKAKKS
910 920 930 940 950
TMKENLSENK AEESASVSTR KLKIGTEMTA TVDHVRALGL VLDLGGEIRG
960 970 980 990
MYIFQGDKDK FKKGDTLRVK CTSFNTKGVP VMALVDEEGE E
Length:991
Mass (Da):107,772
Last modified:May 1, 2000 - v1
Checksum:i9557E25980C6D1A5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y14685 mRNA. Translation: CAB43864.1.
Y14686 Genomic DNA. Translation: CAB43865.1.
AL163792 Genomic DNA. Translation: CAB87625.1.
CP002688 Genomic DNA. Translation: AED92050.1.
PIRiT48631.
RefSeqiNP_196962.1. NM_121462.3.
UniGeneiAt.427.

Genome annotation databases

EnsemblPlantsiAT5G14580.1; AT5G14580.1; AT5G14580.
GeneIDi831309.
KEGGiath:AT5G14580.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y14685 mRNA. Translation: CAB43864.1.
Y14686 Genomic DNA. Translation: CAB43865.1.
AL163792 Genomic DNA. Translation: CAB87625.1.
CP002688 Genomic DNA. Translation: AED92050.1.
PIRiT48631.
RefSeqiNP_196962.1. NM_121462.3.
UniGeneiAt.427.

3D structure databases

ProteinModelPortaliQ9S7G6.
SMRiQ9S7G6. Positions 50-670, 674-746.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT5G14580.1.

Proteomic databases

PRIDEiQ9S7G6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G14580.1; AT5G14580.1; AT5G14580.
GeneIDi831309.
KEGGiath:AT5G14580.

Organism-specific databases

GeneFarmi4118.
TAIRiAT5G14580.

Phylogenomic databases

HOGENOMiHOG000218327.
InParanoidiQ9S7G6.
KOiK00962.
OMAiVISSPRE.
PhylomeDBiQ9S7G6.

Enzyme and pathway databases

BioCyciARA:AT5G14580-MONOMER.

Miscellaneous databases

PROiQ9S7G6.

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.
PfamiPF03726. PNPase. 1 hit.
PF01138. RNase_PH. 2 hits.
PF03725. RNase_PH_C. 2 hits.
PF00575. S1. 1 hit.
[Graphical view]
SMARTiSM00322. KH. 1 hit.
SM00316. S1. 2 hits.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF54211. SSF54211. 2 hits.
SSF54791. SSF54791. 1 hit.
SSF55666. SSF55666. 2 hits.
TIGRFAMsiTIGR03591. polynuc_phos. 1 hit.
PROSITEiPS50126. S1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Two exoribonucleases act sequentially to process mature 3'-ends of atp9 mRNAs in Arabidopsis mitochondria."
    Perrin R., Meyer E.H., Zaepfel M., Kim Y.-J., Mache R., Grienenberger J.-M., Gualberto J.M., Gagliardi D.
    J. Biol. Chem. 279:25440-25446(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], FUNCTION, SUBCELLULAR LOCATION.
    Strain: cv. Columbia.
  2. "Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana."
    Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E., Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Naruo K.
    , Okumura S., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Sato S., de la Bastide M., Huang E., Spiegel L., Gnoj L., O'Shaughnessy A., Preston R., Habermann K., Murray J., Johnson D., Rohlfing T., Nelson J., Stoneking T., Pepin K., Spieth J., Sekhon M., Armstrong J., Becker M., Belter E., Cordum H., Cordes M., Courtney L., Courtney W., Dante M., Du H., Edwards J., Fryman J., Haakensen B., Lamar E., Latreille P., Leonard S., Meyer R., Mulvaney E., Ozersky P., Riley A., Strowmatt C., Wagner-McPherson C., Wollam A., Yoakum M., Bell M., Dedhia N., Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D., Baker J., Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A., Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I., Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T., Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S., Langham S.-A., McCullagh B., Robben J., Grymonprez B., Zimmermann W., Ramsperger U., Wedler H., Balke K., Wedler E., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Weitzenegger T., Bothe G., Rose M., Hauf J., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Villarroel R., Gielen J., Ardiles W., Bents O., Lemcke K., Kolesov G., Mayer K.F.X., Rudd S., Schoof H., Schueller C., Zaccaria P., Mewes H.-W., Bevan M., Fransz P.F.
    Nature 408:823-826(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "Relaxed transcription in Arabidopsis mitochondria is counterbalanced by RNA stability control mediated by polyadenylation and polynucleotide phosphorylase."
    Holec S., Lange H., Kuehn K., Alioua M., Boerner T., Gagliardi D.
    Mol. Cell. Biol. 26:2869-2876(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiPNP2_ARATH
AccessioniPrimary (citable) accession number: Q9S7G6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 28, 2012
Last sequence update: May 1, 2000
Last modified: June 24, 2015
This is version 111 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

Plants silencing PNP2 stop growing after two to three weeks.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. 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.