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Protein

Polyribonucleotide nucleotidyltransferase 1, chloroplastic

Gene

PNP1

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

Functioni

Involved in the metabolism of all major classes of plastid RNAs. Required for efficient 3'-end processing of mRNAs and 3'-end maturation of rRNA transcripts, but is not sufficient to mediate their degradation. Mediates tRNA degradation. May function as a poly(A) mRNA 3'-5' degrading phosphorylase. May be required for plastid ribosome assembly and non-coding RNA biogenesis and accumulation. Seems not required for efficient translation.4 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

  • carotene biosynthetic process Source: TAIR
  • cellular response to phosphate starvation Source: TAIR
  • chlorophyll biosynthetic process Source: TAIR
  • chloroplast RNA processing Source: UniProtKB
  • mRNA catabolic process Source: InterPro
  • mRNA processing Source: UniProtKB-KW
  • negative regulation of isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway Source: TAIR
  • RNA catabolic process Source: UniProtKB
  • rRNA processing Source: UniProtKB-KW
  • tRNA processing Source: UniProtKB-KW
  • xanthophyll biosynthetic process Source: TAIR
Complete GO annotation...

Keywords - Molecular functioni

Exonuclease, Hydrolase, Nuclease, Nucleotidyltransferase, Transferase

Keywords - Biological processi

mRNA processing, rRNA processing, tRNA processing

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Polyribonucleotide nucleotidyltransferase 1, chloroplastic (EC:2.7.7.8)
Short name:
AtcpPNPase
Alternative name(s):
Polynucleotide phosphorylase 1
Short name:
PNPase 1
Protein PIGMENT DEFECTIVE 326
Protein RESISTANT TO INHIBITION WITH FSM 10
Gene namesi
Name:PNP1
Synonyms:PDE326, RIF10
Ordered Locus Names:At3g03710
ORF Names:F20H23.26, T12J13.1
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G03710.

Subcellular locationi

GO - Cellular componenti

  • chloroplast Source: TAIR
  • chloroplast stroma Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Plastid

Pathology & Biotechi

Disruption phenotypei

Delayed greening and retarded growth.3 Publications

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi176R → S: Reduces RNA-binding affinity; when associated with L-184. 1 Publication1
Mutagenesisi184P → L: Reduces RNA-binding affinity; when associated with S-176. 1 Publication1
Mutagenesisi202S → N: No effect on activity or DNA binding. 1 Publication1
Mutagenesisi596G → R: Loss of activity. 1 Publication1
Mutagenesisi625D → N: Loss of activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 48ChloroplastSequence analysisAdd BLAST48
ChainiPRO_000042027549 – 922Polyribonucleotide nucleotidyltransferase 1, chloroplasticAdd BLAST874

Proteomic databases

PaxDbiQ8GZQ3.

PTM databases

iPTMnetiQ8GZQ3.

Expressioni

Gene expression databases

GenevisibleiQ8GZQ3. AT.

Interactioni

Protein-protein interaction databases

STRINGi3702.AT3G03710.1.

Structurei

3D structure databases

ProteinModelPortaliQ8GZQ3.
SMRiQ8GZQ3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini692 – 752KHAdd BLAST61
Domaini762 – 831S1 motifAdd BLAST70

Sequence similaritiesi

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

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiKOG1067. Eukaryota.
COG1185. LUCA.
HOGENOMiHOG000218327.
InParanoidiQ8GZQ3.
KOiK00962.
OMAiGRSPCEL.
OrthoDBiEOG0936088V.
PhylomeDBiQ8GZQ3.

Family and domain databases

Gene3Di1.10.10.400. 2 hits.
3.30.1370.10. 1 hit.
3.30.230.70. 2 hits.
HAMAPiMF_01595. PNPase. 1 hit.
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.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR022967. S1_dom.
IPR003029. S1_domain.
[Graphical view]
PANTHERiPTHR11252. PTHR11252. 3 hits.
PfamiPF00013. KH_1. 1 hit.
PF01138. RNase_PH. 2 hits.
PF03725. RNase_PH_C. 1 hit.
PF00575. S1. 1 hit.
[Graphical view]
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.

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

Q8GZQ3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLTSPSNALH SSTPQFWPLR RSKLCRSRNF PRFHSGERSS GGGGKLCSLS
60 70 80 90 100
LLSGSGAGKF SVRALVRPDD TDDADSVGDG SLAFPNHVSV KIPFGNREIL
110 120 130 140 150
VETGLMGRQA SSAVTVTDGE TIVYTSVCLA DVPSEPSDFL PLYVHYQERF
160 170 180 190 200
SAVGRTSGGF FKREGRTKDH EVLICRLIDR PLRPTMPKGF YNETQILSWV
210 220 230 240 250
LSYDGLHAPD ALAVTSAGIA VALSEVPNAK AIAGVRVGLI GGEFIVNPTV
260 270 280 290 300
KEMEESQLDL FLAGTDTAIL TIEGYSNFLP EEMLLQAVKV GQDAVQATCI
310 320 330 340 350
AIEVLAKKYG KPKMLDAIRL PPPELYKHVK ELAGEELTKA LQIKSKISRR
360 370 380 390 400
KAISSLEEKV LTILTEKGYV IDEVAFGTIE AQPDLLEDED EDEEVVPEGE
410 420 430 440 450
VDQGDVHIRP IPRKPIPLLF SEVDVKLVFK EVSSKLLRRR IVEGGKRSDG
460 470 480 490 500
RTLDEIRPIN SRCGLLPRAH GSTLFTRGET QALAVVTLGD KQMAQRIDNL
510 520 530 540 550
EGSDEYKRFY LQYTFPPSSV GEVGRIGAPS RREIGHGTLA ERALETILPS
560 570 580 590 600
DDDFPYTIRV ESTVIESNGS SSMASVCGGC LALQDAGVPV KCSVAGIAMG
610 620 630 640 650
MVWDTEEFGG DGSPLILSDI TGAEDASGDM DFKVAGNEDG VTAFQMDIKV
660 670 680 690 700
GGITLEIMEK ALIQAKAGRR HILAEMAKCS PPPTLSLSKY APLILIMKVH
710 720 730 740 750
PSKVYSLIGS GGKKVKSIIE ESGVEAIDMQ DDGTVKIMAI DVASLERAKA
760 770 780 790 800
IISGLTMVPS VGDIYRNCEI KSMAPYGAFV EIAPGREGLC HISELSAEWL
810 820 830 840 850
AKPEDAYKVG DRIDVKLIEV NEKGQLRLSV RALLPESETD KDSQKQQPAG
860 870 880 890 900
DSTKDKSSQR KYVNTSSKDR AAAGASKVSS GDELVLKKKD VRRATGGSSD
910 920
KTMNSNSSTN EESLVNGEAT IS
Length:922
Mass (Da):99,566
Last modified:March 1, 2003 - v1
Checksum:iA6FFBB738F762838
GO

Sequence cautioni

The sequence AAF00646 differs from that shown. Reason: Erroneous gene model prediction.Curated
The sequence AAF03462 differs from that shown. Reason: Erroneous gene model prediction.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti355S → P in CAB85703 (Ref. 2) Curated1
Sequence conflicti823K → E in CAB85703 (Ref. 2) Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ252123 mRNA. Translation: CAB85703.1.
AF450480 mRNA. Translation: AAN76771.1.
AC009327 Genomic DNA. Translation: AAF03462.1. Sequence problems.
AC009540 Genomic DNA. Translation: AAF00646.1. Sequence problems.
CP002686 Genomic DNA. Translation: AEE73974.1.
RefSeqiNP_187021.2. NM_111242.3.
UniGeneiAt.26536.

Genome annotation databases

EnsemblPlantsiAT3G03710.1; AT3G03710.1; AT3G03710.
GeneIDi821181.
GrameneiAT3G03710.1; AT3G03710.1; AT3G03710.
KEGGiath:AT3G03710.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ252123 mRNA. Translation: CAB85703.1.
AF450480 mRNA. Translation: AAN76771.1.
AC009327 Genomic DNA. Translation: AAF03462.1. Sequence problems.
AC009540 Genomic DNA. Translation: AAF00646.1. Sequence problems.
CP002686 Genomic DNA. Translation: AEE73974.1.
RefSeqiNP_187021.2. NM_111242.3.
UniGeneiAt.26536.

3D structure databases

ProteinModelPortaliQ8GZQ3.
SMRiQ8GZQ3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT3G03710.1.

PTM databases

iPTMnetiQ8GZQ3.

Proteomic databases

PaxDbiQ8GZQ3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G03710.1; AT3G03710.1; AT3G03710.
GeneIDi821181.
GrameneiAT3G03710.1; AT3G03710.1; AT3G03710.
KEGGiath:AT3G03710.

Organism-specific databases

TAIRiAT3G03710.

Phylogenomic databases

eggNOGiKOG1067. Eukaryota.
COG1185. LUCA.
HOGENOMiHOG000218327.
InParanoidiQ8GZQ3.
KOiK00962.
OMAiGRSPCEL.
OrthoDBiEOG0936088V.
PhylomeDBiQ8GZQ3.

Miscellaneous databases

PROiQ8GZQ3.

Gene expression databases

GenevisibleiQ8GZQ3. AT.

Family and domain databases

Gene3Di1.10.10.400. 2 hits.
3.30.1370.10. 1 hit.
3.30.230.70. 2 hits.
HAMAPiMF_01595. PNPase. 1 hit.
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.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR022967. S1_dom.
IPR003029. S1_domain.
[Graphical view]
PANTHERiPTHR11252. PTHR11252. 3 hits.
PfamiPF00013. KH_1. 1 hit.
PF01138. RNase_PH. 2 hits.
PF03725. RNase_PH_C. 1 hit.
PF00575. S1. 1 hit.
[Graphical view]
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...

Entry informationi

Entry nameiPNP1_ARATH
AccessioniPrimary (citable) accession number: Q8GZQ3
Secondary accession number(s): Q9M497, Q9S749
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 28, 2012
Last sequence update: March 1, 2003
Last modified: November 30, 2016
This is version 109 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

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

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 one 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.