Q9FQ03 · XRN3_ARATH
- Protein5'-3' exoribonuclease 3
- GeneXRN3
- StatusUniProtKB reviewed (Swiss-Prot)
- Amino acids1020 (go to sequence)
- Protein existenceEvidence at protein level
- Annotation score5/5
Function
function
Possesses 5'->3' exoribonuclease activity (PubMed:11106401).
Acts as an endogenous post-transcriptional gene silencing (PTGS) suppressor. Degrades miRNA-derived loops, excised during miRNA maturation in the nucleus. Required for proper development (PubMed:17993620).
Involved in pre-rRNA processing. Involved with XRN2 in the 5'-end exonucleolytic processing of 5.8S and 25S rRNAs. Contributes with XRN2 to polyadenylation-dependent nuclear RNA surveillance. Involved in the degradation of aberrant polyadenylated pre-rRNA through 5'-end processing (PubMed:20338880).
Acts as an endogenous post-transcriptional gene silencing (PTGS) suppressor. Degrades miRNA-derived loops, excised during miRNA maturation in the nucleus. Required for proper development (PubMed:17993620).
Involved in pre-rRNA processing. Involved with XRN2 in the 5'-end exonucleolytic processing of 5.8S and 25S rRNAs. Contributes with XRN2 to polyadenylation-dependent nuclear RNA surveillance. Involved in the degradation of aberrant polyadenylated pre-rRNA through 5'-end processing (PubMed:20338880).
GO annotations
all annotations | all molecular function | nucleotide binding | molecular_function | nucleic acid binding | dna binding | chromatin binding | dna-binding transcription factor activity | rna binding | cytoskeletal motor activity | catalytic activity | nuclease activity | signaling receptor binding | structural molecule activity | transporter activity | binding | protein binding | translation factor activity, rna binding | lipid binding | kinase activity | transferase activity | hydrolase activity | oxygen binding | enzyme regulator activity | carbohydrate binding | signaling receptor activity | translation regulator activity | transcription regulator activity | other molecular function | all biological process | carbohydrate metabolic process | generation of precursor metabolites and energy | nucleobase-containing compound metabolic process | dna metabolic process | translation | lipid metabolic process | transport | response to stress | cell cycle | cell communication | signal transduction | cell-cell signaling | multicellular organism development | circadian rhythm | biological_process | metabolic process | catabolic process | biosynthetic process | response to light stimulus | response to external stimulus | tropism | response to biotic stimulus | response to abiotic stimulus | response to endogenous stimulus | embryo development | post-embryonic development | fruit ripening | abscission | pollination | flower development | cellular process | programmed cell death | photosynthesis | cellular component organization | cell growth | protein metabolic process | cellular homeostasis | secondary metabolic process | reproductive process | cell differentiation | protein modification process | growth | epigenetic regulation of gene expression | response to chemical | anatomical structure development | regulation of molecular function | other biological process | all cellular component | cellular_component | extracellular region | cell wall | intracellular anatomical structure | nucleus | nuclear envelope | nucleoplasm | nucleolus | cytoplasm | mitochondrion | lysosome | endosome | vacuole | peroxisome | endoplasmic reticulum | golgi apparatus | cytosol | ribosome | cytoskeleton | plasma membrane | chloroplast | plastid | thylakoid | membrane | external encapsulating structure | other cellular component | |||
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Aspect | Term | |
---|---|---|
Cellular Component | nucleus | |
Molecular Function | 5'-3' RNA exonuclease activity | |
Molecular Function | nucleic acid binding | |
Molecular Function | zinc ion binding | |
Biological Process | miRNA catabolic process | |
Biological Process | mRNA processing | |
Biological Process | negative regulation of post-transcriptional gene silencing | |
Biological Process | nuclear polyadenylation-dependent rRNA catabolic process | |
Biological Process | rRNA 5'-end processing |
Keywords
- Molecular function
- Biological process
- Ligand
Enzyme and pathway databases
Names & Taxonomy
Protein names
- Recommended name5'-3' exoribonuclease 3
- EC number
- Short namesAtXRN3
- Alternative names
Gene names
Organism names
- Strain
- Taxonomic lineageEukaryota > Viridiplantae > Streptophyta > Embryophyta > Tracheophyta > Spermatophyta > Magnoliopsida > eudicotyledons > Gunneridae > Pentapetalae > rosids > malvids > Brassicales > Brassicaceae > Camelineae > Arabidopsis
Accessions
- Primary accessionQ9FQ03
- Secondary accessions
Proteomes
Organism-specific databases
Genome annotation databases
Subcellular Location
Phenotypes & Variants
Disruption phenotype
Embryonic lethality.
Variants
We now provide the "Disease & Variants" viewer in its own tab.
The viewer provides 48 variants from UniProt as well as other sources including ClinVar and dbSNP.
PTM/Processing
Features
Showing features for chain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Chain | PRO_0000348955 | 1-1020 | 5'-3' exoribonuclease 3 | |||
Sequence: MGVPSFYRWLAEKYPLLVADVIEEEPVEIEGIKIPVDTSKPNPNNLEYDNLYLDMNGIIHPCFHPEDRPSPTTFEEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRSAKDASDAAAEEERLREEFEREGRRLPPKVDSQVFDSNVITPGTEFMGVLSIALQYYVHLRLNHDVGWKNIKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLGLATHEVHFSILREVVYTPGQQERCFLCGQMGHFASNCEGKPKKRAGESDEKGDGNDFVKKPYQFLHIWVLREYLELEMRIPNPPFEIDLERIVDDFIFICFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRSFDGYLTDGCKPNLKRVEQFIQAVGSFEDKIFQKRAMQHQRQAERVKRDKAGKATKRMDDEAPTVQPDLVPVARFSGSRLASAPTPSPFQSNDGRSAPHQKVRRLSPGSSVGAAIVDVENSLESDERENKEELKTKLKELIREKSDAFNSDTTEEDKVKLGQPGWRERYYEEKFSVVTPEEMERVRKDVVLKYTEGLCWVMHYYMEGVCSWQWFYPYHYAPFASDLKDLGEMDIKFELGTPFKPFNQLLGVFPAASSHALPERYRTLMTDPNSPIIDFYPTDFEVDMNGKRFSWQGIAKLPFIDERRLLEAVSEVEFTLTDEEKRRNSRMCDMLFIATSHRLAELVFSLDNHCRQLSARERVDFKVKIKPKLSDGMNGYLTPCSGETHPPVFRSPMEGMEDILTNQVICCIYRLPDAHEHITRPPPGVIFPKKTVDIGDLKPPPALWHEDNGRRPMHNNHGMHNNHGMHNNQGRQNPPGSVSGRHLGNAAHRLVSNSLQMGTDRYQTPTDVPAPGYGYNPPQYVPPIPYQHGGYMAPPGAQGYAQPAPYQNRGGYQPRGPSGRFPSEPYQSQSREGQHASRGGGYSGNHQNQHQQQQWHGQGGSEQNNPRGYNGQHHHQQGGDHDRRGRGRGSHHHHDQGGNPRHRY |
Proteomic databases
PTM databases
Expression
Tissue specificity
Expressed in roots, leaves, stems and flowers.
Gene expression databases
Interaction
Protein-protein interaction databases
Structure
Family & Domains
Features
Showing features for region, compositional bias, zinc finger, coiled coil.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Region | 113-144 | Disordered | ||||
Sequence: QQRSRRFRSAKDASDAAAEEERLREEFEREGR | ||||||
Compositional bias | 117-144 | Basic and acidic residues | ||||
Sequence: RRFRSAKDASDAAAEEERLREEFEREGR | ||||||
Zinc finger | 262-279 | CCHC-type | ||||
Sequence: ERCFLCGQMGHFASNCEG | ||||||
Compositional bias | 411-436 | Basic and acidic residues | ||||
Sequence: QHQRQAERVKRDKAGKATKRMDDEAP | ||||||
Region | 411-440 | Disordered | ||||
Sequence: QHQRQAERVKRDKAGKATKRMDDEAPTVQP | ||||||
Region | 452-483 | Disordered | ||||
Sequence: RLASAPTPSPFQSNDGRSAPHQKVRRLSPGSS | ||||||
Compositional bias | 453-469 | Polar residues | ||||
Sequence: LASAPTPSPFQSNDGRS | ||||||
Coiled coil | 487-523 | |||||
Sequence: AIVDVENSLESDERENKEELKTKLKELIREKSDAFNS | ||||||
Region | 831-859 | Disordered | ||||
Sequence: NNHGMHNNHGMHNNQGRQNPPGSVSGRHL | ||||||
Compositional bias | 836-855 | Polar residues | ||||
Sequence: HNNHGMHNNQGRQNPPGSVS | ||||||
Region | 875-897 | Disordered | ||||
Sequence: TDRYQTPTDVPAPGYGYNPPQYV | ||||||
Region | 911-1020 | Disordered | ||||
Sequence: PGAQGYAQPAPYQNRGGYQPRGPSGRFPSEPYQSQSREGQHASRGGGYSGNHQNQHQQQQWHGQGGSEQNNPRGYNGQHHHQQGGDHDRRGRGRGSHHHHDQGGNPRHRY | ||||||
Compositional bias | 938-988 | Polar residues | ||||
Sequence: PSEPYQSQSREGQHASRGGGYSGNHQNQHQQQQWHGQGGSEQNNPRGYNGQ | ||||||
Compositional bias | 1002-1020 | Basic residues | ||||
Sequence: RGRGSHHHHDQGGNPRHRY |
Sequence similarities
Belongs to the 5'-3' exonuclease family. XRN2/RAT1 subfamily.
Keywords
- Domain
Phylogenomic databases
Family and domain databases
Sequence & Isoform
- Sequence statusComplete
This entry describes 2 isoforms produced by Alternative splicing.
Q9FQ03-1
This isoform has been chosen as the canonical sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
- Name1
- Length1,020
- Mass (Da)116,826
- Last updated2001-03-01 v1
- ChecksumE383AB94A0A758D3
Q9FQ03-2
- Name2
Sequence caution
Features
Showing features for compositional bias, alternative sequence.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Compositional bias | 117-144 | Basic and acidic residues | ||||
Sequence: RRFRSAKDASDAAAEEERLREEFEREGR | ||||||
Compositional bias | 411-436 | Basic and acidic residues | ||||
Sequence: QHQRQAERVKRDKAGKATKRMDDEAP | ||||||
Compositional bias | 453-469 | Polar residues | ||||
Sequence: LASAPTPSPFQSNDGRS | ||||||
Alternative sequence | VSP_035194 | 746-763 | in isoform 2 | |||
Sequence: SDGMNGYLTPCSGETHPP → RFVKRNPICLFYDFVVNE | ||||||
Alternative sequence | VSP_035195 | 764-1020 | in isoform 2 | |||
Sequence: Missing | ||||||
Compositional bias | 836-855 | Polar residues | ||||
Sequence: HNNHGMHNNQGRQNPPGSVS | ||||||
Compositional bias | 938-988 | Polar residues | ||||
Sequence: PSEPYQSQSREGQHASRGGGYSGNHQNQHQQQQWHGQGGSEQNNPRGYNGQ | ||||||
Compositional bias | 1002-1020 | Basic residues | ||||
Sequence: RGRGSHHHHDQGGNPRHRY |
Keywords
- Coding sequence diversity
- Technical term
Sequence databases
Nucleotide Sequence | Protein Sequence | Molecule Type | Status | |
---|---|---|---|---|
AF286719 EMBL· GenBank· DDBJ | AAG40732.1 EMBL· GenBank· DDBJ | mRNA | ||
AC006434 EMBL· GenBank· DDBJ | AAF87130.1 EMBL· GenBank· DDBJ | Genomic DNA | Sequence problems. | |
CP002684 EMBL· GenBank· DDBJ | AEE35742.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
AY136383 EMBL· GenBank· DDBJ | AAM97049.1 EMBL· GenBank· DDBJ | mRNA | ||
BT000175 EMBL· GenBank· DDBJ | AAN15494.1 EMBL· GenBank· DDBJ | mRNA |