Q9FJR0 · RENT1_ARATH
- ProteinRegulator of nonsense transcripts 1 homolog
- GeneUPF1
- StatusUniProtKB reviewed (Swiss-Prot)
- Amino acids1254 (go to sequence)
- Protein existenceEvidence at protein level
- Annotation score5/5
Function
function
Involved in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons (premature termination codon PTC) by associating with the nuclear exon junction complex (EJC) and serving as link between the EJC core and NMD machinery. Eliminates the production of nonsense-containing RNAs (ncRNAs). Required for plant development and adaptation to environmental stresses, including plant defense and response to wounding.
Catalytic activity
- ATP + H2O = ADP + H+ + phosphateThis reaction proceeds in the forward direction.
- ATP + H2O = ADP + H+ + phosphateThis reaction proceeds in the forward direction.
Features
Showing features for binding site.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Binding site | 140 | Zn2+ 1 (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 143 | Zn2+ 1 (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 154 | Zn2+ 2 (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 159 | Zn2+ 2 (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 164 | Zn2+ 1 (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 174 | Zn2+ 1 (UniProtKB | ChEBI) | ||||
Sequence: H | ||||||
Binding site | 178 | Zn2+ 2 (UniProtKB | ChEBI) | ||||
Sequence: H | ||||||
Binding site | 184 | Zn2+ 2 (UniProtKB | ChEBI) | ||||
Sequence: H | ||||||
Binding site | 202 | Zn2+ 3 (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 205 | Zn2+ 3 (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 228 | Zn2+ 3 (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 232 | Zn2+ 3 (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 493 | ATP (UniProtKB | ChEBI) | ||||
Sequence: Q | ||||||
Binding site | 513-517 | ATP (UniProtKB | ChEBI) | ||||
Sequence: GTGKT | ||||||
Binding site | 685 | ATP (UniProtKB | ChEBI) | ||||
Sequence: Q | ||||||
Binding site | 722 | ATP (UniProtKB | ChEBI) | ||||
Sequence: Y | ||||||
Binding site | 853 | ATP (UniProtKB | ChEBI) | ||||
Sequence: E |
GO annotations
Aspect | Term | |
---|---|---|
Cellular Component | cytoplasm | |
Cellular Component | cytosol | |
Cellular Component | P-body | |
Cellular Component | plasmodesma | |
Molecular Function | ATP binding | |
Molecular Function | ATP hydrolysis activity | |
Molecular Function | DNA binding | |
Molecular Function | mRNA binding | |
Molecular Function | RNA helicase activity | |
Molecular Function | zinc ion binding | |
Biological Process | defense response to bacterium | |
Biological Process | jasmonic acid mediated signaling pathway | |
Biological Process | long-day photoperiodism | |
Biological Process | nuclear-transcribed mRNA catabolic process, nonsense-mediated decay | |
Biological Process | response to wounding | |
Biological Process | RNA splicing | |
Biological Process | salicylic acid mediated signaling pathway | |
Biological Process | sugar mediated signaling pathway | |
Biological Process | translation |
Keywords
- Molecular function
- Biological process
- Ligand
Enzyme and pathway databases
Names & Taxonomy
Protein names
- Recommended nameRegulator of nonsense transcripts 1 homolog
- EC number
- 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 accessionQ9FJR0
- Secondary accessions
Proteomes
Organism-specific databases
Genome annotation databases
Subcellular Location
UniProt Annotation
GO Annotation
Note: Remobilize from the cytoplasm into processing bodies by SMG7.
Keywords
- Cellular component
Phenotypes & Variants
Disruption phenotype
Seedling lethal. Increased expression of not only protein-coding transcripts but also many mRNA-like nonprotein-coding RNAs (mlncRNAs), including natural antisense transcript RNAs (nat-RNAs). Dwarf with curly leaves and late flowering. Photoperiod-dependent altered development and stress responses; in long days (16 hours light), altered organ morphologies (e.g. narrow and epinastic leaves with wide petiole, small rosette size, long seeds, some abnormal flowers and stunted stem growth), disturbed homeostasis of wounding-induced jasmonic acid and pathogen-elicited salicylic acid. Increased resistance to Pseudomonas syringae pv. tomato strain DC3000.
Features
Showing features for mutagenesis.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Mutagenesis | 852 | Abolishes NMD. | ||||
Sequence: R → C |
Variants
We now provide the "Disease & Variants" viewer in its own tab.
The viewer provides 42 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_0000080721 | 1-1254 | Regulator of nonsense transcripts 1 homolog | |||
Sequence: MDSQQSDLFDTASQPDTVADEYTFLEFNTQGDSEFDYQDFGSPTAWPTPSDSISIADVADRGEGGAAADHHSEASSPSSLSAGAGNGAKVGRGGVGGSGGVSSSSQVDALAAGVGNLNFEETGDDDGFDYGKNDFTEHACKYCGISNPACVVRCNVASCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHRDSPLGETILECYNCGCRNVFLLGFISAKTDSVVVLLCRDPCLNVNALKDMNWDLSQWCPLIDDRCFLPWLVKVPSEQEQLRARQISAQQINKIEELWKTNPDATLEDLEKPGVDDEPQPVQPKYEDAYQYQNVFAPLIKLEADYDKMMKESQSKENLTVRWDIGLNKKRVAYFVFPKEENELRLVPGDELRLRYSGDAVHPSWQSVGHVIKLTAQEEVALELRANQGVPIDVNHGFSVDFVWKSTSFDRMQGAMKNFAVDETSVSGYIYHQLLGHEVEAQMVRNTLPRRFGVPGLPELNASQVNAVKSVLQKPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEYLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKNLKRATEREITQSADVICCTCVGAADLRLSNFRFRQVLIDESTQATEPECLIPLVLGVKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVTLGIKPIRLQVQYRMHPALSEFPSNSFYEGTLQNGVTIIERQTTGIDFPWPVPNRPMFFYVQLGQEEISASGTSYLNRTEAANVEKLVTAFLKSGVVPSQIGVITPYEGQRAYIVNYMARNGSLRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEGPLNNLKQSMVQFQKPRKIYNDRRLFYGGGAGMIGNDNFGSGNPNADRRGSRGRAGGSYLPSGPPNGARPGLHPAGYPIPRVPLSPFPGGPPSQPYAIPTRGPVGAVPHAPQPGNHGFGAGRGTSVGGHLPHQQATQHNVGTIGPSLNFPLDSPNSQPSPGGPLSQPGYGSQAFRDGFSMGGISQDFLADDIKSQGSHDPYNMADFATQASPGGFAVDYATQGAHGAFPGNFMNQNSQGGYSRFSGINDFMSQEYMAHGGQGLFTQAGFIDSSQDDGQQNPYGVNNPNLQSQGLPNSLYSQPFAHYNTQPLNLSGPQQSQPNQSSQNPKHPYNG |
Post-translational modification
Highly phosphorylated in S/TQ-enriched N-terminal and C-terminal regions; required for formation of mRNA surveillance complexes.
Keywords
- PTM
Proteomic databases
PTM databases
Expression
Induction
Down-regulated upon Pseudomonas syringae pv. tomato strain DC3000 infection.
Gene expression databases
Structure
Family & Domains
Features
Showing features for region, compositional bias, domain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Region | 1-21 | Disordered | ||||
Sequence: MDSQQSDLFDTASQPDTVADE | ||||||
Region | 1-106 | S/TQ motifs-rich, involved in the target transcript degradation steps of nonsense-mediated decay (NMD) | ||||
Sequence: MDSQQSDLFDTASQPDTVADEYTFLEFNTQGDSEFDYQDFGSPTAWPTPSDSISIADVADRGEGGAAADHHSEASSPSSLSAGAGNGAKVGRGGVGGSGGVSSSSQ | ||||||
Compositional bias | 33-51 | Polar residues | ||||
Sequence: SEFDYQDFGSPTAWPTPSD | ||||||
Region | 33-52 | Disordered | ||||
Sequence: SEFDYQDFGSPTAWPTPSDS | ||||||
Region | 61-102 | Disordered | ||||
Sequence: RGEGGAAADHHSEASSPSSLSAGAGNGAKVGRGGVGGSGGVS | ||||||
Domain | 132-291 | Upf1 CH-rich | ||||
Sequence: KNDFTEHACKYCGISNPACVVRCNVASCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHRDSPLGETILECYNCGCRNVFLLGFISAKTDSVVVLLCRDPCLNVNALKDMNWDLSQWCPLIDDRCFLPWLVKVPSEQEQLRARQISAQQINKIEELWKTN | ||||||
Region | 140-174 | C3H | ||||
Sequence: CKYCGISNPACVVRCNVASCRKWFCNSRGNTSGSH | ||||||
Region | 154-184 | CC/SHH/C | ||||
Sequence: CNVASCRKWFCNSRGNTSGSHIVNHLVRAKH | ||||||
Region | 202-232 | C4 | ||||
Sequence: CYNCGCRNVFLLGFISAKTDSVVVLLCRDPC | ||||||
Domain | 497-629 | Helicase ATP-binding | ||||
Sequence: VKSVLQKPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEYLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKNLKRATEREITQS | ||||||
Region | 956-1096 | Disordered | ||||
Sequence: NDNFGSGNPNADRRGSRGRAGGSYLPSGPPNGARPGLHPAGYPIPRVPLSPFPGGPPSQPYAIPTRGPVGAVPHAPQPGNHGFGAGRGTSVGGHLPHQQATQHNVGTIGPSLNFPLDSPNSQPSPGGPLSQPGYGSQAFRD | ||||||
Compositional bias | 996-1018 | Pro residues | ||||
Sequence: GYPIPRVPLSPFPGGPPSQPYAI | ||||||
Region | 1013-1254 | S/TQ motifs-rich, involved in the target transcript degradation steps of nonsense-mediated decay (NMD) | ||||
Sequence: SQPYAIPTRGPVGAVPHAPQPGNHGFGAGRGTSVGGHLPHQQATQHNVGTIGPSLNFPLDSPNSQPSPGGPLSQPGYGSQAFRDGFSMGGISQDFLADDIKSQGSHDPYNMADFATQASPGGFAVDYATQGAHGAFPGNFMNQNSQGGYSRFSGINDFMSQEYMAHGGQGLFTQAGFIDSSQDDGQQNPYGVNNPNLQSQGLPNSLYSQPFAHYNTQPLNLSGPQQSQPNQSSQNPKHPYNG | ||||||
Compositional bias | 1049-1075 | Polar residues | ||||
Sequence: HLPHQQATQHNVGTIGPSLNFPLDSPN | ||||||
Region | 1187-1254 | Disordered | ||||
Sequence: AGFIDSSQDDGQQNPYGVNNPNLQSQGLPNSLYSQPFAHYNTQPLNLSGPQQSQPNQSSQNPKHPYNG |
Domain
The helicase ATP-binding domain is implicated in early steps of nonsense-mediated decay (NMD).
Sequence similarities
Belongs to the DNA2/NAM7 helicase family.
Keywords
- Domain
Phylogenomic databases
Family and domain databases
Sequence
- Sequence statusComplete
- Length1,254
- Mass (Da)136,868
- Last updated2006-02-21 v2
- ChecksumAE68846E70B27DC9
Sequence caution
Features
Showing features for compositional bias.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Compositional bias | 33-51 | Polar residues | ||||
Sequence: SEFDYQDFGSPTAWPTPSD | ||||||
Compositional bias | 996-1018 | Pro residues | ||||
Sequence: GYPIPRVPLSPFPGGPPSQPYAI | ||||||
Compositional bias | 1049-1075 | Polar residues | ||||
Sequence: HLPHQQATQHNVGTIGPSLNFPLDSPN |
Keywords
- Technical term
Sequence databases
Nucleotide Sequence | Protein Sequence | Molecule Type | Status | |
---|---|---|---|---|
AB013394 EMBL· GenBank· DDBJ | BAB10240.1 EMBL· GenBank· DDBJ | Genomic DNA | Sequence problems. | |
CP002688 EMBL· GenBank· DDBJ | AED95457.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
AF484122 EMBL· GenBank· DDBJ | AAL92018.1 EMBL· GenBank· DDBJ | mRNA |