A3KPE8

PR
Gene name
SDN1 (At3g50100, F3A4.180)
Protein name
Small RNA degrading nuclease 1
Names
Species
Arabidopsis thaliana (Mouse-ear cress)
KEGG Pathway
ath:AT3G50100
EC number
Protein Class

Descriptions

The autoinhibited protein was predicted that may have potential autoinhibitory elements via cis-regPred.

Autoinhibitory domains (AIDs)

12-91 (Predicted disordered autoinhibitory region) PR

Target domain

Relief mechanism

Assay

cis-regPred

Accessory elements

No accessory elements

References

Autoinhibited structure

Activated structure

3 structures for A3KPE8

Entry ID Method Resolution Chain Position Source
5Z9X X-ray 280 A A 1-409 PDB
5Z9Z X-ray 205 A A 309-409 PDB
AF-A3KPE8-F1 Predicted AlphaFoldDB

56 variants for A3KPE8

Variant ID(s) Position Change Description Diseaes Association Provenance
ENSVATH02481029 14 D>E No 1000Genomes
ENSVATH14412141 20 L>W No 1000Genomes
ENSVATH14412142 24 D>G No 1000Genomes
tmp_3_18578594_G_A 26 R>H No 1000Genomes
ENSVATH02481030 28 E>D No 1000Genomes
ENSVATH06284204 34 E>K No 1000Genomes
ENSVATH06284205 37 H>R No 1000Genomes
tmp_3_18578630_T_C 38 V>A No 1000Genomes
ENSVATH02481031 39 Y>H No 1000Genomes
ENSVATH02481032 43 A>T No 1000Genomes
ENSVATH02481033 44 D>E No 1000Genomes
ENSVATH02481034 47 S>N No 1000Genomes
ENSVATH06284206 65 K>* No 1000Genomes
ENSVATH02481039 72 L>V No 1000Genomes
ENSVATH02481042 84 N>K No 1000Genomes
ENSVATH00412127 90 Q>E No 1000Genomes
tmp_3_18578866_T_A 91 D>E No 1000Genomes
ENSVATH12676714 92 E>K No 1000Genomes
ENSVATH06284208 93 D>V No 1000Genomes
ENSVATH00412128 94 T>S No 1000Genomes
ENSVATH12676745 106 H>N No 1000Genomes
ENSVATH00412130 108 S>N No 1000Genomes
ENSVATH06284216 117 P>L No 1000Genomes
ENSVATH06284222 143 V>F No 1000Genomes
tmp_3_18579200_G_A 147 M>I No 1000Genomes
tmp_3_18579216_G_T 153 G>W No 1000Genomes
ENSVATH02481051 162 V>F No 1000Genomes
tmp_3_18579259_T_C 167 L>S No 1000Genomes
ENSVATH00412134 178 N>D No 1000Genomes
ENSVATH06284229 178 N>S No 1000Genomes
ENSVATH02481055 180 P>A No 1000Genomes
ENSVATH06284231 187 D>G No 1000Genomes
ENSVATH00412135 197 E>Q No 1000Genomes
ENSVATH02481057 200 S>R No 1000Genomes
ENSVATH02481056 200 S>T No 1000Genomes
tmp_3_18579457_T_C 201 L>P No 1000Genomes
ENSVATH02481058 203 V>L No 1000Genomes
ENSVATH06284235 210 L>F No 1000Genomes
tmp_3_18579588_C_T 216 T>M No 1000Genomes
tmp_3_18579591_G_T 217 G>V No 1000Genomes
ENSVATH06284236 218 T>M No 1000Genomes
tmp_3_18579596_A_G 219 I>V No 1000Genomes
tmp_3_18579728_T_C 234 I>T No 1000Genomes
ENSVATH06284239 252 R>Q No 1000Genomes
ENSVATH12676750 269 Y>C No 1000Genomes
ENSVATH12676751 284 A>T No 1000Genomes
ENSVATH06284240 287 A>T No 1000Genomes
ENSVATH02481070 300 D>E No 1000Genomes
tmp_3_18580136_A_C 314 K>N No 1000Genomes
ENSVATH06284242 353 Y>C No 1000Genomes
tmp_3_18580344_T_C 356 F>L No 1000Genomes
tmp_3_18580404_G_A 376 E>K No 1000Genomes
ENSVATH06284245 390 I>V No 1000Genomes
ENSVATH06284246 398 A>G No 1000Genomes
tmp_3_18580560_G_C 399 S>T No 1000Genomes
tmp_3_18580569_T_C 402 V>A No 1000Genomes

No associated diseases with A3KPE8

2 regional properties for A3KPE8

Type Name Position InterPro Accession
domain Exonuclease, RNase T/DNA polymerase III 139 - 300 IPR013520
domain RNA exonuclease 1-like, exonuclease domain 141 - 292 IPR034922

Functions

Description
EC Number
Subcellular Localization
  • Nucleus
PANTHER Family
PANTHER Subfamily
PANTHER Protein Class
PANTHER Pathway Category No pathway information available

1 GO annotations of cellular component

Name Definition
nucleus A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

5 GO annotations of molecular function

Name Definition
3'-5' exonuclease activity Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' end.
3'-5'-exoribonuclease activity Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of an RNA molecule.
3'-5'-exoribonuclease activity involved in mature miRNA 3'-end processing Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of an RNA molecule that contributes to forming distinct miRNA isoforms from a mature miRNA.
exonuclease activity Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' or 5' end.
miRNA binding Binding to a microRNA, a 21-23 nucleotide RNA that is processed from a stem-loop RNA precursor (pre-miRNA) that is encoded within plant and animal genomes.

1 GO annotations of biological process

Name Definition
miRNA catabolic process The chemical reactions and pathways resulting in the breakdown of miRNA, microRNA, a class of single-stranded RNA molecules of about 21-23 nucleotides in length, which regulates gene expression.

1 homologous proteins in AiPD

UniProt AC Gene Name Protein Name Species Evidence Code
Q8RXK2 SDN3 Small RNA degrading nuclease 3 Arabidopsis thaliana (Mouse-ear cress) PR
10 20 30 40 50 60
MELKLATAEK QVLDELVKLL QSRDLRGENG NWKEFLHVYD KNADSPSDPS RRSHEDLVQF
70 80 90 100 110 120
LTTFKKKEDL QLLKCHANHL LIENLKQESQ DEDTPEQMLV RLTVEHPSYS LDYSFKPYSE
130 140 150 160 170 180
DWFVSDVGMK MKKVMESTNM VAVDCEMVLC EDGTEGLVRV GVVDRDLKVI LDEFVKPNKP
190 200 210 220 230 240
VVDYRTDITG ITAEDIENAS LSVVDIQETL QPFLSTGTIL VGHSLNRDLE VLKIDHPKVI
250 260 270 280 290 300
DTALVFKYPN TRKLRRPSLN NLCKSILGYE VRKTGVPHDC VHDASAAMKL ALAVVEKRVD
310 320 330 340 350 360
TTIKPSKEML EVEKAKLFLH KIPNNVPSEE LEQVLSGKFT LDVKQAKTQG RYYCAFALFH
370 380 390 400
SSEDADQAFE HIDGIEMTDS LGLPQKVVII KLSSGSRASI YVRKMVQDE