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Ribonuclease 3 (EC 3.1.26.3) (Ribonuclease III) (RNase III)

 RNT1_YEAST              Reviewed;         471 AA.
Q02555; D6W065; Q04008; Q05038;
01-NOV-1997, integrated into UniProtKB/Swiss-Prot.
01-NOV-1997, sequence version 1.
23-MAY-2018, entry version 153.
RecName: Full=Ribonuclease 3;
EC=3.1.26.3;
AltName: Full=Ribonuclease III;
Short=RNase III;
Name=RNT1; OrderedLocusNames=YMR239C; ORFNames=YM9408.01C, YM9959.21;
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast).
Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina;
Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces.
NCBI_TaxID=559292;
[1]
NUCLEOTIDE SEQUENCE [GENOMIC DNA].
PubMed=8620530; DOI=10.1016/S0092-8674(00)81087-9;
Elela S.A., Igel H., Ares M. Jr.;
"RNase III cleaves eukaryotic preribosomal RNA at a U3 snoRNP-
dependent site.";
Cell 85:115-124(1996).
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=ATCC 204508 / S288c;
PubMed=9169872;
Bowman S., Churcher C.M., Badcock K., Brown D., Chillingworth T.,
Connor R., Dedman K., Devlin K., Gentles S., Hamlin N., Hunt S.,
Jagels K., Lye G., Moule S., Odell C., Pearson D., Rajandream M.A.,
Rice P., Skelton J., Walsh S.V., Whitehead S., Barrell B.G.;
"The nucleotide sequence of Saccharomyces cerevisiae chromosome
XIII.";
Nature 387:90-93(1997).
[3]
GENOME REANNOTATION.
STRAIN=ATCC 204508 / S288c;
PubMed=24374639; DOI=10.1534/g3.113.008995;
Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R.,
Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S.,
Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M.,
Cherry J.M.;
"The reference genome sequence of Saccharomyces cerevisiae: Then and
now.";
G3 (Bethesda) 4:389-398(2014).
[4]
LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
PubMed=14562106; DOI=10.1038/nature02046;
Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A.,
Dephoure N., O'Shea E.K., Weissman J.S.;
"Global analysis of protein expression in yeast.";
Nature 425:737-741(2003).
-!- FUNCTION: DsRNA-specific nuclease that cleaves eukaryotic pre-
ribosomal RNA at the U3 snoRNP-dependent A0 site in the 5'-
external transcribed spacer (ETS) and in the 3'-ETS. In vitro,
cleaves synthetic 5'-ETS RNA A0 site in the absence of snoRNA or
other factors. Has an essential growth function in addition to
pre-rRNA processing.
-!- CATALYTIC ACTIVITY: Endonucleolytic cleavage to 5'-
phosphomonoester.
-!- INTERACTION:
Q00416:SEN1; NbExp=2; IntAct=EBI-15673, EBI-16945;
-!- MISCELLANEOUS: Present with 4970 molecules/cell in log phase SD
medium. {ECO:0000269|PubMed:14562106}.
-----------------------------------------------------------------------
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EMBL; U27016; AAB04172.1; -; Genomic_DNA.
EMBL; Z48756; CAA88649.1; -; Genomic_DNA.
EMBL; Z49939; CAA90210.1; -; Genomic_DNA.
EMBL; BK006946; DAA10139.1; -; Genomic_DNA.
PIR; S56053; S56053.
RefSeq; NP_013966.1; NM_001182746.1.
PDB; 1T4L; NMR; -; B=366-453.
PDB; 1T4N; NMR; -; A=364-447.
PDB; 1T4O; X-ray; 2.50 A; A/B=362-471.
PDB; 2LBS; NMR; -; B=366-453.
PDB; 2LUP; NMR; -; B=366-453.
PDB; 2LUQ; NMR; -; A=366-453.
PDB; 4OOG; X-ray; 2.50 A; A/B=42-151, C=197-457.
PDB; 5T16; X-ray; 2.78 A; A/B/I/J=184-459, C/D/E/F/K/L/M/N=41-159.
PDBsum; 1T4L; -.
PDBsum; 1T4N; -.
PDBsum; 1T4O; -.
PDBsum; 2LBS; -.
PDBsum; 2LUP; -.
PDBsum; 2LUQ; -.
PDBsum; 4OOG; -.
PDBsum; 5T16; -.
ProteinModelPortal; Q02555; -.
SMR; Q02555; -.
BioGrid; 35418; 326.
DIP; DIP-4298N; -.
IntAct; Q02555; 8.
MINT; Q02555; -.
STRING; 4932.YMR239C; -.
MaxQB; Q02555; -.
PaxDb; Q02555; -.
PRIDE; Q02555; -.
EnsemblFungi; YMR239C; YMR239C; YMR239C.
GeneID; 855280; -.
KEGG; sce:YMR239C; -.
EuPathDB; FungiDB:YMR239C; -.
SGD; S000004852; RNT1.
HOGENOM; HOG000000766; -.
InParanoid; Q02555; -.
KO; K03685; -.
OMA; SKKKAMA; -.
OrthoDB; EOG092C2YRH; -.
BioCyc; YEAST:YMR239C-MONOMER; -.
BRENDA; 3.1.26.3; 984.
EvolutionaryTrace; Q02555; -.
PRO; PR:Q02555; -.
Proteomes; UP000002311; Chromosome XIII.
GO; GO:0005730; C:nucleolus; IDA:SGD.
GO; GO:0005654; C:nucleoplasm; IDA:SGD.
GO; GO:0003725; F:double-stranded RNA binding; IBA:GO_Central.
GO; GO:0004525; F:ribonuclease III activity; IDA:SGD.
GO; GO:0034963; P:box C/D snoRNA processing; IMP:SGD.
GO; GO:0034964; P:box H/ACA snoRNA processing; IMP:SGD.
GO; GO:0006325; P:chromatin organization; IMP:SGD.
GO; GO:0000294; P:nuclear-transcribed mRNA catabolic process, endonucleolytic cleavage-dependent decay; IDA:SGD.
GO; GO:0031054; P:pre-miRNA processing; IBA:GO_Central.
GO; GO:0031053; P:primary miRNA processing; IBA:GO_Central.
GO; GO:0030422; P:production of siRNA involved in RNA interference; IBA:GO_Central.
GO; GO:0060237; P:regulation of fungal-type cell wall organization; IMP:SGD.
GO; GO:0006364; P:rRNA processing; IMP:SGD.
GO; GO:0009303; P:rRNA transcription; IMP:SGD.
GO; GO:0030847; P:termination of RNA polymerase II transcription, exosome-dependent; IDA:SGD.
GO; GO:0034473; P:U1 snRNA 3'-end processing; IMP:SGD.
GO; GO:0034475; P:U4 snRNA 3'-end processing; IMP:SGD.
GO; GO:0034476; P:U5 snRNA 3'-end processing; IDA:SGD.
CDD; cd00593; RIBOc; 1.
Gene3D; 1.10.1520.10; -; 1.
InterPro; IPR014720; dsRBD_dom.
InterPro; IPR000999; RNase_III_dom.
InterPro; IPR036389; RNase_III_sf.
Pfam; PF00035; dsrm; 1.
Pfam; PF00636; Ribonuclease_3; 1.
SMART; SM00358; DSRM; 1.
SMART; SM00535; RIBOc; 1.
SUPFAM; SSF69065; SSF69065; 1.
PROSITE; PS50137; DS_RBD; 1.
PROSITE; PS00517; RNASE_3_1; 1.
PROSITE; PS50142; RNASE_3_2; 1.
1: Evidence at protein level;
3D-structure; Complete proteome; Endonuclease; Hydrolase; Nuclease;
Reference proteome; RNA-binding.
CHAIN 1 471 Ribonuclease 3.
/FTId=PRO_0000180466.
DOMAIN 227 331 RNase III. {ECO:0000255|PROSITE-
ProRule:PRU00177}.
DOMAIN 369 437 DRBM. {ECO:0000255|PROSITE-
ProRule:PRU00266}.
HELIX 46 69 {ECO:0000244|PDB:4OOG}.
HELIX 73 81 {ECO:0000244|PDB:4OOG}.
STRAND 84 86 {ECO:0000244|PDB:4OOG}.
HELIX 88 95 {ECO:0000244|PDB:4OOG}.
HELIX 97 110 {ECO:0000244|PDB:4OOG}.
HELIX 116 126 {ECO:0000244|PDB:4OOG}.
STRAND 136 138 {ECO:0000244|PDB:4OOG}.
HELIX 140 149 {ECO:0000244|PDB:4OOG}.
HELIX 208 213 {ECO:0000244|PDB:4OOG}.
HELIX 218 221 {ECO:0000244|PDB:4OOG}.
HELIX 229 233 {ECO:0000244|PDB:4OOG}.
HELIX 238 259 {ECO:0000244|PDB:4OOG}.
HELIX 265 276 {ECO:0000244|PDB:4OOG}.
HELIX 278 287 {ECO:0000244|PDB:4OOG}.
HELIX 290 293 {ECO:0000244|PDB:4OOG}.
STRAND 303 305 {ECO:0000244|PDB:5T16}.
TURN 306 309 {ECO:0000244|PDB:4OOG}.
HELIX 313 329 {ECO:0000244|PDB:4OOG}.
HELIX 331 356 {ECO:0000244|PDB:4OOG}.
HELIX 358 360 {ECO:0000244|PDB:4OOG}.
HELIX 370 378 {ECO:0000244|PDB:1T4O}.
HELIX 381 383 {ECO:0000244|PDB:1T4O}.
STRAND 386 391 {ECO:0000244|PDB:1T4O}.
STRAND 394 396 {ECO:0000244|PDB:1T4N}.
STRAND 400 405 {ECO:0000244|PDB:1T4O}.
TURN 407 409 {ECO:0000244|PDB:1T4L}.
STRAND 411 419 {ECO:0000244|PDB:1T4O}.
HELIX 420 433 {ECO:0000244|PDB:1T4O}.
HELIX 435 441 {ECO:0000244|PDB:1T4O}.
HELIX 450 453 {ECO:0000244|PDB:4OOG}.
STRAND 455 457 {ECO:0000244|PDB:5T16}.
SEQUENCE 471 AA; 54071 MW; 570294172E66A0DE CRC64;
MGSKVAGKKK TQNDNKLDNE NGSQQRENIN TKTLLKGNLK ISNYKYLEVI QLEHAVTKLV
ESYNKIIELS PNLVAYNEAV NNQDRVPVQI LPSLSRYQLK LAAELKTLHD LKKDAILTEI
TDYENEFDTE QKQPILQEIS KADMEKLEKL EQVKREKREK IDVNVYENLN EKEDEEEDEG
EDSYDPTKAG DIVKATKWPP KLPEIQDLAI RARVFIHKST IKDKVYLSGS EMINAHNERL
EFLGDSILNS VMTLIIYNKF PDYSEGQLST LRMNLVSNEQ IKQWSIMYNF HEKLKTNFDL
KDENSNFQNG KLKLYADVFE AYIGGLMEDD PRNNLPKIRK WLRKLAKPVI EEATRNQVAL
EKTDKLDMNA KRQLYSLIGY ASLRLHYVTV KKPTAVDPNS IVECRVGDGT VLGTGVGRNI
KIAGIRAAEN ALRDKKMLDF YAKQRAAIPR SESVLKDPSQ KNKKRKFSDT S


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