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YEAST:RPD3

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Species (Taxon ID) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast). (559292)
Gene Name(s) RPD3 (synonyms: MOF6, REC3, SDI2, SDS6)
Protein Name(s) Histone deacetylase RPD3

Transcriptional regulatory protein RPD3

External Links
UniProt P32561
EMBL S66438
X83226
Z46259
Z71605
Z71606
AY692813
BK006947
PIR S22284
RefSeq NP_014069.1
ProteinModelPortal P32561
SMR P32561
BioGrid 35511
DIP DIP-681N
IntAct P32561
MINT MINT-614075
STRING 4932.YNL330C
MaxQB P32561
PaxDb P32561
PeptideAtlas P32561
EnsemblFungi [example_ID YNL330C]
GeneID 855386
KEGG sce:YNL330C
CYGD YNL330c
SGD S000005274
eggNOG COG0123
GeneTree ENSGT00530000062889
HOGENOM HOG000225180
InParanoid P32561
KO K06067
OMA YILYHES
OrthoDB EOG78M0B2
BioCyc YEAST:G3O-33314-MONOMER
NextBio 979187
Proteomes UP000002311
Genevestigator P32561
GO GO:0005737
GO:0000118
GO:0033698
GO:0032221
GO:0070822
GO:0004407
GO:0032041
GO:0097372
GO:0046969
GO:0046970
GO:0003713
GO:0003714
GO:0070932
GO:0070933
GO:0061188
GO:0061186
GO:0031939
GO:0045128
GO:0051038
GO:0016479
GO:0000122
GO:0016239
GO:0045944
GO:0034503
GO:0030174
GO:0034401
GO:0000083
GO:0000117
GO:0001302
GO:0006368
GO:0061587
Gene3D 3.40.800.20
InterPro IPR000286
IPR003084
IPR023801
PANTHER PTHR10625
Pfam PF00850
PIRSF PIRSF037913
PRINTS PR01270
PR01271

Annotations

Qualifier GO ID GO term name Reference ECO ID ECO term name with/from Aspect Extension Notes Status
GO:0000083

regulation of transcription involved in G1/S phase of mitotic cell cycle

PMID:19823668[1]

ECO:0000021

SGD:S000005609

P

complete

part_of

GO:0070210

Rpd3L-Expanded complex

PMID:19040720[2]

ECO:0007005

high throughput direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

part_of

GO:0033698

Rpd3L complex

PMID:19040720[2]

ECO:0007005

high throughput direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

part_of

GO:0070211

Snt2C complex

PMID:19040720[2]

ECO:0007005

high throughput direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:24881874[3]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

  • happens_during:(GO:0006995)
  • regulates_transcription_of:(SGD:S000003148)
  • regulates_transcription_of:(SGD:S000001214)
  • regulates_transcription_of:(SGD:S000000174)
  • regulates_transcription_of:(SGD:S000002308)
  • regulates_transcription_of:(SGD:S000000332)

Seeded From UniProt

complete

part_of

GO:0034399

nuclear periphery

PMID:25817432[4]

ECO:0000314

direct assay evidence used in manual assertion

C

exists_during:(GO:0006974)

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:24358376[5]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:24358376[5]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0045944

positive regulation of transcription by RNA polymerase II

PMID:20398213[6]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0045944

positive regulation of transcription by RNA polymerase II

PMID:20398213[6]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0045944

positive regulation of transcription by RNA polymerase II

PMID:20398213[6]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0045944

positive regulation of transcription by RNA polymerase II

PMID:20398213[6]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:20398213[6]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:20398213[6]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:20398213[6]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:20398213[6]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:20398213[6]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:20398213[6]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0070933

histone H4 deacetylation

PMID:8962081[7]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0070933

histone H4 deacetylation

PMID:9572144[8]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0070932

histone H3 deacetylation

PMID:8962081[7]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

part_of

GO:0070822

Sin3-type complex

PMID:9234741[9]

ECO:0000314

direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

involved_in

GO:0061587

transfer RNA gene-mediated silencing

PMID:23707796[10]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0061188

negative regulation of chromatin silencing at rDNA

PMID:10512855[11]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0061188

negative regulation of chromatin silencing at rDNA

PMID:10388812[12]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0061188

negative regulation of chromatin silencing at rDNA

PMID:10082585[13]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0061186

negative regulation of chromatin silencing at silent mating-type cassette

PMID:19372273[14]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0061186

negative regulation of chromatin silencing at silent mating-type cassette

PMID:10512855[11]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0061186

negative regulation of chromatin silencing at silent mating-type cassette

PMID:10388812[12]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0051038

negative regulation of transcription involved in meiotic cell cycle

PMID:17158929[15]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0045944

positive regulation of transcription by RNA polymerase II

PMID:17296735[16]

ECO:0000316

genetic interaction evidence used in manual assertion

SGD:S000003162

P

Seeded From UniProt

complete

involved_in

GO:0045944

positive regulation of transcription by RNA polymerase II

PMID:17210643[17]

ECO:0000316

genetic interaction evidence used in manual assertion

SGD:S000004674

P

Seeded From UniProt

complete

involved_in

GO:0045944

positive regulation of transcription by RNA polymerase II

PMID:17296735[16]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0045944

positive regulation of transcription by RNA polymerase II

PMID:17210643[17]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0045944

positive regulation of transcription by RNA polymerase II

PMID:15254041[18]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0045944

positive regulation of transcription by RNA polymerase II

PMID:17706600[19]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0045128

negative regulation of reciprocal meiotic recombination

PMID:18515193[20]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0034503

protein localization to nucleolar rDNA repeats

PMID:17203076[21]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

part_of

GO:0033698

Rpd3L complex

PMID:16286008[22]

ECO:0000314

direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

part_of

GO:0033698

Rpd3L complex

PMID:16314178[23]

ECO:0000314

direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

part_of

GO:0033698

Rpd3L complex

PMID:16286007[24]

ECO:0000314

direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

part_of

GO:0032221

Rpd3S complex

PMID:16286008[22]

ECO:0000314

direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

part_of

GO:0032221

Rpd3S complex

PMID:16286007[24]

ECO:0000314

direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

involved_in

GO:0031939

negative regulation of chromatin silencing at telomere

PMID:19372273[14]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0031939

negative regulation of chromatin silencing at telomere

PMID:10512855[11]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0031939

negative regulation of chromatin silencing at telomere

PMID:10388812[12]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0031939

negative regulation of chromatin silencing at telomere

PMID:20133733[25]

ECO:0000314

direct assay evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0030174

regulation of DNA-dependent DNA replication initiation

PMID:15143171[26]

ECO:0000316

genetic interaction evidence used in manual assertion

SGD:S000006324

P

Seeded From UniProt

complete

involved_in

GO:0030174

regulation of DNA-dependent DNA replication initiation

PMID:19417103[27]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0030174

regulation of DNA-dependent DNA replication initiation

PMID:15143171[26]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0030174

regulation of DNA-dependent DNA replication initiation

PMID:12453428[28]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0016479

negative regulation of transcription by RNA polymerase I

PMID:19270272[29]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0016479

negative regulation of transcription by RNA polymerase I

PMID:14609951[30]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0016239

positive regulation of macroautophagy

PMID:22539722[31]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0006368

transcription elongation from RNA polymerase II promoter

PMID:19948887[32]

ECO:0000316

genetic interaction evidence used in manual assertion

SGD:S000004470

P

Seeded From UniProt

complete

enables

GO:0004407

histone deacetylase activity

PMID:12110674[33]

ECO:0000315

mutant phenotype evidence used in manual assertion

F

Seeded From UniProt

complete

enables

GO:0004407

histone deacetylase activity

PMID:9572144[8]

ECO:0000315

mutant phenotype evidence used in manual assertion

F

Seeded From UniProt

complete

enables

GO:0004407

histone deacetylase activity

PMID:9512514[34]

ECO:0000315

mutant phenotype evidence used in manual assertion

F

Seeded From UniProt

complete

enables

GO:0004407

histone deacetylase activity

PMID:8962081[7]

ECO:0000315

mutant phenotype evidence used in manual assertion

F

Seeded From UniProt

complete

enables

GO:0004407

histone deacetylase activity

PMID:12110674[33]

ECO:0000314

direct assay evidence used in manual assertion

F

Seeded From UniProt

complete

enables

GO:0003714

transcription corepressor activity

PMID:9150136[35]

ECO:0000353

physical interaction evidence used in manual assertion

SGD:S000005364

F

Seeded From UniProt

complete

enables

GO:0003714

transcription corepressor activity

PMID:9150136[35]

ECO:0000315

mutant phenotype evidence used in manual assertion

F

Seeded From UniProt

complete

enables

GO:0003713

transcription coactivator activity

PMID:14737171[36]

ECO:0000353

physical interaction evidence used in manual assertion

SGD:S000000859

F

Seeded From UniProt

complete

enables

GO:0003713

transcription coactivator activity

PMID:14737171[36]

ECO:0000315

mutant phenotype evidence used in manual assertion

F

Seeded From UniProt

complete

involved_in

GO:0001302

replicative cell aging

PMID:10512855[11]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:11069890[37]

ECO:0000353

physical interaction evidence used in manual assertion

SGD:S000000316

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:11069890[37]

ECO:0000316

genetic interaction evidence used in manual assertion

SGD:S000003162
SGD:S000006272

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:17121596[38]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:16314178[23]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0000122

negative regulation of transcription by RNA polymerase II

PMID:15141165[39]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

part_of

GO:0000118

histone deacetylase complex

PMID:8962081[7]

ECO:0000314

direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

involved_in

GO:0000117

regulation of transcription involved in G2/M transition of mitotic cell cycle

PMID:17908798[40]

ECO:0000316

genetic interaction evidence used in manual assertion

SGD:S000005899

P

Seeded From UniProt

complete

involved_in

GO:0000083

regulation of transcription involved in G1/S transition of mitotic cell cycle

PMID:19823668[1]

ECO:0000353

physical interaction evidence used in manual assertion

SGD:S000005609

P

Seeded From UniProt

complete

involved_in

GO:0000083

regulation of transcription involved in G1/S transition of mitotic cell cycle

PMID:19823668[1]

ECO:0000316

genetic interaction evidence used in manual assertion

SGD:S000000038
SGD:S000006037

P

Seeded From UniProt

complete

involved_in

GO:0070933

histone H4 deacetylation

PMID:21873635[41]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

MGI:MGI:108086
MGI:MGI:1097691
MGI:MGI:1343091
PANTHER:PTN002578320
PomBase:SPAC3G9.07c
SGD:S000005274
SGD:S000006272
UniProtKB:G5EB64
UniProtKB:Q13547

P

Seeded From UniProt

complete

involved_in

GO:0070932

histone H3 deacetylation

PMID:21873635[41]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

MGI:MGI:108086
MGI:MGI:1097691
PANTHER:PTN002578320
RGD:1309799
RGD:619976
RGD:619977
SGD:S000005274
TAIR:locus:2098115
UniProtKB:G5EB64
UniProtKB:Q13547

P

Seeded From UniProt

complete

part_of

GO:0070822

Sin3-type complex

PMID:21873635[41]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

FB:FBgn0015805
PANTHER:PTN000066122
PomBase:SPBC36.05c
SGD:S000005274
UniProtKB:Q13547
UniProtKB:Q92769

C

Seeded From UniProt

complete

involved_in

GO:0045944

positive regulation of transcription by RNA polymerase II

PMID:21873635[41]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

PANTHER:PTN002578320
PomBase:SPBC36.05c
SGD:S000005274
SGD:S000006272
UniProtKB:O15379
UniProtKB:Q13547
UniProtKB:Q92769
WB:WBGene00001834

P

Seeded From UniProt

complete

enables

GO:0004407

histone deacetylase activity

PMID:21873635[41]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

FB:FBgn0015805
FB:FBgn0025825
MGI:MGI:108086
MGI:MGI:1097691
PANTHER:PTN002578320
PomBase:SPAC3G9.07c
PomBase:SPBC36.05c
RGD:1309799
RGD:619976
SGD:S000003162
SGD:S000005274
TAIR:locus:2162017
UniProtKB:G5EB64
UniProtKB:O15379
UniProtKB:Q13547
UniProtKB:Q7K6A1
UniProtKB:Q92769
WB:WBGene00001834
dictyBase:DDB_G0270338

F

Seeded From UniProt

complete

part_of

GO:0000118

histone deacetylase complex

PMID:21873635[41]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

FB:FBgn0015805
MGI:MGI:108086
PANTHER:PTN002578320
PomBase:SPAC3G9.07c
PomBase:SPBC36.05c
SGD:S000003162
SGD:S000005274
SGD:S000006272
UniProtKB:Q13547
UniProtKB:Q92769
WB:WBGene00001834

C

Seeded From UniProt

complete

enables

GO:0004407

histone deacetylase activity

GO_REF:0000002

ECO:0000256

match to sequence model evidence used in automatic assertion

InterPro:IPR003084

F

Seeded From UniProt

complete

involved_in

GO:0016575

histone deacetylation

GO_REF:0000002

ECO:0000256

match to sequence model evidence used in automatic assertion

InterPro:IPR003084

P

Seeded From UniProt

complete

enables

GO:0032041

NAD-dependent histone deacetylase activity (H3-K14 specific)

GO_REF:0000003

ECO:0000501

evidence used in automatic assertion

EC:3.5.1.98

F

Seeded From UniProt

complete

enables

GO:0004407

histone deacetylase activity

GO_REF:0000003

ECO:0000501

evidence used in automatic assertion

EC:3.5.1.98

F

Seeded From UniProt

complete

involved_in

GO:0006325

chromatin organization

GO_REF:0000037

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-KW:KW-0156

P

Seeded From UniProt

complete

part_of

GO:0005634

nucleus

GO_REF:0000037
GO_REF:0000039

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-KW:KW-0539
UniProtKB-SubCell:SL-0191

C

Seeded From UniProt

complete

enables

GO:0016787

hydrolase activity

GO_REF:0000037

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-KW:KW-0378

F

Seeded From UniProt

complete

part_of

GO:0005737

cytoplasm

GO_REF:0000037
GO_REF:0000039

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-KW:KW-0963
UniProtKB-SubCell:SL-0086

C

Seeded From UniProt

complete

Notes

References

See Help:References for how to manage references in GONUTS.

  1. 1.0 1.1 1.2 Huang, D et al. (2009) Dual regulation by pairs of cyclin-dependent protein kinases and histone deacetylases controls G1 transcription in budding yeast. PLoS Biol. 7 e1000188 PubMed GONUTS page
  2. 2.0 2.1 2.2 Shevchenko, A et al. (2008) Chromatin Central: towards the comparative proteome by accurate mapping of the yeast proteomic environment. Genome Biol. 9 R167 PubMed GONUTS page
  3. Jin, M et al. (2014) Transcriptional regulation by Pho23 modulates the frequency of autophagosome formation. Curr. Biol. 24 1314-1322 PubMed GONUTS page
  4. Gallina, I et al. (2015) Cmr1/WDR76 defines a nuclear genotoxic stress body linking genome integrity and protein quality control. Nat Commun 6 6533 PubMed GONUTS page
  5. 5.0 5.1 Yeheskely-Hayon, D et al. (2013) The roles of the catalytic and noncatalytic activities of Rpd3L and Rpd3S in the regulation of gene transcription in yeast. PLoS ONE 8 e85088 PubMed GONUTS page
  6. 6.0 6.1 6.2 6.3 6.4 6.5 6.6 6.7 6.8 6.9 Ruiz-Roig, C et al. (2010) The Rpd3L HDAC complex is essential for the heat stress response in yeast. Mol. Microbiol. 76 1049-62 PubMed GONUTS page
  7. 7.0 7.1 7.2 7.3 Rundlett, SE et al. (1996) HDA1 and RPD3 are members of distinct yeast histone deacetylase complexes that regulate silencing and transcription. Proc. Natl. Acad. Sci. U.S.A. 93 14503-8 PubMed GONUTS page
  8. 8.0 8.1 Rundlett, SE et al. (1998) Transcriptional repression by UME6 involves deacetylation of lysine 5 of histone H4 by RPD3. Nature 392 831-5 PubMed GONUTS page
  9. Kasten, MM et al. (1997) A large protein complex containing the yeast Sin3p and Rpd3p transcriptional regulators. Mol. Cell. Biol. 17 4852-8 PubMed GONUTS page
  10. Good, PD et al. (2013) Silencing near tRNA genes is nucleosome-mediated and distinct from boundary element function. Gene 526 7-15 PubMed GONUTS page
  11. 11.0 11.1 11.2 11.3 Kim, S et al. (1999) Modulation of life-span by histone deacetylase genes in Saccharomyces cerevisiae. Mol. Biol. Cell 10 3125-36 PubMed GONUTS page
  12. 12.0 12.1 12.2 Sun, ZW & Hampsey, M (1999) A general requirement for the Sin3-Rpd3 histone deacetylase complex in regulating silencing in Saccharomyces cerevisiae. Genetics 152 921-32 PubMed GONUTS page
  13. Smith, JS et al. (1999) A genetic screen for ribosomal DNA silencing defects identifies multiple DNA replication and chromatin-modulating factors. Mol. Cell. Biol. 19 3184-97 PubMed GONUTS page
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