Structure of PDB 8kd3 Chain B Binding Site BS01

Receptor Information
>8kd3 Chain B (length=542) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EEVTFFEKAKRYIGNKHLYTEFLKILNLYSQDILDLDDLVEKVDFYLGSN
KELFTWFKNFVGYQCEAFGPSYKRLPKSDTFMPCSGRDDMCWEVLNDEWV
GHPVWASEDSGFIAHRKNQYEETLFKIEEERHEYDFYIESNLRTIQCLET
IVNKIENMTENEKANFKLPPGLGHTSMTIYKKVIRKVYDKERGFEIIDAL
HEHPAVTAPVVLKRLKQKDEEWRRAQREWNKVWRELEQKVFFKSLDHLGL
TFKQADKKLLTTKQLISEISSIKVDQTNKKIHWLTPKPKSQLDFDFPDKN
IFYDILCLADTFITHTTAYSNPDKERLKDLLKYFISLFFSISFEKIEESL
YSIFNLFANTNIYIFFRHWTTIYERLLEIKQMNERVTKEINTRSTVTFAK
DLDLLSSQLSEMGLDFVGEDAYKQVLRLSRRLINGDLEHQWFEESLRQAY
NNKAFKLYTIDKVTQSLVKHAHTLMTDAKTAEIMALFVKDRNASTTSAKD
QIIYRLQVRSHMSNTENMFRIEFDKRTLHVSIQYIALDDLTL
Ligand information
>8kd3 Chain X (length=164) [Search DNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
ggcggccgctctagaacaggatgtatatatctgacacgtgcctggagact
agggagtaatccccttggcggttaaaacgcgggggacagcgcgtacgtgc
gtttaagcggtgctagagctgtctacgaccaattgagcggcctcggcacc
gggattctccaggg
Receptor-Ligand Complex Structure
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PDB8kd3 Structural basis of nucleosome deacetylation and DNA linker tightening by Rpd3S histone deacetylase complex.
Resolution2.9 Å
Binding residue
(original residue number in PDB)		Q937 K941
Binding residue
(residue number reindexed from 1)		Q254 K258
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003713 transcription coactivator activity
GO:0003714 transcription corepressor activity
GO:0005515 protein binding
GO:0042802 identical protein binding
Biological Process
GO:0000086 G2/M transition of mitotic cell cycle
GO:0000122 negative regulation of transcription by RNA polymerase II
GO:0006303 double-strand break repair via nonhomologous end joining
GO:0006325 chromatin organization
GO:0006334 nucleosome assembly
GO:0006355 regulation of DNA-templated transcription
GO:0006357 regulation of transcription by RNA polymerase II
GO:0016479 negative regulation of transcription by RNA polymerase I
GO:0030174 regulation of DNA-templated DNA replication initiation
GO:0034605 cellular response to heat
GO:0044804 nucleophagy
GO:0045944 positive regulation of transcription by RNA polymerase II
GO:0051301 cell division
GO:0051321 meiotic cell cycle
GO:0061186 negative regulation of silent mating-type cassette heterochromatin formation
GO:0061188 negative regulation of rDNA heterochromatin formation
GO:0070550 rDNA chromatin condensation
Cellular Component
GO:0000785 chromatin
GO:0005634 nucleus
GO:0032221 Rpd3S complex
GO:0033698 Rpd3L complex
GO:0070210 Rpd3L-Expanded complex
GO:0070822 Sin3-type complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8kd3, PDBe:8kd3, PDBj:8kd3
PDBsum8kd3
PubMed37666978
UniProtP22579|SIN3_YEAST Transcriptional regulatory protein SIN3 (Gene Name=SIN3)

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