Structure of PDB 8kd3 Chain B

Receptor sequence
>8kd3B (length=542) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence]
EEVTFFEKAKRYIGNKHLYTEFLKILNLYSQDILDLDDLVEKVDFYLGSN
KELFTWFKNFVGYQCEAFGPSYKRLPKSDTFMPCSGRDDMCWEVLNDEWV
GHPVWASEDSGFIAHRKNQYEETLFKIEEERHEYDFYIESNLRTIQCLET
IVNKIENMTENEKANFKLPPGLGHTSMTIYKKVIRKVYDKERGFEIIDAL
HEHPAVTAPVVLKRLKQKDEEWRRAQREWNKVWRELEQKVFFKSLDHLGL
TFKQADKKLLTTKQLISEISSIKVDQTNKKIHWLTPKPKSQLDFDFPDKN
IFYDILCLADTFITHTTAYSNPDKERLKDLLKYFISLFFSISFEKIEESL
YSIFNLFANTNIYIFFRHWTTIYERLLEIKQMNERVTKEINTRSTVTFAK
DLDLLSSQLSEMGLDFVGEDAYKQVLRLSRRLINGDLEHQWFEESLRQAY
NNKAFKLYTIDKVTQSLVKHAHTLMTDAKTAEIMALFVKDRNASTTSAKD
QIIYRLQVRSHMSNTENMFRIEFDKRTLHVSIQYIALDDLTL
3D structure
PDB8kd3 Structural basis of nucleosome deacetylation and DNA linker tightening by Rpd3S histone deacetylase complex.
ChainB
Resolution2.9 Å
3D
structure
[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]
Enzymatic activity
Enzyme Commision number ?
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 dna B Q937 K941 Q254 K258
BS02 dna B E1220 H1221 Q1222 E438 H439 Q440
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

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

[Back to BioLiP]