Structure of PDB 8kd2 Chain V

Receptor sequence
>8kd2V (length=92) Species: 8355 (Xenopus laevis) [Search protein sequence]
TRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLA
HYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTS
3D structure
PDB8kd2 Structural basis of nucleosome deacetylation and DNA linker tightening by Rpd3S histone deacetylase complex.
ChainV
Resolution3.02 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 V R30 I36 R2 I8
BS02 dna V Y39 I51 S52 S53 R83 S84 T85 Y11 I23 S24 S25 R55 S56 T57
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0005515 protein binding
GO:0030527 structural constituent of chromatin
GO:0046982 protein heterodimerization activity
Cellular Component
GO:0000786 nucleosome
GO:0005634 nucleus
GO:0005694 chromosome

View graph for
Molecular Function
View graph for
Cellular Component
External links
PDB RCSB:8kd2, PDBe:8kd2, PDBj:8kd2
PDBsum8kd2
PubMed37666978
UniProtP02281|H2B11_XENLA Histone H2B 1.1

[Back to BioLiP]