Brand  (β version)

PDB ID: 4LY1

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Ligands
Code Name Style Show Link
ZN Zinc ion PoSSuM
CA Calcium ion PoSSuM
NA Sodium ion PoSSuM
PG4 Tetraethylene glycol PoSSuM
20Y 4-(acetylamino)-N-[2-amino-5-(thiophen-2-yl)phenyl]benzamide PoSSuM
Non-standard Residues
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Glycosylation
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Structure summary

Code : 4LY1   PDBj   RCSB PDB   PDBe
Header : HYDROLASE/HYDROLASE INHIBITOR
Title : Structure of Human HDAC2 in complex with inhibitor 4-(acetylamino)-N-[2-amino-5-(thiophen-2-yl)phenyl]benzamide
Release Data : 2013-08-21
Compound :
mol_id molecule chains synonym
1 Histone deacetylase 2 A,B,C HD2
ec: 3.5.1.98
fragment: core domain (UNP residues 8-376)
Source :
mol_id organism_scientific organism_common expression_system
1 Homo sapiens  (taxid:9606) Human Spodoptera frugiperda  (taxid:7108)
gene: HDAC2
Authors : Fong, R., Lupardus, P.J.
Keywords : deacetylase, Histone, HYDROLASE-HYDROLASE INHIBITOR complex
Exp. method : X-RAY DIFFRACTION ( 1.57 Å )
Citation :

Histone Deacetylase (HDAC) Inhibitor Kinetic Rate Constants Correlate with Cellular Histone Acetylation but Not Transcription and Cell Viability.

Lauffer, B.E.,Mintzer, R.,Fong, R.  et al.
(2013)  J.Biol.Chem.  288 : 26926 - 26943

PubMed: 23897821
DOI: 10.1074/jbc.M113.490706

Reaction

Chain : A, B, C
UniProt : Q92769 (HDAC2_HUMAN)
Reaction: EC: Evidence:
Physiological Direction:
N(6)-acetyl-L-lysyl-[histone] + H2O = L-lysyl-[histone] + acetate 3.5.1.98 PubMed:28497810
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N(6)-acetyl-L-lysyl-[protein] + H2O = L-lysyl-[protein] + acetate - PubMed:19343227
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N(6)-(2E)-butenoyl-L-lysyl-[protein] + H2O = (2E)-2-butenoate + L-lysyl-[protein] - PubMed:28497810
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N(6)-(2-hydroxyisobutanoyl)-L-lysyl-[protein] + H2O = 2- hydroxy-2-methylpropanoate + L-lysyl-[protein] - PubMed:29192674
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N(6)-[(S)-lactoyl]-L-lysyl-[protein] + H2O = (S)-lactate + L- lysyl-[protein] - PubMed:35044827
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Cofactor: Evidence: Note:
Zn(2+) ECO:0000269 | PubMed:37137925
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Ca(2+) - Binds 2 Ca(2+) ions per subunit.