3MZ4
Crystal structure of D101L Mn2+ HDAC8 complexed with M344
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0000118 | cellular_component | histone deacetylase complex |
A | 0000122 | biological_process | negative regulation of transcription by RNA polymerase II |
A | 0000228 | cellular_component | nuclear chromosome |
A | 0004407 | molecular_function | histone deacetylase activity |
A | 0005515 | molecular_function | protein binding |
A | 0005634 | cellular_component | nucleus |
A | 0005654 | cellular_component | nucleoplasm |
A | 0005694 | cellular_component | chromosome |
A | 0005737 | cellular_component | cytoplasm |
A | 0006325 | biological_process | chromatin organization |
A | 0007064 | biological_process | mitotic sister chromatid cohesion |
A | 0016787 | molecular_function | hydrolase activity |
A | 0030544 | molecular_function | Hsp70 protein binding |
A | 0031397 | biological_process | negative regulation of protein ubiquitination |
A | 0031647 | biological_process | regulation of protein stability |
A | 0032204 | biological_process | regulation of telomere maintenance |
A | 0033558 | molecular_function | protein lysine deacetylase activity |
A | 0040029 | biological_process | epigenetic regulation of gene expression |
A | 0046872 | molecular_function | metal ion binding |
A | 0051879 | molecular_function | Hsp90 protein binding |
A | 0140297 | molecular_function | DNA-binding transcription factor binding |
A | 0160008 | molecular_function | protein decrotonylase activity |
A | 0160009 | molecular_function | histone decrotonylase activity |
B | 0000118 | cellular_component | histone deacetylase complex |
B | 0000122 | biological_process | negative regulation of transcription by RNA polymerase II |
B | 0000228 | cellular_component | nuclear chromosome |
B | 0004407 | molecular_function | histone deacetylase activity |
B | 0005515 | molecular_function | protein binding |
B | 0005634 | cellular_component | nucleus |
B | 0005654 | cellular_component | nucleoplasm |
B | 0005694 | cellular_component | chromosome |
B | 0005737 | cellular_component | cytoplasm |
B | 0006325 | biological_process | chromatin organization |
B | 0007064 | biological_process | mitotic sister chromatid cohesion |
B | 0016787 | molecular_function | hydrolase activity |
B | 0030544 | molecular_function | Hsp70 protein binding |
B | 0031397 | biological_process | negative regulation of protein ubiquitination |
B | 0031647 | biological_process | regulation of protein stability |
B | 0032204 | biological_process | regulation of telomere maintenance |
B | 0033558 | molecular_function | protein lysine deacetylase activity |
B | 0040029 | biological_process | epigenetic regulation of gene expression |
B | 0046872 | molecular_function | metal ion binding |
B | 0051879 | molecular_function | Hsp90 protein binding |
B | 0140297 | molecular_function | DNA-binding transcription factor binding |
B | 0160008 | molecular_function | protein decrotonylase activity |
B | 0160009 | molecular_function | histone decrotonylase activity |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE MN A 390 |
Chain | Residue |
A | ASP178 |
A | HIS180 |
A | ASP267 |
A | HOH469 |
A | HOH470 |
A | B3N501 |
site_id | AC2 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE K A 391 |
Chain | Residue |
A | SER199 |
A | LEU200 |
A | ASP176 |
A | ASP178 |
A | HIS180 |
site_id | AC3 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE K A 392 |
Chain | Residue |
A | PHE189 |
A | THR192 |
A | VAL195 |
A | TYR225 |
A | HOH397 |
A | HOH413 |
site_id | AC4 |
Number of Residues | 20 |
Details | BINDING SITE FOR RESIDUE B3N A 501 |
Chain | Residue |
A | LEU101 |
A | HIS142 |
A | HIS143 |
A | ASP178 |
A | HIS180 |
A | PHE208 |
A | ASP267 |
A | TYR306 |
A | MN390 |
A | HOH469 |
A | HOH470 |
A | HOH562 |
A | GOL705 |
B | LEU101 |
B | GLY151 |
B | PHE152 |
B | HIS180 |
B | PHE208 |
B | MET274 |
B | TYR306 |
site_id | AC5 |
Number of Residues | 11 |
Details | BINDING SITE FOR RESIDUE GOL A 705 |
Chain | Residue |
A | GLY140 |
A | TRP141 |
A | HIS143 |
A | GLY151 |
A | GLY303 |
A | GLY304 |
A | TYR306 |
A | HOH469 |
A | HOH470 |
A | B3N501 |
B | B3N501 |
site_id | AC6 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE MN B 390 |
Chain | Residue |
B | ASP178 |
B | HIS180 |
B | ASP267 |
B | B3N501 |
site_id | AC7 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE K B 391 |
Chain | Residue |
B | ASP176 |
B | ASP178 |
B | HIS180 |
B | SER199 |
B | LEU200 |
site_id | AC8 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE K B 392 |
Chain | Residue |
B | PHE189 |
B | THR192 |
B | VAL195 |
B | TYR225 |
B | HOH393 |
B | HOH401 |
site_id | AC9 |
Number of Residues | 18 |
Details | BINDING SITE FOR RESIDUE B3N B 501 |
Chain | Residue |
A | LEU101 |
A | PHE152 |
A | HIS180 |
A | PHE208 |
A | MET274 |
A | TYR306 |
A | GOL705 |
B | LEU101 |
B | HIS142 |
B | HIS143 |
B | ASP178 |
B | HIS180 |
B | PHE208 |
B | ASP267 |
B | GLY304 |
B | TYR306 |
B | MN390 |
B | GOL706 |
site_id | BC1 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE GOL B 706 |
Chain | Residue |
B | TRP141 |
B | GLY151 |
B | PHE152 |
B | GLY303 |
B | TYR306 |
B | B3N501 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 2 |
Details | ACT_SITE: Proton acceptor => ECO:0000269|PubMed:19053282 |
Chain | Residue | Details |
A | HIS143 | |
B | HIS143 |
site_id | SWS_FT_FI2 |
Number of Residues | 6 |
Details | BINDING: BINDING => ECO:0000269|PubMed:19053282 |
Chain | Residue | Details |
A | LEU101 | |
A | GLY151 | |
A | TYR306 | |
B | LEU101 | |
B | GLY151 | |
B | TYR306 |
site_id | SWS_FT_FI3 |
Number of Residues | 6 |
Details | BINDING: BINDING => ECO:0000269|PubMed:17721440 |
Chain | Residue | Details |
A | ASP178 | |
A | HIS180 | |
A | ASP267 | |
B | ASP178 | |
B | HIS180 | |
B | ASP267 |
site_id | SWS_FT_FI4 |
Number of Residues | 2 |
Details | MOD_RES: Phosphoserine => ECO:0000269|PubMed:15242608 |
Chain | Residue | Details |
A | SER39 | |
B | SER39 |