6DVN
Crystal structure of Danio rerio histone deacetylase 6 catalytic domain 2 in complex with DDK-137
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000118 | cellular_component | histone deacetylase complex |
| A | 0004407 | molecular_function | histone deacetylase activity |
| A | 0006325 | biological_process | chromatin organization |
| A | 0016575 | biological_process | histone deacetylation |
| B | 0000118 | cellular_component | histone deacetylase complex |
| B | 0004407 | molecular_function | histone deacetylase activity |
| B | 0006325 | biological_process | chromatin organization |
| B | 0016575 | biological_process | histone deacetylation |
| C | 0000118 | cellular_component | histone deacetylase complex |
| C | 0004407 | molecular_function | histone deacetylase activity |
| C | 0006325 | biological_process | chromatin organization |
| C | 0016575 | biological_process | histone deacetylation |
| D | 0000118 | cellular_component | histone deacetylase complex |
| D | 0004407 | molecular_function | histone deacetylase activity |
| D | 0006325 | biological_process | chromatin organization |
| D | 0016575 | biological_process | histone deacetylation |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 5 |
| Details | binding site for residue ZN A 801 |
| Chain | Residue |
| A | ASP612 |
| A | HIS614 |
| A | ASP705 |
| A | HB7804 |
| A | HOH903 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | binding site for residue K A 802 |
| Chain | Residue |
| A | LEU634 |
| A | ASP610 |
| A | ASP612 |
| A | HIS614 |
| A | SER633 |
| site_id | AC3 |
| Number of Residues | 6 |
| Details | binding site for residue K A 803 |
| Chain | Residue |
| A | PHE623 |
| A | ASP626 |
| A | VAL629 |
| A | TYR662 |
| A | HOH908 |
| A | HOH913 |
| site_id | AC4 |
| Number of Residues | 16 |
| Details | binding site for residue HB7 A 804 |
| Chain | Residue |
| A | PRO464 |
| A | HIS574 |
| A | GLY582 |
| A | PHE583 |
| A | ASP612 |
| A | HIS614 |
| A | PHE643 |
| A | ASP705 |
| A | GLY743 |
| A | TYR745 |
| A | ZN801 |
| A | HOH903 |
| A | HOH912 |
| A | HOH918 |
| A | HOH947 |
| A | HOH948 |
| site_id | AC5 |
| Number of Residues | 4 |
| Details | binding site for residue EDO A 805 |
| Chain | Residue |
| A | ARG472 |
| A | SER475 |
| A | ARG476 |
| A | SER751 |
| site_id | AC6 |
| Number of Residues | 6 |
| Details | binding site for residue EDO A 806 |
| Chain | Residue |
| A | ALA542 |
| A | PRO570 |
| A | PRO571 |
| A | PHE585 |
| A | PHE586 |
| A | THR588 |
| site_id | AC7 |
| Number of Residues | 5 |
| Details | binding site for residue ZN B 801 |
| Chain | Residue |
| B | ASP612 |
| B | HIS614 |
| B | ASP705 |
| B | HB7804 |
| B | HOH901 |
| site_id | AC8 |
| Number of Residues | 5 |
| Details | binding site for residue K B 802 |
| Chain | Residue |
| B | ASP610 |
| B | ASP612 |
| B | HIS614 |
| B | SER633 |
| B | LEU634 |
| site_id | AC9 |
| Number of Residues | 6 |
| Details | binding site for residue K B 803 |
| Chain | Residue |
| B | PHE623 |
| B | ASP626 |
| B | VAL629 |
| B | TYR662 |
| B | HOH928 |
| B | HOH931 |
| site_id | AD1 |
| Number of Residues | 20 |
| Details | binding site for residue HB7 B 804 |
| Chain | Residue |
| B | ASP460 |
| B | PRO464 |
| B | HIS574 |
| B | GLY582 |
| B | PHE583 |
| B | ASP612 |
| B | HIS614 |
| B | PHE643 |
| B | ASP705 |
| B | LEU712 |
| B | GLY743 |
| B | TYR745 |
| B | ZN801 |
| B | HOH901 |
| B | HOH907 |
| B | HOH910 |
| B | HOH918 |
| B | HOH930 |
| C | PRO711 |
| C | HB7804 |
| site_id | AD2 |
| Number of Residues | 4 |
| Details | binding site for residue EDO B 805 |
| Chain | Residue |
| B | LEU501 |
| B | CYS502 |
| B | ARG594 |
| B | ILE622 |
| site_id | AD3 |
| Number of Residues | 5 |
| Details | binding site for residue ZN C 801 |
| Chain | Residue |
| C | ASP612 |
| C | HIS614 |
| C | ASP705 |
| C | HB7804 |
| C | HOH904 |
| site_id | AD4 |
| Number of Residues | 5 |
| Details | binding site for residue K C 802 |
| Chain | Residue |
| C | ASP610 |
| C | ASP612 |
| C | HIS614 |
| C | SER633 |
| C | LEU634 |
| site_id | AD5 |
| Number of Residues | 6 |
| Details | binding site for residue K C 803 |
| Chain | Residue |
| C | PHE623 |
| C | ASP626 |
| C | VAL629 |
| C | TYR662 |
| C | HOH905 |
| C | HOH942 |
| site_id | AD6 |
| Number of Residues | 17 |
| Details | binding site for residue HB7 C 804 |
| Chain | Residue |
| B | LEU712 |
| B | HB7804 |
| C | PRO464 |
| C | HIS574 |
| C | GLY582 |
| C | PHE583 |
| C | ASP612 |
| C | HIS614 |
| C | PHE643 |
| C | ASP705 |
| C | GLY743 |
| C | TYR745 |
| C | ZN801 |
| C | HOH904 |
| C | HOH919 |
| C | HOH926 |
| B | PRO711 |
| site_id | AD7 |
| Number of Residues | 3 |
| Details | binding site for residue EDO C 805 |
| Chain | Residue |
| C | MET453 |
| C | LEU454 |
| C | HOH924 |
| site_id | AD8 |
| Number of Residues | 5 |
| Details | binding site for residue ZN D 801 |
| Chain | Residue |
| D | ASP612 |
| D | HIS614 |
| D | ASP705 |
| D | HB7804 |
| D | HOH902 |
| site_id | AD9 |
| Number of Residues | 5 |
| Details | binding site for residue K D 802 |
| Chain | Residue |
| D | ASP610 |
| D | ASP612 |
| D | HIS614 |
| D | SER633 |
| D | LEU634 |
| site_id | AE1 |
| Number of Residues | 6 |
| Details | binding site for residue K D 803 |
| Chain | Residue |
| D | PHE623 |
| D | ASP626 |
| D | VAL629 |
| D | TYR662 |
| D | HOH914 |
| D | HOH938 |
| site_id | AE2 |
| Number of Residues | 16 |
| Details | binding site for residue HB7 D 804 |
| Chain | Residue |
| D | HIS463 |
| D | PRO464 |
| D | HIS574 |
| D | GLY582 |
| D | PHE583 |
| D | ASP612 |
| D | HIS614 |
| D | PHE643 |
| D | ASP705 |
| D | LEU712 |
| D | GLY743 |
| D | TYR745 |
| D | ZN801 |
| D | HOH902 |
| D | HOH906 |
| D | HOH924 |
| site_id | AE3 |
| Number of Residues | 11 |
| Details | binding site for residue EDO D 805 |
| Chain | Residue |
| D | HIS614 |
| D | HIS615 |
| D | HIS635 |
| D | ARG636 |
| D | TYR637 |
| D | PHE642 |
| D | PHE643 |
| D | PRO644 |
| D | ALA649 |
| D | HOH920 |
| D | HOH928 |
