6HU0
Crystal structure of Schistosoma mansoni HDAC8 complexed with a benzohydroxamate inhibitor 9
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0000122 | biological_process | negative regulation of transcription by RNA polymerase II |
A | 0004407 | molecular_function | histone deacetylase activity |
A | 0005634 | cellular_component | nucleus |
A | 0006338 | biological_process | chromatin remodeling |
A | 0046872 | molecular_function | metal ion binding |
B | 0000122 | biological_process | negative regulation of transcription by RNA polymerase II |
B | 0004407 | molecular_function | histone deacetylase activity |
B | 0005634 | cellular_component | nucleus |
B | 0006338 | biological_process | chromatin remodeling |
B | 0046872 | molecular_function | metal ion binding |
C | 0000122 | biological_process | negative regulation of transcription by RNA polymerase II |
C | 0004407 | molecular_function | histone deacetylase activity |
C | 0005634 | cellular_component | nucleus |
C | 0006338 | biological_process | chromatin remodeling |
C | 0046872 | molecular_function | metal ion binding |
D | 0000122 | biological_process | negative regulation of transcription by RNA polymerase II |
D | 0004407 | molecular_function | histone deacetylase activity |
D | 0005634 | cellular_component | nucleus |
D | 0006338 | biological_process | chromatin remodeling |
D | 0046872 | molecular_function | metal ion binding |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 4 |
Details | binding site for residue ZN A 501 |
Chain | Residue |
A | ASP186 |
A | HIS188 |
A | ASP285 |
A | T86504 |
site_id | AC2 |
Number of Residues | 5 |
Details | binding site for residue K A 502 |
Chain | Residue |
A | ASP184 |
A | ASP186 |
A | HIS188 |
A | SER207 |
A | VAL208 |
site_id | AC3 |
Number of Residues | 5 |
Details | binding site for residue K A 503 |
Chain | Residue |
A | PHE197 |
A | SER200 |
A | VAL203 |
A | SER243 |
A | HOH799 |
site_id | AC4 |
Number of Residues | 18 |
Details | binding site for residue T86 A 504 |
Chain | Residue |
A | LYS20 |
A | ASP100 |
A | HIS141 |
A | HIS142 |
A | GLY150 |
A | ASP186 |
A | HIS188 |
A | PHE216 |
A | ASP285 |
A | PRO291 |
A | HIS292 |
A | TYR341 |
A | ZN501 |
A | HOH831 |
A | HOH916 |
B | ASP50 |
B | HOH616 |
B | HOH859 |
site_id | AC5 |
Number of Residues | 4 |
Details | binding site for residue DMF A 505 |
Chain | Residue |
A | ASP9 |
A | ARG43 |
A | HOH623 |
B | GLU147 |
site_id | AC6 |
Number of Residues | 4 |
Details | binding site for residue DMF A 506 |
Chain | Residue |
A | TYR7 |
A | MET29 |
A | ASP30 |
A | ASN33 |
site_id | AC7 |
Number of Residues | 5 |
Details | binding site for residue DMF A 507 |
Chain | Residue |
A | TYR301 |
A | ARG352 |
A | ALA355 |
A | LEU356 |
A | GLU359 |
site_id | AC8 |
Number of Residues | 9 |
Details | binding site for residue GOL A 508 |
Chain | Residue |
A | HIS189 |
A | GLU194 |
A | THR219 |
A | GLY220 |
A | THR221 |
A | ASN223 |
A | PHE233 |
A | LEU234 |
A | HOH764 |
site_id | AC9 |
Number of Residues | 5 |
Details | binding site for residue GOL A 509 |
Chain | Residue |
A | ARG12 |
A | GLN13 |
A | HOH609 |
A | HOH631 |
A | HOH761 |
site_id | AD1 |
Number of Residues | 7 |
Details | binding site for residue GOL A 510 |
Chain | Residue |
A | ASP93 |
A | SER94 |
A | SER96 |
B | TYR7 |
B | ARG43 |
B | HOH696 |
B | HOH809 |
site_id | AD2 |
Number of Residues | 6 |
Details | binding site for residue GOL A 511 |
Chain | Residue |
A | GLU131 |
A | VAL132 |
A | LEU327 |
A | LYS330 |
A | VAL331 |
A | HOH625 |
site_id | AD3 |
Number of Residues | 6 |
Details | binding site for residue GOL A 512 |
Chain | Residue |
A | GLN10 |
A | TYR11 |
A | LEU14 |
A | GLN48 |
A | GLN116 |
A | HOH601 |
site_id | AD4 |
Number of Residues | 9 |
Details | binding site for residue GOL A 513 |
Chain | Residue |
A | GLN75 |
A | CYS79 |
A | PRO105 |
A | ASP109 |
A | HOH611 |
B | TRP222 |
B | ASN223 |
B | MET224 |
B | PRO231 |
site_id | AD5 |
Number of Residues | 5 |
Details | binding site for residue GOL A 514 |
Chain | Residue |
A | PRO45 |
A | LEU47 |
A | ALA120 |
A | HOH821 |
B | TYR99 |
site_id | AD6 |
Number of Residues | 6 |
Details | binding site for residue GOL A 515 |
Chain | Residue |
A | ALA211 |
A | TRP222 |
A | PRO248 |
A | GLU250 |
A | HIS407 |
A | HOH617 |
site_id | AD7 |
Number of Residues | 4 |
Details | binding site for residue ZN B 501 |
Chain | Residue |
B | HIS188 |
B | ASP285 |
B | T86504 |
B | ASP186 |
site_id | AD8 |
Number of Residues | 5 |
Details | binding site for residue K B 502 |
Chain | Residue |
B | ASP184 |
B | ASP186 |
B | HIS188 |
B | SER207 |
B | VAL208 |
site_id | AD9 |
Number of Residues | 5 |
Details | binding site for residue K B 503 |
Chain | Residue |
B | PHE197 |
B | SER200 |
B | VAL203 |
B | SER243 |
B | HOH815 |
site_id | AE1 |
Number of Residues | 16 |
Details | binding site for residue T86 B 504 |
Chain | Residue |
A | ASP50 |
A | HOH607 |
A | HOH796 |
B | LYS20 |
B | ASP100 |
B | HIS141 |
B | HIS142 |
B | GLY150 |
B | ASP186 |
B | HIS188 |
B | PHE216 |
B | ASP285 |
B | HIS292 |
B | TYR341 |
B | ZN501 |
B | HOH814 |
site_id | AE2 |
Number of Residues | 4 |
Details | binding site for residue DMF B 505 |
Chain | Residue |
B | TYR7 |
B | MET29 |
B | ASP30 |
B | ILE38 |
site_id | AE3 |
Number of Residues | 4 |
Details | binding site for residue DMF B 506 |
Chain | Residue |
B | ILE253 |
B | ASP257 |
B | ASP402 |
B | ILE404 |
site_id | AE4 |
Number of Residues | 6 |
Details | binding site for residue DMF B 507 |
Chain | Residue |
B | GLU131 |
B | VAL132 |
B | LYS330 |
B | VAL331 |
B | VAL361 |
B | HOH702 |
site_id | AE5 |
Number of Residues | 7 |
Details | binding site for residue DMF B 508 |
Chain | Residue |
B | ALA211 |
B | THR221 |
B | TRP222 |
B | PRO248 |
B | LEU249 |
B | GLU250 |
B | HIS407 |
site_id | AE6 |
Number of Residues | 3 |
Details | binding site for residue DMF B 510 |
Chain | Residue |
B | PRO19 |
B | LYS20 |
B | HOH687 |
site_id | AE7 |
Number of Residues | 3 |
Details | binding site for residue DMF B 511 |
Chain | Residue |
B | ARG12 |
B | GLN13 |
B | TYR377 |
site_id | AE8 |
Number of Residues | 4 |
Details | binding site for residue DMF B 512 |
Chain | Residue |
B | LYS325 |
B | SER328 |
B | HOH679 |
B | HOH713 |
site_id | AE9 |
Number of Residues | 8 |
Details | binding site for residue GOL B 513 |
Chain | Residue |
B | HIS189 |
B | GLU194 |
B | THR219 |
B | GLY220 |
B | THR221 |
B | PHE233 |
B | LEU234 |
B | ASN246 |
site_id | AF1 |
Number of Residues | 7 |
Details | binding site for residue GOL B 514 |
Chain | Residue |
A | HOH815 |
B | GLN10 |
B | TYR11 |
B | LEU14 |
B | GLN48 |
B | GLN116 |
B | HOH612 |
site_id | AF2 |
Number of Residues | 8 |
Details | binding site for residue GOL B 515 |
Chain | Residue |
B | TYR35 |
B | LYS36 |
B | LYS365 |
B | MET366 |
B | THR367 |
B | HOH610 |
B | HOH672 |
D | THR85 |
site_id | AF3 |
Number of Residues | 7 |
Details | binding site for residue GOL B 516 |
Chain | Residue |
A | TYR99 |
B | VAL44 |
B | PRO45 |
B | ALA120 |
B | SER123 |
B | ALA124 |
B | HOH820 |
site_id | AF4 |
Number of Residues | 7 |
Details | binding site for residue GOL B 517 |
Chain | Residue |
B | TYR301 |
B | ARG352 |
B | ALA355 |
B | LEU356 |
B | GLU359 |
B | MET366 |
B | ILE368 |
site_id | AF5 |
Number of Residues | 4 |
Details | binding site for residue ZN C 501 |
Chain | Residue |
C | ASP186 |
C | HIS188 |
C | ASP285 |
C | T86504 |
site_id | AF6 |
Number of Residues | 5 |
Details | binding site for residue K C 502 |
Chain | Residue |
C | ASP184 |
C | ASP186 |
C | HIS188 |
C | SER207 |
C | VAL208 |
site_id | AF7 |
Number of Residues | 5 |
Details | binding site for residue K C 503 |
Chain | Residue |
C | PHE197 |
C | SER200 |
C | VAL203 |
C | SER243 |
C | HOH824 |
site_id | AF8 |
Number of Residues | 16 |
Details | binding site for residue T86 C 504 |
Chain | Residue |
C | LYS20 |
C | ASP100 |
C | HIS141 |
C | HIS142 |
C | GLY150 |
C | ASP186 |
C | HIS188 |
C | PHE216 |
C | ASP285 |
C | PRO291 |
C | HIS292 |
C | TYR341 |
C | ZN501 |
C | HOH698 |
D | ASP50 |
D | HOH854 |
site_id | AF9 |
Number of Residues | 6 |
Details | binding site for residue DMF C 505 |
Chain | Residue |
C | TYR7 |
C | MET29 |
C | ASP30 |
C | ASN33 |
C | DMF507 |
C | HOH700 |
site_id | AG1 |
Number of Residues | 6 |
Details | binding site for residue DMF C 506 |
Chain | Residue |
C | LEU90 |
C | ASP93 |
C | SER94 |
D | ILE38 |
D | LEU41 |
D | ARG43 |
site_id | AG2 |
Number of Residues | 7 |
Details | binding site for residue DMF C 507 |
Chain | Residue |
C | ILE5 |
C | TYR7 |
C | ILE38 |
C | ARG43 |
C | DMF505 |
C | HOH732 |
D | DMF508 |
site_id | AG3 |
Number of Residues | 6 |
Details | binding site for residue DMF C 509 |
Chain | Residue |
C | TYR301 |
C | ARG352 |
C | LEU356 |
C | GLU359 |
C | MET366 |
C | ILE368 |
site_id | AG4 |
Number of Residues | 5 |
Details | binding site for residue DMF C 510 |
Chain | Residue |
B | GLU360 |
B | VAL361 |
B | LYS362 |
B | HOH690 |
C | GLY363 |
site_id | AG5 |
Number of Residues | 5 |
Details | binding site for residue DMF C 511 |
Chain | Residue |
C | LYS324 |
C | LYS325 |
C | SER328 |
C | HOH625 |
C | HOH760 |
site_id | AG6 |
Number of Residues | 3 |
Details | binding site for residue DMF C 512 |
Chain | Residue |
C | SER376 |
C | TYR377 |
C | GOL517 |
site_id | AG7 |
Number of Residues | 5 |
Details | binding site for residue DMF C 513 |
Chain | Residue |
B | PRO383 |
C | ARG409 |
C | SER442 |
C | LEU443 |
C | GOL522 |
site_id | AG8 |
Number of Residues | 6 |
Details | binding site for residue DMF C 514 |
Chain | Residue |
A | GLU40 |
A | LYS365 |
A | MET366 |
A | THR367 |
C | THR65 |
C | HOH889 |
site_id | AG9 |
Number of Residues | 7 |
Details | binding site for residue DMF C 515 |
Chain | Residue |
C | GLN10 |
C | TYR11 |
C | PRO46 |
C | GLN48 |
C | GLN116 |
C | HOH800 |
D | PRO217 |
site_id | AH1 |
Number of Residues | 5 |
Details | binding site for residue DMF C 516 |
Chain | Residue |
C | TRP198 |
C | GLY236 |
C | ALA237 |
C | HOH628 |
C | HOH656 |
site_id | AH2 |
Number of Residues | 6 |
Details | binding site for residue GOL C 517 |
Chain | Residue |
C | ARG12 |
C | CYS16 |
C | TYR377 |
C | DMF512 |
C | HOH799 |
C | HOH920 |
site_id | AH3 |
Number of Residues | 7 |
Details | binding site for residue GOL C 518 |
Chain | Residue |
C | GLU131 |
C | LEU327 |
C | LYS330 |
C | VAL331 |
C | PRO332 |
C | HOH635 |
C | HOH639 |
site_id | AH4 |
Number of Residues | 9 |
Details | binding site for residue GOL C 519 |
Chain | Residue |
C | HIS189 |
C | GLU194 |
C | THR219 |
C | GLY220 |
C | THR221 |
C | PHE233 |
C | LEU234 |
C | ASN246 |
C | HOH739 |
site_id | AH5 |
Number of Residues | 7 |
Details | binding site for residue GOL C 520 |
Chain | Residue |
C | ILE253 |
C | ASP257 |
C | ASP402 |
C | ILE404 |
C | HOH627 |
C | HOH637 |
C | HOH723 |
site_id | AH6 |
Number of Residues | 9 |
Details | binding site for residue GOL C 521 |
Chain | Residue |
A | THR85 |
C | TYR35 |
C | LYS36 |
C | LYS365 |
C | MET366 |
C | THR367 |
C | HOH618 |
C | HOH667 |
C | HOH714 |
site_id | AH7 |
Number of Residues | 5 |
Details | binding site for residue GOL C 522 |
Chain | Residue |
C | ARG409 |
C | ARG410 |
C | DMF513 |
C | HOH617 |
C | HOH680 |
site_id | AH8 |
Number of Residues | 7 |
Details | binding site for residue GOL C 523 |
Chain | Residue |
A | GLU371 |
A | HOH622 |
A | HOH736 |
C | GLU195 |
C | TRP198 |
C | HOH604 |
C | HOH707 |
site_id | AH9 |
Number of Residues | 7 |
Details | binding site for residue GOL C 524 |
Chain | Residue |
C | ASP267 |
C | ASN270 |
C | ILE271 |
C | TRP329 |
C | HOH646 |
C | HOH783 |
C | HOH848 |
site_id | AI1 |
Number of Residues | 4 |
Details | binding site for residue ZN D 501 |
Chain | Residue |
D | ASP186 |
D | HIS188 |
D | ASP285 |
D | T86504 |
site_id | AI2 |
Number of Residues | 5 |
Details | binding site for residue K D 502 |
Chain | Residue |
D | ASP184 |
D | ASP186 |
D | HIS188 |
D | SER207 |
D | VAL208 |
site_id | AI3 |
Number of Residues | 5 |
Details | binding site for residue K D 503 |
Chain | Residue |
D | PHE197 |
D | SER200 |
D | VAL203 |
D | SER243 |
D | HOH819 |
site_id | AI4 |
Number of Residues | 16 |
Details | binding site for residue T86 D 504 |
Chain | Residue |
C | ASP50 |
C | HOH605 |
D | LYS20 |
D | ASP100 |
D | HIS141 |
D | HIS142 |
D | ASP186 |
D | HIS188 |
D | PHE216 |
D | ASP285 |
D | PRO291 |
D | HIS292 |
D | TYR341 |
D | ZN501 |
D | HOH742 |
D | HOH788 |
site_id | AI5 |
Number of Residues | 6 |
Details | binding site for residue DMF D 505 |
Chain | Residue |
D | TYR35 |
D | LYS36 |
D | LEU37 |
D | MET366 |
D | THR367 |
D | HOH700 |
site_id | AI6 |
Number of Residues | 6 |
Details | binding site for residue DMF D 506 |
Chain | Residue |
D | TYR301 |
D | ARG352 |
D | GLU359 |
D | MET366 |
D | HOH606 |
D | HOH677 |
site_id | AI7 |
Number of Residues | 4 |
Details | binding site for residue DMF D 507 |
Chain | Residue |
D | GLU131 |
D | VAL132 |
D | LYS330 |
D | VAL331 |
site_id | AI8 |
Number of Residues | 5 |
Details | binding site for residue DMF D 508 |
Chain | Residue |
C | ARG43 |
C | DMF507 |
D | ASP93 |
D | SER94 |
D | SER96 |
site_id | AI9 |
Number of Residues | 7 |
Details | binding site for residue DMF D 509 |
Chain | Residue |
D | TYR7 |
D | ARG12 |
D | MET29 |
D | ASP30 |
D | ASN33 |
D | ILE38 |
D | HOH870 |
site_id | AJ1 |
Number of Residues | 8 |
Details | binding site for residue GOL D 510 |
Chain | Residue |
C | GLY214 |
C | HOH766 |
D | GLN10 |
D | TYR11 |
D | LEU14 |
D | GLN48 |
D | GLN116 |
D | HOH617 |
site_id | AJ2 |
Number of Residues | 8 |
Details | binding site for residue GOL D 511 |
Chain | Residue |
D | HIS189 |
D | GLU194 |
D | GLY220 |
D | THR221 |
D | PHE233 |
D | LEU234 |
D | ASN246 |
D | HOH710 |
site_id | AJ3 |
Number of Residues | 4 |
Details | binding site for residue GOL D 512 |
Chain | Residue |
D | LEU256 |
D | ASN260 |
D | TYR321 |
D | HOH660 |
site_id | AJ4 |
Number of Residues | 3 |
Details | binding site for residue GOL D 513 |
Chain | Residue |
D | GLU359 |
D | GLU360 |
D | HOH845 |
site_id | AJ5 |
Number of Residues | 12 |
Details | binding site for residues DMF B 509 and GOL C 525 |
Chain | Residue |
B | ARG409 |
B | SER442 |
B | LEU443 |
B | HOH943 |
C | TYR301 |
C | ARG352 |
C | LEU356 |
C | GLU359 |
C | MET366 |
C | ILE368 |
C | PRO383 |
C | PRO383 |
site_id | AJ6 |
Number of Residues | 8 |
Details | binding site for residues DMF C 508 and GOL C 526 |
Chain | Residue |
A | ASN303 |
A | ILE368 |
C | ALA61 |
C | PHE62 |
C | ARG145 |
C | HIS162 |
C | ALA196 |
C | HOH871 |