data_6RBM # _model_server_result.job_id AMWS9lOi3Y1A9cAmCjMkMg _model_server_result.datetime_utc '2024-11-28 07:36:52' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 6rbm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 6RBM # _exptl.entry_id 6RBM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 457.476 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(4S,4AS,5AR,12AS)-4,7-BIS(DIMETHYLAMINO)-3,10,12,12A-TETRAHYDROXY-1,11-DIOXO-1,4,4A,5,5A,6,11,12A-OCTAHYDROTETRACENE-2- CARBOXAMIDE' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 6RBM _cell.length_a 67.67 _cell.length_b 67.67 _cell.length_c 178.74 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RBM _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 10_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 67.67 67.67 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 B O6 MIY . A MIY 301 1_555 C MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.922 ? metalc ? metalc2 B O5 MIY . A MIY 301 1_555 C MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc3 C MG MG . A MG 302 1_555 J O HOH . A HOH 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? metalc ? metalc4 C MG MG . A MG 302 1_555 J O HOH . A HOH 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? metalc ? metalc5 C MG MG . A MG 302 1_555 J O HOH . A HOH 440 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? # _chem_comp.formula 'C23 H27 N3 O7' _chem_comp.formula_weight 457.476 _chem_comp.id MIY _chem_comp.mon_nstd_flag . _chem_comp.name '(4S,4AS,5AR,12AS)-4,7-BIS(DIMETHYLAMINO)-3,10,12,12A-TETRAHYDROXY-1,11-DIOXO-1,4,4A,5,5A,6,11,12A-OCTAHYDROTETRACENE-2- CARBOXAMIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms MINOCYCLINE # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag O8 C21 MIY doub 224 n n C21 N2 MIY sing 225 n n C21 C2 MIY sing 226 n n N2 HN21 MIY sing 227 n n N2 HN22 MIY sing 228 n n C2 C1 MIY sing 229 n n C2 C3 MIY doub 230 n n C1 O1 MIY doub 231 n n C1 C18 MIY sing 232 n n C3 O2 MIY sing 233 n n C3 C4 MIY sing 234 n n O2 HO2 MIY sing 235 n n C4 N1 MIY sing 236 n n C4 C5 MIY sing 237 n n C4 H4 MIY sing 238 n n N1 C20 MIY sing 239 n n N1 C19 MIY sing 240 n n C20 H201 MIY sing 241 n n C20 H202 MIY sing 242 n n C20 H203 MIY sing 243 n n C19 H191 MIY sing 244 n n C19 H192 MIY sing 245 n n C19 H193 MIY sing 246 n n C5 C18 MIY sing 247 n n C5 C6 MIY sing 248 n n C5 H5 MIY sing 249 n n C18 O7 MIY sing 250 n n C18 C17 MIY sing 251 n n O7 HO7 MIY sing 252 n n C17 O6 MIY sing 253 n n C17 C16 MIY doub 254 n n O6 HO6 MIY sing 255 n n C16 C7 MIY sing 256 n n C16 C15 MIY sing 257 n n C7 C6 MIY sing 258 n n C7 C8 MIY sing 259 n n C7 H7 MIY sing 260 n n C6 H61 MIY sing 261 n n C6 H62 MIY sing 262 n n C15 O5 MIY doub 263 n n C15 C14 MIY sing 264 n n C14 C9 MIY doub 265 n y C14 C13 MIY sing 266 n y C9 C8 MIY sing 267 n n C9 C10 MIY sing 268 n y C8 H81 MIY sing 269 n n C8 H82 MIY sing 270 n n C13 O4 MIY sing 271 n n C13 C12 MIY doub 272 n y O4 HO4 MIY sing 273 n n C12 C11 MIY sing 274 n y C12 H12 MIY sing 275 n n C11 C10 MIY doub 276 n y C11 H11 MIY sing 277 n n C10 N7 MIY sing 278 n n N7 CN7 MIY sing 279 n n N7 C71 MIY sing 280 n n CN7 HN71 MIY sing 281 n n CN7 HN72 MIY sing 282 n n CN7 HN73 MIY sing 283 n n C71 H711 MIY sing 284 n n C71 H712 MIY sing 285 n n C71 H713 MIY sing 286 n n # _atom_sites.entry_id 6RBM _atom_sites.fract_transf_matrix[1][1] 0.014778 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014778 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.005595 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 MIY A 1 301 301 MIY MIY . C 3 MG A 1 302 302 MG MG . D 4 CL A 1 303 303 CL CL . E 4 CL A 1 304 304 CL CL . F 4 CL A 1 305 305 CL CL . G 4 CL A 1 306 306 CL CL . H 4 CL A 1 307 307 CL CL . I 4 CL A 1 308 308 CL CL . J 5 HOH A 1 401 401 HOH HOH . J 5 HOH A 2 402 409 HOH HOH . J 5 HOH A 3 403 428 HOH HOH . J 5 HOH A 4 404 402 HOH HOH . J 5 HOH A 5 405 422 HOH HOH . J 5 HOH A 6 406 407 HOH HOH . J 5 HOH A 7 407 424 HOH HOH . J 5 HOH A 8 408 495 HOH HOH . J 5 HOH A 9 409 413 HOH HOH . J 5 HOH A 10 410 448 HOH HOH . J 5 HOH A 11 411 456 HOH HOH . J 5 HOH A 12 412 421 HOH HOH . J 5 HOH A 13 413 420 HOH HOH . J 5 HOH A 14 414 416 HOH HOH . J 5 HOH A 15 415 452 HOH HOH . J 5 HOH A 16 416 437 HOH HOH . J 5 HOH A 17 417 461 HOH HOH . J 5 HOH A 18 418 438 HOH HOH . J 5 HOH A 19 419 406 HOH HOH . J 5 HOH A 20 420 441 HOH HOH . J 5 HOH A 21 421 408 HOH HOH . J 5 HOH A 22 422 432 HOH HOH . J 5 HOH A 23 423 451 HOH HOH . J 5 HOH A 24 424 411 HOH HOH . J 5 HOH A 25 425 459 HOH HOH . J 5 HOH A 26 426 443 HOH HOH . J 5 HOH A 27 427 449 HOH HOH . J 5 HOH A 28 428 447 HOH HOH . J 5 HOH A 29 429 472 HOH HOH . J 5 HOH A 30 430 462 HOH HOH . J 5 HOH A 31 431 497 HOH HOH . J 5 HOH A 32 432 439 HOH HOH . J 5 HOH A 33 433 414 HOH HOH . J 5 HOH A 34 434 445 HOH HOH . J 5 HOH A 35 435 434 HOH HOH . J 5 HOH A 36 436 473 HOH HOH . J 5 HOH A 37 437 417 HOH HOH . J 5 HOH A 38 438 425 HOH HOH . J 5 HOH A 39 439 436 HOH HOH . J 5 HOH A 40 440 457 HOH HOH . J 5 HOH A 41 441 482 HOH HOH . J 5 HOH A 42 442 470 HOH HOH . J 5 HOH A 43 443 466 HOH HOH . J 5 HOH A 44 444 440 HOH HOH . J 5 HOH A 45 445 410 HOH HOH . J 5 HOH A 46 446 476 HOH HOH . J 5 HOH A 47 447 464 HOH HOH . J 5 HOH A 48 448 427 HOH HOH . J 5 HOH A 49 449 423 HOH HOH . J 5 HOH A 50 450 426 HOH HOH . J 5 HOH A 51 451 486 HOH HOH . J 5 HOH A 52 452 455 HOH HOH . J 5 HOH A 53 453 477 HOH HOH . J 5 HOH A 54 454 474 HOH HOH . J 5 HOH A 55 455 489 HOH HOH . J 5 HOH A 56 456 488 HOH HOH . J 5 HOH A 57 457 415 HOH HOH . J 5 HOH A 58 458 484 HOH HOH . J 5 HOH A 59 459 471 HOH HOH . J 5 HOH A 60 460 494 HOH HOH . J 5 HOH A 61 461 492 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 O O8 MIY . . . B 2 17.011 31.123 34.723 1 46.74 ? O8 MIY 301 A 1 HETATM 2 C C21 MIY . . . B 2 17.547 32.033 34.116 1 48.03 ? C21 MIY 301 A 1 HETATM 3 N N2 MIY . . . B 2 16.978 32.476 32.983 1 54.54 ? N2 MIY 301 A 1 HETATM 4 C C2 MIY . . . B 2 18.79 32.67 34.608 1 46.62 ? C2 MIY 301 A 1 HETATM 5 C C1 MIY . . . B 2 19.374 33.723 33.801 1 46.49 ? C1 MIY 301 A 1 HETATM 6 O O1 MIY . . . B 2 18.74 34.383 32.969 1 46.65 ? O1 MIY 301 A 1 HETATM 7 C C3 MIY . . . B 2 19.422 32.323 35.775 1 47.99 ? C3 MIY 301 A 1 HETATM 8 O O2 MIY . . . B 2 19.297 31.134 36.356 1 49.62 ? O2 MIY 301 A 1 HETATM 9 C C4 MIY . . . B 2 20.343 33.222 36.496 1 41.9 ? C4 MIY 301 A 1 HETATM 10 N N1 MIY . . . B 2 21.362 32.408 37.209 1 48.18 ? N1 MIY 301 A 1 HETATM 11 C C20 MIY . . . B 2 22.158 33.255 38.135 1 52.23 ? C20 MIY 301 A 1 HETATM 12 C C19 MIY . . . B 2 22.312 31.693 36.331 1 48.84 ? C19 MIY 301 A 1 HETATM 13 C C5 MIY . . . B 2 20.96 34.284 35.588 1 46.45 ? C5 MIY 301 A 1 HETATM 14 C C18 MIY . . . B 2 20.803 33.988 34.081 1 46.64 ? C18 MIY 301 A 1 HETATM 15 O O7 MIY . . . B 2 21.547 32.854 33.688 1 45.72 ? O7 MIY 301 A 1 HETATM 16 C C17 MIY . . . B 2 21.249 35.104 33.222 1 47.82 ? C17 MIY 301 A 1 HETATM 17 O O6 MIY . . . B 2 21.557 34.816 31.957 1 47.75 ? O6 MIY 301 A 1 HETATM 18 C C16 MIY . . . B 2 21.369 36.34 33.728 1 46.64 ? C16 MIY 301 A 1 HETATM 19 C C7 MIY . . . B 2 21.047 36.669 35.176 1 47.69 ? C7 MIY 301 A 1 HETATM 20 C C6 MIY . . . B 2 20.301 35.607 35.937 1 46.53 ? C6 MIY 301 A 1 HETATM 21 C C15 MIY . . . B 2 21.856 37.431 32.895 1 45.77 ? C15 MIY 301 A 1 HETATM 22 O O5 MIY . . . B 2 22.261 37.343 31.757 1 43.36 ? O5 MIY 301 A 1 HETATM 23 C C14 MIY . . . B 2 21.929 38.766 33.526 1 55.14 ? C14 MIY 301 A 1 HETATM 24 C C9 MIY . . . B 2 21.184 39.017 34.754 1 53.28 ? C9 MIY 301 A 1 HETATM 25 C C8 MIY . . . B 2 20.322 37.975 35.333 1 53.39 ? C8 MIY 301 A 1 HETATM 26 C C13 MIY . . . B 2 22.785 39.793 32.925 1 56.57 ? C13 MIY 301 A 1 HETATM 27 O O4 MIY . . . B 2 23.427 39.493 31.774 1 54.64 ? O4 MIY 301 A 1 HETATM 28 C C12 MIY . . . B 2 22.863 41.021 33.556 1 69.04 ? C12 MIY 301 A 1 HETATM 29 C C11 MIY . . . B 2 22.129 41.275 34.745 1 74.86 ? C11 MIY 301 A 1 HETATM 30 C C10 MIY . . . B 2 21.303 40.331 35.366 1 72.26 ? C10 MIY 301 A 1 HETATM 31 N N7 MIY . . . B 2 20.587 40.538 36.563 1 74.48 ? N7 MIY 301 A 1 HETATM 32 C CN7 MIY . . . B 2 21.475 41.132 37.557 1 75.81 ? CN7 MIY 301 A 1 HETATM 33 C C71 MIY . . . B 2 19.393 41.359 36.369 1 84.27 ? C71 MIY 301 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 33 #