data_6QJX # _model_server_result.job_id FPFmGQoNQEgsSZvUIbCvcQ _model_server_result.datetime_utc '2024-11-23 05:15:01' _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 6qjx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 6QJX # _exptl.entry_id 6QJX _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 6QJX _cell.length_a 67.81 _cell.length_b 67.81 _cell.length_c 180.16 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6QJX _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 author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 67.81 67.81 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 ? A ? ? ? ? ? ? ? ? ? ? 1.929 ? metalc ? metalc2 B O6 MIY . A MIY 301 1_555 C MG MG . A MG 302 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.871 ? metalc ? metalc3 B O5 MIY . A MIY 301 1_555 C MG MG . A MG 302 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.911 ? metalc ? metalc4 B O5 MIY . A MIY 301 1_555 C MG MG . A MG 302 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc5 C MG MG . A MG 302 1_555 H O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc6 C MG MG . A MG 302 1_555 H O HOH . A HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? metalc ? metalc7 C MG MG . A MG 302 1_555 H O HOH . A HOH 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? # _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 6QJX _atom_sites.fract_transf_matrix[1][1] 0.014747 _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] 0.014747 _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] 0.005551 _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 1209 MIY MIY . C 3 MG A 1 302 1210 MG MG . D 4 CL A 1 303 1211 CL CL . E 4 CL A 1 304 1212 CL CL . F 4 CL A 1 305 1213 CL CL . G 4 CL A 1 306 1214 CL CL . H 5 HOH A 1 401 2002 HOH HOH . H 5 HOH A 2 402 2007 HOH HOH . H 5 HOH A 3 403 2080 HOH HOH . H 5 HOH A 4 404 2048 HOH HOH . H 5 HOH A 5 405 2001 HOH HOH . H 5 HOH A 6 406 2035 HOH HOH . H 5 HOH A 7 407 2005 HOH HOH . H 5 HOH A 8 408 2063 HOH HOH . H 5 HOH A 9 409 2022 HOH HOH . H 5 HOH A 10 410 2018 HOH HOH . H 5 HOH A 11 411 2061 HOH HOH . H 5 HOH A 12 412 2020 HOH HOH . H 5 HOH A 13 413 2030 HOH HOH . H 5 HOH A 14 414 2065 HOH HOH . H 5 HOH A 15 415 2066 HOH HOH . H 5 HOH A 16 416 2090 HOH HOH . H 5 HOH A 17 417 2003 HOH HOH . H 5 HOH A 18 418 2006 HOH HOH . H 5 HOH A 19 419 2037 HOH HOH . H 5 HOH A 20 420 2084 HOH HOH . H 5 HOH A 21 421 2089 HOH HOH . H 5 HOH A 22 422 2016 HOH HOH . H 5 HOH A 23 423 2038 HOH HOH . H 5 HOH A 24 424 2013 HOH HOH . H 5 HOH A 25 425 2044 HOH HOH . H 5 HOH A 26 426 2019 HOH HOH . H 5 HOH A 27 427 2047 HOH HOH . H 5 HOH A 28 428 2057 HOH HOH . H 5 HOH A 29 429 2028 HOH HOH . H 5 HOH A 30 430 2014 HOH HOH . H 5 HOH A 31 431 2078 HOH HOH . H 5 HOH A 32 432 2021 HOH HOH . H 5 HOH A 33 433 2094 HOH HOH . H 5 HOH A 34 434 2012 HOH HOH . H 5 HOH A 35 435 2023 HOH HOH . H 5 HOH A 36 436 2033 HOH HOH . H 5 HOH A 37 437 2077 HOH HOH . H 5 HOH A 38 438 2079 HOH HOH . H 5 HOH A 39 439 2093 HOH HOH . H 5 HOH A 40 440 2092 HOH HOH . H 5 HOH A 41 441 2083 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 . A . B 2 17.759 31.591 35.543 0.75 51.02 ? O8 MIY 301 A 1 HETATM 2 O O8 MIY . B . B 2 17.758 31.741 35.722 0.25 52.21 ? O8 MIY 301 A 1 HETATM 3 C C21 MIY . A . B 2 18.298 32.524 34.968 0.75 53.25 ? C21 MIY 301 A 1 HETATM 4 C C21 MIY . B . B 2 18.31 32.596 35.051 0.25 52.6 ? C21 MIY 301 A 1 HETATM 5 N N2 MIY . A . B 2 17.688 33.001 33.887 0.75 54.82 ? N2 MIY 301 A 1 HETATM 6 N N2 MIY . B . B 2 17.788 32.989 33.892 0.25 53.48 ? N2 MIY 301 A 1 HETATM 7 C C2 MIY . A . B 2 19.573 33.135 35.441 0.75 52.01 ? C2 MIY 301 A 1 HETATM 8 C C2 MIY . B . B 2 19.562 33.211 35.507 0.25 51.56 ? C2 MIY 301 A 1 HETATM 9 C C1 MIY . A . B 2 20.242 34.116 34.573 0.75 54.13 ? C1 MIY 301 A 1 HETATM 10 C C1 MIY . B . B 2 20.253 34.148 34.637 0.25 51.91 ? C1 MIY 301 A 1 HETATM 11 O O1 MIY . A . B 2 19.669 34.709 33.638 0.75 49.92 ? O1 MIY 301 A 1 HETATM 12 O O1 MIY . B . B 2 19.686 34.712 33.704 0.25 51.19 ? O1 MIY 301 A 1 HETATM 13 C C3 MIY . A . B 2 20.099 32.854 36.66 0.75 50.19 ? C3 MIY 301 A 1 HETATM 14 C C3 MIY . B . B 2 20.08 32.94 36.71 0.25 50.59 ? C3 MIY 301 A 1 HETATM 15 O O2 MIY . A . B 2 19.797 31.743 37.299 0.75 51.95 ? O2 MIY 301 A 1 HETATM 16 O O2 MIY . B . B 2 19.682 31.849 37.373 0.25 50.92 ? O2 MIY 301 A 1 HETATM 17 C C4 MIY . A . B 2 21.028 33.781 37.415 0.75 50.67 ? C4 MIY 301 A 1 HETATM 18 C C4 MIY . B . B 2 21.089 33.842 37.382 0.25 50.49 ? C4 MIY 301 A 1 HETATM 19 N N1 MIY . A . B 2 21.985 32.999 38.266 0.75 49.62 ? N1 MIY 301 A 1 HETATM 20 N N1 MIY . B . B 2 22.027 32.979 38.128 0.25 50.22 ? N1 MIY 301 A 1 HETATM 21 C C20 MIY . A . B 2 22.735 33.735 39.318 0.75 46.79 ? C20 MIY 301 A 1 HETATM 22 C C20 MIY . B . B 2 22.814 33.739 39.113 0.25 49.34 ? C20 MIY 301 A 1 HETATM 23 C C19 MIY . A . B 2 22.936 32.223 37.404 0.75 47.61 ? C19 MIY 301 A 1 HETATM 24 C C19 MIY . B . B 2 22.921 32.291 37.175 0.25 49.33 ? C19 MIY 301 A 1 HETATM 25 C C5 MIY . A . B 2 21.667 34.793 36.445 0.75 55.05 ? C5 MIY 301 A 1 HETATM 26 C C5 MIY . B . B 2 21.81 34.798 36.417 0.25 51.34 ? C5 MIY 301 A 1 HETATM 27 C C18 MIY . A . B 2 21.668 34.399 34.947 0.75 55.83 ? C18 MIY 301 A 1 HETATM 28 C C18 MIY . B . B 2 21.696 34.411 34.944 0.25 51.55 ? C18 MIY 301 A 1 HETATM 29 O O7 MIY . A . B 2 22.479 33.268 34.61 0.75 58.19 ? O7 MIY 301 A 1 HETATM 30 O O7 MIY . B . B 2 22.465 33.236 34.659 0.25 52.16 ? O7 MIY 301 A 1 HETATM 31 C C17 MIY . A . B 2 22.237 35.502 34.129 0.75 60.25 ? C17 MIY 301 A 1 HETATM 32 C C17 MIY . B . B 2 22.171 35.507 34.035 0.25 52.24 ? C17 MIY 301 A 1 HETATM 33 O O6 MIY . A . B 2 22.472 35.214 32.854 0.75 61.53 ? O6 MIY 301 A 1 HETATM 34 O O6 MIY . B . B 2 22.576 35.136 32.823 0.25 52.52 ? O6 MIY 301 A 1 HETATM 35 C C16 MIY . A . B 2 22.521 36.691 34.656 0.75 66.01 ? C16 MIY 301 A 1 HETATM 36 C C16 MIY . B . B 2 22.189 36.802 34.366 0.25 53.17 ? C16 MIY 301 A 1 HETATM 37 C C7 MIY . A . B 2 21.969 37.154 35.988 0.75 65.12 ? C7 MIY 301 A 1 HETATM 38 C C7 MIY . B . B 2 22.025 37.249 35.792 0.25 53.39 ? C7 MIY 301 A 1 HETATM 39 C C6 MIY . A . B 2 20.955 36.154 36.529 0.75 58.92 ? C6 MIY 301 A 1 HETATM 40 C C6 MIY . B . B 2 21.242 36.201 36.586 0.25 52.53 ? C6 MIY 301 A 1 HETATM 41 C C15 MIY . A . B 2 23.4 37.622 33.969 0.75 72.44 ? C15 MIY 301 A 1 HETATM 42 C C15 MIY . B . B 2 22.385 37.802 33.305 0.25 53.25 ? C15 MIY 301 A 1 HETATM 43 O O5 MIY . A . B 2 23.893 37.333 32.893 0.75 78.33 ? O5 MIY 301 A 1 HETATM 44 O O5 MIY . B . B 2 22.497 37.444 32.151 0.25 53.6 ? O5 MIY 301 A 1 HETATM 45 C C14 MIY . A . B 2 23.787 38.841 34.75 0.75 73.12 ? C14 MIY 301 A 1 HETATM 46 C C14 MIY . B . B 2 22.506 39.246 33.664 0.25 53.89 ? C14 MIY 301 A 1 HETATM 47 C C9 MIY . A . B 2 22.789 39.345 35.722 0.75 73.44 ? C9 MIY 301 A 1 HETATM 48 C C9 MIY . B . B 2 21.902 39.611 34.953 0.25 55.28 ? C9 MIY 301 A 1 HETATM 49 C C8 MIY . A . B 2 21.484 38.603 35.83 0.75 71.26 ? C8 MIY 301 A 1 HETATM 50 C C8 MIY . B . B 2 21.255 38.574 35.825 0.25 54.86 ? C8 MIY 301 A 1 HETATM 51 C C13 MIY . A . B 2 25.095 39.52 34.64 0.75 72.62 ? C13 MIY 301 A 1 HETATM 52 C C13 MIY . B . B 2 23.159 40.325 32.857 0.25 53.9 ? C13 MIY 301 A 1 HETATM 53 O O4 MIY . A . B 2 26.052 39.08 33.781 0.75 75.22 ? O4 MIY 301 A 1 HETATM 54 O O4 MIY . B . B 2 23.746 40.085 31.656 0.25 51.92 ? O4 MIY 301 A 1 HETATM 55 C C12 MIY . A . B 2 25.357 40.615 35.435 0.75 70.32 ? C12 MIY 301 A 1 HETATM 56 C C12 MIY . B . B 2 23.166 41.637 33.337 0.25 54.94 ? C12 MIY 301 A 1 HETATM 57 C C11 MIY . A . B 2 24.421 41.112 36.353 0.75 73.43 ? C11 MIY 301 A 1 HETATM 58 C C11 MIY . B . B 2 22.6 41.975 34.567 0.25 55.31 ? C11 MIY 301 A 1 HETATM 59 C C10 MIY . A . B 2 23.148 40.538 36.533 0.75 74.63 ? C10 MIY 301 A 1 HETATM 60 C C10 MIY . B . B 2 21.977 41.02 35.371 0.25 54.95 ? C10 MIY 301 A 1 HETATM 61 N N7 MIY . A . B 2 22.194 41.03 37.455 0.75 74.7 ? N7 MIY 301 A 1 HETATM 62 N N7 MIY . B . B 2 21.411 41.326 36.61 0.25 55.9 ? N7 MIY 301 A 1 HETATM 63 C CN7 MIY . A . B 2 21.191 41.915 36.782 0.75 75.57 ? CN7 MIY 301 A 1 HETATM 64 C CN7 MIY . B . B 2 20.935 42.705 36.624 0.25 56.53 ? CN7 MIY 301 A 1 HETATM 65 C C71 MIY . A . B 2 22.802 41.586 38.689 0.75 73.1 ? C71 MIY 301 A 1 HETATM 66 C C71 MIY . B . B 2 22.422 41.105 37.666 0.25 54.99 ? C71 MIY 301 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 237 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 66 #