data_3V3N # _model_server_result.job_id V8cGQwnPyx8fdPvMQ9Rkgg _model_server_result.datetime_utc '2024-11-25 01:36:24' _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 3v3n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":2001}' # _entry.id 3V3N # _exptl.entry_id 3V3N _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 111.11 _cell.angle_beta 90.1 _cell.angle_gamma 93.01 _cell.entry_id 3V3N _cell.length_a 68.426 _cell.length_b 80.102 _cell.length_c 87.362 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3V3N _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 PISA monomeric 1 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,G,H,U 1 1 B,I,J,K,L,V 2 1 C,M,N,O,P,W 3 1 D,Q,R,S,T,X 4 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 I N N ? 2 M N N ? 2 Q N N # _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 328 n n C21 N2 MIY sing 329 n n C21 C2 MIY sing 330 n n N2 HN21 MIY sing 331 n n N2 HN22 MIY sing 332 n n C2 C1 MIY sing 333 n n C2 C3 MIY doub 334 n n C1 O1 MIY doub 335 n n C1 C18 MIY sing 336 n n C3 O2 MIY sing 337 n n C3 C4 MIY sing 338 n n O2 HO2 MIY sing 339 n n C4 N1 MIY sing 340 n n C4 C5 MIY sing 341 n n C4 H4 MIY sing 342 n n N1 C20 MIY sing 343 n n N1 C19 MIY sing 344 n n C20 H201 MIY sing 345 n n C20 H202 MIY sing 346 n n C20 H203 MIY sing 347 n n C19 H191 MIY sing 348 n n C19 H192 MIY sing 349 n n C19 H193 MIY sing 350 n n C5 C18 MIY sing 351 n n C5 C6 MIY sing 352 n n C5 H5 MIY sing 353 n n C18 O7 MIY sing 354 n n C18 C17 MIY sing 355 n n O7 HO7 MIY sing 356 n n C17 O6 MIY sing 357 n n C17 C16 MIY doub 358 n n O6 HO6 MIY sing 359 n n C16 C7 MIY sing 360 n n C16 C15 MIY sing 361 n n C7 C6 MIY sing 362 n n C7 C8 MIY sing 363 n n C7 H7 MIY sing 364 n n C6 H61 MIY sing 365 n n C6 H62 MIY sing 366 n n C15 O5 MIY doub 367 n n C15 C14 MIY sing 368 n n C14 C9 MIY doub 369 n y C14 C13 MIY sing 370 n y C9 C8 MIY sing 371 n n C9 C10 MIY sing 372 n y C8 H81 MIY sing 373 n n C8 H82 MIY sing 374 n n C13 O4 MIY sing 375 n n C13 C12 MIY doub 376 n y O4 HO4 MIY sing 377 n n C12 C11 MIY sing 378 n y C12 H12 MIY sing 379 n n C11 C10 MIY doub 380 n y C11 H11 MIY sing 381 n n C10 N7 MIY sing 382 n n N7 CN7 MIY sing 383 n n N7 C71 MIY sing 384 n n CN7 HN71 MIY sing 385 n n CN7 HN72 MIY sing 386 n n CN7 HN73 MIY sing 387 n n C71 H711 MIY sing 388 n n C71 H712 MIY sing 389 n n C71 H713 MIY sing 390 n n # _atom_sites.entry_id 3V3N _atom_sites.fract_transf_matrix[1][1] 0.014614 _atom_sites.fract_transf_matrix[1][2] 0.000768 _atom_sites.fract_transf_matrix[1][3] 0.000325 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012501 _atom_sites.fract_transf_matrix[2][3] 0.004835 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.012273 _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 E 2 MIY A 1 2001 2001 MIY MIY . F 3 SO4 A 1 2002 1 SO4 SO4 . G 3 SO4 A 1 2003 1 SO4 SO4 . H 4 FAD A 1 2004 1384 FAD FAD . I 2 MIY B 1 2001 2001 MIY MIY . J 3 SO4 B 1 2002 1 SO4 SO4 . K 3 SO4 B 1 2003 1 SO4 SO4 . L 4 FAD B 1 2004 1384 FAD FAD . M 2 MIY C 1 2001 2001 MIY MIY . N 3 SO4 C 1 2002 1 SO4 SO4 . O 3 SO4 C 1 2003 1 SO4 SO4 . P 4 FAD C 1 2004 1384 FAD FAD . Q 2 MIY D 1 2001 2001 MIY MIY . R 3 SO4 D 1 2002 1 SO4 SO4 . S 3 SO4 D 1 2003 1 SO4 SO4 . T 4 FAD D 1 2004 1384 FAD FAD . U 5 HOH A 1 2101 14 HOH HOH . U 5 HOH A 2 2102 21 HOH HOH . U 5 HOH A 3 2103 22 HOH HOH . U 5 HOH A 4 2104 29 HOH HOH . U 5 HOH A 5 2105 45 HOH HOH . U 5 HOH A 6 2106 51 HOH HOH . U 5 HOH A 7 2107 59 HOH HOH . U 5 HOH A 8 2108 66 HOH HOH . U 5 HOH A 9 2109 69 HOH HOH . U 5 HOH A 10 2110 90 HOH HOH . U 5 HOH A 11 2111 1 HOH HOH . U 5 HOH A 12 2112 2 HOH HOH . U 5 HOH A 13 2113 4 HOH HOH . U 5 HOH A 14 2114 1 HOH HOH . U 5 HOH A 15 2115 2 HOH HOH . U 5 HOH A 16 2116 3 HOH HOH . U 5 HOH A 17 2117 4 HOH HOH . U 5 HOH A 18 2118 5 HOH HOH . U 5 HOH A 19 2119 15 HOH HOH . U 5 HOH A 20 2120 22 HOH HOH . U 5 HOH A 21 2121 3 HOH HOH . U 5 HOH A 22 2122 4 HOH HOH . U 5 HOH A 23 2123 5 HOH HOH . U 5 HOH A 24 2124 7 HOH HOH . U 5 HOH A 25 2125 11 HOH HOH . U 5 HOH A 26 2126 12 HOH HOH . U 5 HOH A 27 2127 13 HOH HOH . U 5 HOH A 28 2128 14 HOH HOH . U 5 HOH A 29 2129 1 HOH HOH . V 5 HOH B 1 2101 4 HOH HOH . V 5 HOH B 2 2102 6 HOH HOH . V 5 HOH B 3 2103 7 HOH HOH . V 5 HOH B 4 2104 11 HOH HOH . V 5 HOH B 5 2105 16 HOH HOH . V 5 HOH B 6 2106 19 HOH HOH . V 5 HOH B 7 2107 20 HOH HOH . V 5 HOH B 8 2108 27 HOH HOH . V 5 HOH B 9 2109 35 HOH HOH . V 5 HOH B 10 2110 36 HOH HOH . V 5 HOH B 11 2111 37 HOH HOH . V 5 HOH B 12 2112 38 HOH HOH . V 5 HOH B 13 2113 41 HOH HOH . V 5 HOH B 14 2114 42 HOH HOH . V 5 HOH B 15 2115 43 HOH HOH . V 5 HOH B 16 2116 49 HOH HOH . V 5 HOH B 17 2117 54 HOH HOH . V 5 HOH B 18 2118 56 HOH HOH . V 5 HOH B 19 2119 60 HOH HOH . V 5 HOH B 20 2120 64 HOH HOH . V 5 HOH B 21 2121 70 HOH HOH . V 5 HOH B 22 2122 72 HOH HOH . V 5 HOH B 23 2123 74 HOH HOH . V 5 HOH B 24 2124 78 HOH HOH . V 5 HOH B 25 2125 86 HOH HOH . V 5 HOH B 26 2126 87 HOH HOH . V 5 HOH B 27 2127 88 HOH HOH . V 5 HOH B 28 2128 92 HOH HOH . V 5 HOH B 29 2129 93 HOH HOH . V 5 HOH B 30 2130 95 HOH HOH . V 5 HOH B 31 2131 1 HOH HOH . V 5 HOH B 32 2132 2 HOH HOH . V 5 HOH B 33 2133 17 HOH HOH . V 5 HOH B 34 2134 1 HOH HOH . V 5 HOH B 35 2135 4 HOH HOH . V 5 HOH B 36 2136 5 HOH HOH . V 5 HOH B 37 2137 7 HOH HOH . V 5 HOH B 38 2138 8 HOH HOH . V 5 HOH B 39 2139 9 HOH HOH . V 5 HOH B 40 2140 15 HOH HOH . V 5 HOH B 41 2141 16 HOH HOH . V 5 HOH B 42 2142 18 HOH HOH . V 5 HOH B 43 2143 19 HOH HOH . V 5 HOH B 44 2144 20 HOH HOH . V 5 HOH B 45 2145 21 HOH HOH . V 5 HOH B 46 2146 24 HOH HOH . V 5 HOH B 47 2147 25 HOH HOH . V 5 HOH B 48 2148 26 HOH HOH . V 5 HOH B 49 2149 2 HOH HOH . V 5 HOH B 50 2150 3 HOH HOH . W 5 HOH C 1 2101 1 HOH HOH . W 5 HOH C 2 2102 3 HOH HOH . W 5 HOH C 3 2103 9 HOH HOH . W 5 HOH C 4 2104 10 HOH HOH . W 5 HOH C 5 2105 15 HOH HOH . W 5 HOH C 6 2106 18 HOH HOH . W 5 HOH C 7 2107 23 HOH HOH . W 5 HOH C 8 2108 24 HOH HOH . W 5 HOH C 9 2109 25 HOH HOH . W 5 HOH C 10 2110 30 HOH HOH . W 5 HOH C 11 2111 34 HOH HOH . W 5 HOH C 12 2112 40 HOH HOH . W 5 HOH C 13 2113 44 HOH HOH . W 5 HOH C 14 2114 46 HOH HOH . W 5 HOH C 15 2115 55 HOH HOH . W 5 HOH C 16 2116 65 HOH HOH . W 5 HOH C 17 2117 76 HOH HOH . W 5 HOH C 18 2118 77 HOH HOH . W 5 HOH C 19 2119 80 HOH HOH . W 5 HOH C 20 2120 81 HOH HOH . W 5 HOH C 21 2121 85 HOH HOH . W 5 HOH C 22 2122 89 HOH HOH . W 5 HOH C 23 2123 94 HOH HOH . W 5 HOH C 24 2124 6 HOH HOH . W 5 HOH C 25 2125 1 HOH HOH . W 5 HOH C 26 2126 2 HOH HOH . W 5 HOH C 27 2127 4 HOH HOH . W 5 HOH C 28 2128 5 HOH HOH . W 5 HOH C 29 2129 6 HOH HOH . W 5 HOH C 30 2130 9 HOH HOH . W 5 HOH C 31 2131 10 HOH HOH . W 5 HOH C 32 2132 11 HOH HOH . W 5 HOH C 33 2133 13 HOH HOH . W 5 HOH C 34 2134 14 HOH HOH . W 5 HOH C 35 2135 16 HOH HOH . W 5 HOH C 36 2136 17 HOH HOH . W 5 HOH C 37 2137 18 HOH HOH . W 5 HOH C 38 2138 4 HOH HOH . W 5 HOH C 39 2139 5 HOH HOH . X 5 HOH D 1 2101 5 HOH HOH . X 5 HOH D 2 2102 8 HOH HOH . X 5 HOH D 3 2103 17 HOH HOH . X 5 HOH D 4 2104 26 HOH HOH . X 5 HOH D 5 2105 28 HOH HOH . X 5 HOH D 6 2106 32 HOH HOH . X 5 HOH D 7 2107 39 HOH HOH . X 5 HOH D 8 2108 48 HOH HOH . X 5 HOH D 9 2109 52 HOH HOH . X 5 HOH D 10 2110 53 HOH HOH . X 5 HOH D 11 2111 57 HOH HOH . X 5 HOH D 12 2112 61 HOH HOH . X 5 HOH D 13 2113 62 HOH HOH . X 5 HOH D 14 2114 63 HOH HOH . X 5 HOH D 15 2115 67 HOH HOH . X 5 HOH D 16 2116 73 HOH HOH . X 5 HOH D 17 2117 75 HOH HOH . X 5 HOH D 18 2118 83 HOH HOH . X 5 HOH D 19 2119 91 HOH HOH . X 5 HOH D 20 2120 6 HOH HOH . X 5 HOH D 21 2121 1 HOH HOH . X 5 HOH D 22 2122 2 HOH HOH . X 5 HOH D 23 2123 3 HOH HOH . X 5 HOH D 24 2124 4 HOH HOH . X 5 HOH D 25 2125 8 HOH HOH . X 5 HOH D 26 2126 9 HOH HOH . X 5 HOH D 27 2127 12 HOH HOH . X 5 HOH D 28 2128 13 HOH HOH . X 5 HOH D 29 2129 15 HOH HOH . X 5 HOH D 30 2130 17 HOH HOH . X 5 HOH D 31 2131 18 HOH HOH . X 5 HOH D 32 2132 6 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 . . . Q 2 -56.123 -11.962 11.127 1 72.94 ? O8 MIY 2001 D 1 HETATM 2 C C21 MIY . . . Q 2 -55.916 -10.96 10.462 1 55.66 ? C21 MIY 2001 D 1 HETATM 3 N N2 MIY . . . Q 2 -56.323 -10.893 9.195 1 54.76 ? N2 MIY 2001 D 1 HETATM 4 C C2 MIY . . . Q 2 -55.201 -9.823 11.048 1 53.31 ? C2 MIY 2001 D 1 HETATM 5 C C1 MIY . . . Q 2 -54.053 -9.307 10.342 1 62.58 ? C1 MIY 2001 D 1 HETATM 6 O O1 MIY . . . Q 2 -53.856 -9.603 9.173 1 66.15 ? O1 MIY 2001 D 1 HETATM 7 C C3 MIY . . . Q 2 -55.565 -9.246 12.191 1 57.41 ? C3 MIY 2001 D 1 HETATM 8 O O2 MIY . . . Q 2 -56.296 -9.933 13.075 1 49.85 ? O2 MIY 2001 D 1 HETATM 9 C C4 MIY . . . Q 2 -55.194 -7.791 12.435 1 66.56 ? C4 MIY 2001 D 1 HETATM 10 N N1 MIY . . . Q 2 -55.352 -7.352 13.859 1 76.92 ? N1 MIY 2001 D 1 HETATM 11 C C20 MIY . . . Q 2 -54.703 -6.052 14.088 1 57.76 ? C20 MIY 2001 D 1 HETATM 12 C C19 MIY . . . Q 2 -54.828 -8.292 14.859 1 64.17 ? C19 MIY 2001 D 1 HETATM 13 C C5 MIY . . . Q 2 -53.893 -7.307 11.752 1 53.76 ? C5 MIY 2001 D 1 HETATM 14 C C18 MIY . . . Q 2 -53.102 -8.402 11.059 1 67.14 ? C18 MIY 2001 D 1 HETATM 15 O O7 MIY . . . Q 2 -52.36 -9.096 12.065 1 57.31 ? O7 MIY 2001 D 1 HETATM 16 C C17 MIY . . . Q 2 -52.158 -7.921 9.974 1 76.06 ? C17 MIY 2001 D 1 HETATM 17 O O6 MIY . . . Q 2 -51.35 -8.823 9.416 1 77.6 ? O6 MIY 2001 D 1 HETATM 18 C C16 MIY . . . Q 2 -52.114 -6.67 9.514 1 60.14 ? C16 MIY 2001 D 1 HETATM 19 C C7 MIY . . . Q 2 -53.008 -5.601 10.072 1 56.74 ? C7 MIY 2001 D 1 HETATM 20 C C6 MIY . . . Q 2 -54.229 -6.242 10.717 1 68.31 ? C6 MIY 2001 D 1 HETATM 21 C C15 MIY . . . Q 2 -51.158 -6.348 8.449 1 80.78 ? C15 MIY 2001 D 1 HETATM 22 O O5 MIY . . . Q 2 -50.344 -7.174 8.048 1 72.1 ? O5 MIY 2001 D 1 HETATM 23 C C14 MIY . . . Q 2 -51.201 -4.97 7.862 1 83.51 ? C14 MIY 2001 D 1 HETATM 24 C C9 MIY . . . Q 2 -52.388 -4.132 8.135 1 83.33 ? C9 MIY 2001 D 1 HETATM 25 C C8 MIY . . . Q 2 -53.523 -4.679 8.974 1 63.71 ? C8 MIY 2001 D 1 HETATM 26 C C13 MIY . . . Q 2 -50.101 -4.399 7.034 1 84.17 ? C13 MIY 2001 D 1 HETATM 27 O O4 MIY . . . Q 2 -48.973 -5.12 6.749 1 80.88 ? O4 MIY 2001 D 1 HETATM 28 C C12 MIY . . . Q 2 -50.235 -3.101 6.541 1 86.3 ? C12 MIY 2001 D 1 HETATM 29 C C11 MIY . . . Q 2 -51.356 -2.31 6.794 1 69.52 ? C11 MIY 2001 D 1 HETATM 30 C C10 MIY . . . Q 2 -52.427 -2.763 7.556 1 76.5 ? C10 MIY 2001 D 1 HETATM 31 N N7 MIY . . . Q 2 -53.534 -1.927 7.785 1 86.52 ? N7 MIY 2001 D 1 HETATM 32 C CN7 MIY . . . Q 2 -54.443 -1.973 6.633 1 70.78 ? CN7 MIY 2001 D 1 HETATM 33 C C71 MIY . . . Q 2 -53.063 -0.554 8.002 1 79.58 ? C71 MIY 2001 D 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 33 #