data_1O3K # _model_server_result.job_id OOaB6_5ZXVxwfixLPTRYQQ _model_server_result.datetime_utc '2024-11-25 13:48:30' _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 1o3k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":246}' # _entry.id 1O3K # _exptl.entry_id 1O3K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 345.194 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-{5-[AMINO(IMINIO)METHYL]-1H-BENZIMIDAZOL-2-YL}-6-BROMO-4-METHYLBENZENOLATE _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 1O3K _cell.length_a 63.69 _cell.length_b 63.39 _cell.length_c 69.29 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1O3K _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 disulf ? disulf1 A SG CYS 7 A CYS 22 1_555 A SG CYS 137 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf2 A SG CYS 25 A CYS 42 1_555 A SG CYS 41 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 A SG CYS 109 A CYS 128 1_555 A SG CYS 210 A CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 A SG CYS 116 A CYS 136 1_555 A SG CYS 183 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? disulf ? disulf5 A SG CYS 148 A CYS 168 1_555 A SG CYS 162 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf6 A SG CYS 173 A CYS 191 1_555 A SG CYS 197 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc1 A OE2 GLU 52 A GLU 70 1_555 B CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? metalc ? metalc2 A O ASN 54 A ASN 72 1_555 B CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? metalc ? metalc3 A O VAL 57 A VAL 75 1_555 B CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? metalc ? metalc4 A OE2 GLU 62 A GLU 80 1_555 B CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? metalc ? metalc5 B CA CA . A CA 247 1_555 E O HOH . A HOH 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc6 B CA CA . A CA 247 1_555 E O HOH . A HOH 560 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? # _chem_comp.formula 'C15 H13 Br N4 O' _chem_comp.formula_weight 345.194 _chem_comp.id 334 _chem_comp.mon_nstd_flag . _chem_comp.name 2-{5-[AMINO(IMINIO)METHYL]-1H-BENZIMIDAZOL-2-YL}-6-BROMO-4-METHYLBENZENOLATE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms CRA_9334 # 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 C1 C2 334 doub 1 n y C1 C6 334 sing 2 n y C1 C7 334 sing 3 n n C2 C3 334 sing 4 n y C2 HC2 334 sing 5 n n C3 C4 334 doub 6 n y C3 HC3 334 sing 7 n n C4 C5 334 sing 8 n y C4 N3 334 sing 9 n y C5 C6 334 doub 10 n y C5 N4 334 sing 11 n y C6 HC6 334 sing 12 n n C7 N1 334 sing 13 n n C7 N2 334 doub 14 n n N1 HH11 334 sing 15 n n N1 HH12 334 sing 16 n n N2 HH21 334 sing 17 n n N2 HH22 334 sing 18 n n N3 C8 334 sing 19 n y N3 HN3 334 sing 20 n n N4 C8 334 doub 21 n y C8 C1' 334 sing 22 n y C1' C2' 334 doub 23 n y C1' C6' 334 sing 24 n y C2' C3' 334 sing 25 n y C2' HC2' 334 sing 26 n n C3' CV' 334 sing 27 n n C3' C4' 334 doub 28 n y CV' H32' 334 sing 29 n n CV' H33' 334 sing 30 n n CV' H34' 334 sing 31 n n C4' C5' 334 sing 32 n y C4' HC4' 334 sing 33 n n C5' C6' 334 doub 34 n y C5' BR5' 334 sing 35 n n C6' O6' 334 sing 36 n n # _atom_sites.entry_id 1O3K _atom_sites.fract_transf_matrix[1][1] 0.015701 _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] 0.015775 _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] 0.014432 _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 CA A 1 247 247 CA CA . C 3 CL A 1 260 260 CL CL . D 4 334 A 1 246 246 334 BZM . E 5 HOH A 1 248 248 HOH HOH . E 5 HOH A 2 249 249 HOH HOH . E 5 HOH A 3 250 250 HOH HOH . E 5 HOH A 4 251 251 HOH HOH . E 5 HOH A 5 252 252 HOH HOH . E 5 HOH A 6 253 253 HOH HOH . E 5 HOH A 7 254 254 HOH HOH . E 5 HOH A 8 255 255 HOH HOH . E 5 HOH A 9 256 256 HOH HOH . E 5 HOH A 10 258 258 HOH HOH . E 5 HOH A 11 259 259 HOH HOH . E 5 HOH A 12 261 261 HOH HOH . E 5 HOH A 13 262 262 HOH HOH . E 5 HOH A 14 263 263 HOH HOH . E 5 HOH A 15 264 264 HOH HOH . E 5 HOH A 16 266 266 HOH HOH . E 5 HOH A 17 267 267 HOH HOH . E 5 HOH A 18 268 268 HOH HOH . E 5 HOH A 19 270 270 HOH HOH . E 5 HOH A 20 272 272 HOH HOH . E 5 HOH A 21 273 273 HOH HOH . E 5 HOH A 22 274 274 HOH HOH . E 5 HOH A 23 275 275 HOH HOH . E 5 HOH A 24 277 277 HOH HOH . E 5 HOH A 25 278 278 HOH HOH . E 5 HOH A 26 280 280 HOH HOH . E 5 HOH A 27 281 281 HOH HOH . E 5 HOH A 28 282 282 HOH HOH . E 5 HOH A 29 283 283 HOH HOH . E 5 HOH A 30 284 284 HOH HOH . E 5 HOH A 31 285 285 HOH HOH . E 5 HOH A 32 286 286 HOH HOH . E 5 HOH A 33 287 287 HOH HOH . E 5 HOH A 34 288 288 HOH HOH . E 5 HOH A 35 289 289 HOH HOH . E 5 HOH A 36 290 290 HOH HOH . E 5 HOH A 37 291 291 HOH HOH . E 5 HOH A 38 292 292 HOH HOH . E 5 HOH A 39 293 293 HOH HOH . E 5 HOH A 40 294 294 HOH HOH . E 5 HOH A 41 295 295 HOH HOH . E 5 HOH A 42 296 296 HOH HOH . E 5 HOH A 43 297 297 HOH HOH . E 5 HOH A 44 299 299 HOH HOH . E 5 HOH A 45 300 300 HOH HOH . E 5 HOH A 46 302 302 HOH HOH . E 5 HOH A 47 308 308 HOH HOH . E 5 HOH A 48 309 309 HOH HOH . E 5 HOH A 49 312 312 HOH HOH . E 5 HOH A 50 315 315 HOH HOH . E 5 HOH A 51 317 317 HOH HOH . E 5 HOH A 52 318 318 HOH HOH . E 5 HOH A 53 321 321 HOH HOH . E 5 HOH A 54 322 322 HOH HOH . E 5 HOH A 55 323 323 HOH HOH . E 5 HOH A 56 326 326 HOH HOH . E 5 HOH A 57 327 327 HOH HOH . E 5 HOH A 58 328 328 HOH HOH . E 5 HOH A 59 331 331 HOH HOH . E 5 HOH A 60 333 333 HOH HOH . E 5 HOH A 61 335 335 HOH HOH . E 5 HOH A 62 336 336 HOH HOH . E 5 HOH A 63 338 338 HOH HOH . E 5 HOH A 64 339 339 HOH HOH . E 5 HOH A 65 342 342 HOH HOH . E 5 HOH A 66 346 346 HOH HOH . E 5 HOH A 67 348 348 HOH HOH . E 5 HOH A 68 349 349 HOH HOH . E 5 HOH A 69 351 351 HOH HOH . E 5 HOH A 70 352 352 HOH HOH . E 5 HOH A 71 353 353 HOH HOH . E 5 HOH A 72 354 354 HOH HOH . E 5 HOH A 73 356 356 HOH HOH . E 5 HOH A 74 358 358 HOH HOH . E 5 HOH A 75 360 360 HOH HOH . E 5 HOH A 76 361 361 HOH HOH . E 5 HOH A 77 363 363 HOH HOH . E 5 HOH A 78 364 364 HOH HOH . E 5 HOH A 79 369 369 HOH HOH . E 5 HOH A 80 370 370 HOH HOH . E 5 HOH A 81 372 372 HOH HOH . E 5 HOH A 82 374 374 HOH HOH . E 5 HOH A 83 375 375 HOH HOH . E 5 HOH A 84 376 376 HOH HOH . E 5 HOH A 85 377 377 HOH HOH . E 5 HOH A 86 378 378 HOH HOH . E 5 HOH A 87 380 380 HOH HOH . E 5 HOH A 88 381 381 HOH HOH . E 5 HOH A 89 382 382 HOH HOH . E 5 HOH A 90 383 383 HOH HOH . E 5 HOH A 91 384 384 HOH HOH . E 5 HOH A 92 385 385 HOH HOH . E 5 HOH A 93 389 389 HOH HOH . E 5 HOH A 94 390 390 HOH HOH . E 5 HOH A 95 391 391 HOH HOH . E 5 HOH A 96 393 393 HOH HOH . E 5 HOH A 97 395 395 HOH HOH . E 5 HOH A 98 397 397 HOH HOH . E 5 HOH A 99 402 402 HOH HOH . E 5 HOH A 100 403 403 HOH HOH . E 5 HOH A 101 404 404 HOH HOH . E 5 HOH A 102 406 406 HOH HOH . E 5 HOH A 103 410 410 HOH HOH . E 5 HOH A 104 412 412 HOH HOH . E 5 HOH A 105 416 416 HOH HOH . E 5 HOH A 106 421 421 HOH HOH . E 5 HOH A 107 431 431 HOH HOH . E 5 HOH A 108 432 432 HOH HOH . E 5 HOH A 109 434 434 HOH HOH . E 5 HOH A 110 439 439 HOH HOH . E 5 HOH A 111 448 448 HOH HOH . E 5 HOH A 112 450 450 HOH HOH . E 5 HOH A 113 452 452 HOH HOH . E 5 HOH A 114 480 480 HOH HOH . E 5 HOH A 115 489 489 HOH HOH . E 5 HOH A 116 497 497 HOH HOH . E 5 HOH A 117 502 502 HOH HOH . E 5 HOH A 118 504 504 HOH HOH . E 5 HOH A 119 505 505 HOH HOH . E 5 HOH A 120 508 508 HOH HOH . E 5 HOH A 121 537 537 HOH HOH . E 5 HOH A 122 539 539 HOH HOH . E 5 HOH A 123 540 540 HOH HOH . E 5 HOH A 124 542 542 HOH HOH . E 5 HOH A 125 543 543 HOH HOH . E 5 HOH A 126 548 548 HOH HOH . E 5 HOH A 127 552 552 HOH HOH . E 5 HOH A 128 559 559 HOH HOH . E 5 HOH A 129 560 560 HOH HOH . E 5 HOH A 130 561 561 HOH HOH . E 5 HOH A 131 567 567 HOH HOH . E 5 HOH A 132 588 588 HOH HOH . E 5 HOH A 133 636 636 HOH HOH . E 5 HOH A 134 642 642 HOH HOH . E 5 HOH A 135 650 650 HOH HOH . E 5 HOH A 136 664 664 HOH HOH . E 5 HOH A 137 678 678 HOH HOH . E 5 HOH A 138 683 683 HOH HOH . E 5 HOH A 139 703 703 HOH HOH . E 5 HOH A 140 706 706 HOH HOH . E 5 HOH A 141 709 709 HOH HOH . E 5 HOH A 142 714 714 HOH HOH . E 5 HOH A 143 727 727 HOH HOH . E 5 HOH A 144 728 728 HOH HOH . E 5 HOH A 145 746 746 HOH HOH . E 5 HOH A 146 750 750 HOH HOH . E 5 HOH A 147 773 773 HOH HOH . E 5 HOH A 148 803 803 HOH HOH . E 5 HOH A 149 857 857 HOH HOH . E 5 HOH A 150 866 866 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 C C1 334 . . . D 4 43.915 -3.092 26.146 1 21.39 ? C1 334 246 A 1 HETATM 2 C C2 334 . . . D 4 44.242 -1.711 26.246 1 22.28 ? C2 334 246 A 1 HETATM 3 C C3 334 . . . D 4 44.11 -1.017 27.445 1 23.6 ? C3 334 246 A 1 HETATM 4 C C4 334 . . . D 4 43.66 -1.701 28.535 1 24.61 ? C4 334 246 A 1 HETATM 5 C C5 334 . . . D 4 43.334 -3.022 28.466 1 25.44 ? C5 334 246 A 1 HETATM 6 C C6 334 . . . D 4 43.445 -3.755 27.292 1 23.09 ? C6 334 246 A 1 HETATM 7 C C7 334 . . . D 4 44.069 -3.771 24.927 1 20.26 ? C7 334 246 A 1 HETATM 8 N N1 334 . . . D 4 43.806 -5.06 24.86 1 19.61 ? N1 334 246 A 1 HETATM 9 N N2 334 . . . D 4 44.479 -3.086 23.877 1 18.82 ? N2 334 246 A 1 HETATM 10 N N3 334 . . . D 4 43.458 -1.282 29.743 1 26.8 ? N3 334 246 A 1 HETATM 11 N N4 334 . . . D 4 42.918 -3.408 29.704 1 27.85 ? N4 334 246 A 1 HETATM 12 C C8 334 . . . D 4 43.01 -2.265 30.485 1 30.22 ? C8 334 246 A 1 HETATM 13 C C1' 334 . . . D 4 42.798 -2.153 31.858 1 35.62 ? C1' 334 246 A 1 HETATM 14 C C2' 334 . . . D 4 42.549 -3.297 32.647 1 38.03 ? C2' 334 246 A 1 HETATM 15 C C3' 334 . . . D 4 42.335 -3.172 34.026 1 40.03 ? C3' 334 246 A 1 HETATM 16 C CV' 334 . . . D 4 42.034 -4.362 34.938 1 39.71 ? CV' 334 246 A 1 HETATM 17 C C4' 334 . . . D 4 42.373 -1.933 34.609 1 41.89 ? C4' 334 246 A 1 HETATM 18 C C5' 334 . . . D 4 42.616 -0.823 33.836 1 42.2 ? C5' 334 246 A 1 HETATM 19 C C6' 334 . . . D 4 42.832 -0.883 32.464 1 37.47 ? C6' 334 246 A 1 HETATM 20 O O6' 334 . . . D 4 43.055 0.289 31.738 1 31.06 ? O6' 334 246 A 1 HETATM 21 BR BR5' 334 . . . D 4 42.634 0.843 34.796 1 55.14 ? BR5' 334 246 A 1 HETATM 22 H HC2 334 . . . D 4 44.61 -1.169 25.398 1 22.62 ? HC2 334 246 A 1 HETATM 23 H HC3 334 . . . D 4 44.358 0.03 27.52 1 24.29 ? HC3 334 246 A 1 HETATM 24 H HC6 334 . . . D 4 43.173 -4.798 27.279 1 23.67 ? HC6 334 246 A 1 HETATM 25 H HH11 334 . . . D 4 43.529 -5.542 25.703 1 20.49 ? HH11 334 246 A 1 HETATM 26 H HH12 334 . . . D 4 43.866 -5.625 24.046 1 19.78 ? HH12 334 246 A 1 HETATM 27 H HH21 334 . . . D 4 44.634 -2.093 23.959 1 19.15 ? HH21 334 246 A 1 HETATM 28 H HH22 334 . . . D 4 44.642 -3.486 22.981 1 19.34 ? HH22 334 246 A 1 HETATM 29 H HN3 334 . . . D 4 43.603 -0.376 30.098 1 26.82 ? HN3 334 246 A 1 HETATM 30 H HC2' 334 . . . D 4 42.522 -4.278 32.197 1 37.67 ? HC2' 334 246 A 1 HETATM 31 H H32' 334 . . . D 4 41.172 -4.119 35.547 1 39.32 ? H32' 334 246 A 1 HETATM 32 H H33' 334 . . . D 4 41.82 -5.24 34.35 1 39.35 ? H33' 334 246 A 1 HETATM 33 H H34' 334 . . . D 4 42.881 -4.54 35.586 1 39.49 ? H34' 334 246 A 1 HETATM 34 H HC4' 334 . . . D 4 42.216 -1.818 35.673 1 41.42 ? HC4' 334 246 A 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 34 #