data_6YIZ # _model_server_result.job_id mjCWPq1u_aA0lI-0JX8iOA _model_server_result.datetime_utc '2025-04-26 12:02:13' _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 6yiz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 6YIZ # _exptl.entry_id 6YIZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 540.543 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '7-oxidanylidene-8-[2-(4-sulfonaphthalen-1-yl)hydrazinyl]-8~{H}-naphthalene-1,3-disulfonic acid' _entity.pdbx_number_of_molecules 2 _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 6YIZ _cell.length_a 109.81 _cell.length_b 120.65 _cell.length_c 113.19 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YIZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall 'C 2c 2' _symmetry.space_group_name_H-M 'C 2 2 21' # _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,I _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 F N 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 H O HOH . A HOH 510 1_555 E MG MG . B MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? metalc ? metalc2 H O HOH . A HOH 514 1_555 E MG MG . B MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc3 E MG MG . B MG 501 1_555 I O HOH . B HOH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? metalc ? metalc4 E MG MG . B MG 501 1_555 I O HOH . B HOH 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? metalc ? metalc5 E MG MG . B MG 501 1_555 I O HOH . B HOH 629 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? metalc ? metalc6 E MG MG . B MG 501 1_555 I O HOH . B HOH 631 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? # _chem_comp.formula 'C20 H16 N2 O10 S3' _chem_comp.formula_weight 540.543 _chem_comp.id OT2 _chem_comp.mon_nstd_flag . _chem_comp.name '7-oxidanylidene-8-[2-(4-sulfonaphthalen-1-yl)hydrazinyl]-8~{H}-naphthalene-1,3-disulfonic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O28 S25 OT2 doub 237 n n O27 S25 OT2 doub 238 n n S25 O26 OT2 sing 239 n n S25 C18 OT2 sing 240 n n C20 C21 OT2 doub 241 n y C20 C19 OT2 sing 242 n y C21 C22 OT2 sing 243 n y C18 C19 OT2 doub 244 n y C18 C17 OT2 sing 245 n y C19 C24 OT2 sing 246 n y C22 C23 OT2 doub 247 n y C17 C16 OT2 doub 248 n y C24 C23 OT2 sing 249 n y C24 C15 OT2 doub 250 n y C16 C15 OT2 sing 251 n y C15 N14 OT2 sing 252 n n N14 N13 OT2 sing 253 n n O11 C10 OT2 doub 254 n n N13 C12 OT2 sing 255 n n O33 S32 OT2 doub 256 n n O34 S32 OT2 doub 257 n n C10 C12 OT2 sing 258 n n C10 C09 OT2 sing 259 n n C12 C29 OT2 sing 260 n n S32 O35 OT2 sing 261 n n S32 C30 OT2 sing 262 n n C09 C08 OT2 doub 263 n n C29 C30 OT2 doub 264 n y C29 C07 OT2 sing 265 n y C30 C31 OT2 sing 266 n y C08 C07 OT2 sing 267 n n C07 C06 OT2 doub 268 n y C31 C05 OT2 doub 269 n y C06 C05 OT2 sing 270 n y C05 S02 OT2 sing 271 n n O03 S02 OT2 doub 272 n n S02 O04 OT2 doub 273 n n S02 O01 OT2 sing 274 n n C06 H061 OT2 sing 275 n n C08 H081 OT2 sing 276 n n C09 H091 OT2 sing 277 n n C12 H1 OT2 sing 278 n n C16 H161 OT2 sing 279 n n C17 H171 OT2 sing 280 n n C20 H201 OT2 sing 281 n n C21 H211 OT2 sing 282 n n C22 H221 OT2 sing 283 n n C23 H231 OT2 sing 284 n n C31 H311 OT2 sing 285 n n N13 H2 OT2 sing 286 n n N14 H141 OT2 sing 287 n n O01 H3 OT2 sing 288 n n O26 H4 OT2 sing 289 n n O35 H5 OT2 sing 290 n n # _atom_sites.entry_id 6YIZ _atom_sites.fract_transf_matrix[1][1] 0.009107 _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] 0.008288 _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] 0.008835 _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 C 2 OT2 A 1 401 401 OT2 CR1 . D 3 OT8 A 1 402 1 OT8 LIG . E 4 MG B 1 501 501 MG MO6 . F 2 OT2 B 1 502 401 OT2 CR1 . G 3 OT8 B 1 503 2 OT8 LIG . H 5 HOH A 1 501 44 HOH HOH . H 5 HOH A 2 502 23 HOH HOH . H 5 HOH A 3 503 8 HOH HOH . H 5 HOH A 4 504 30 HOH HOH . H 5 HOH A 5 505 5 HOH HOH . H 5 HOH A 6 506 47 HOH HOH . H 5 HOH A 7 507 36 HOH HOH . H 5 HOH A 8 508 4 HOH HOH . H 5 HOH A 9 509 3 HOH HOH . H 5 HOH A 10 510 501 HOH MO6 . H 5 HOH A 11 511 33 HOH HOH . H 5 HOH A 12 512 22 HOH HOH . H 5 HOH A 13 513 35 HOH HOH . H 5 HOH A 14 514 501 HOH MO6 . H 5 HOH A 15 515 32 HOH HOH . H 5 HOH A 16 516 20 HOH HOH . H 5 HOH A 17 517 26 HOH HOH . H 5 HOH A 18 518 28 HOH HOH . H 5 HOH A 19 519 46 HOH HOH . H 5 HOH A 20 520 29 HOH HOH . H 5 HOH A 21 521 18 HOH HOH . H 5 HOH A 22 522 9 HOH HOH . H 5 HOH A 23 523 2 HOH HOH . H 5 HOH A 24 524 13 HOH HOH . H 5 HOH A 25 525 50 HOH HOH . H 5 HOH A 26 526 52 HOH HOH . H 5 HOH A 27 527 40 HOH HOH . H 5 HOH A 28 528 25 HOH HOH . H 5 HOH A 29 529 41 HOH HOH . H 5 HOH A 30 530 43 HOH HOH . H 5 HOH A 31 531 38 HOH HOH . H 5 HOH A 32 532 7 HOH HOH . H 5 HOH A 33 533 45 HOH HOH . H 5 HOH A 34 534 27 HOH HOH . H 5 HOH A 35 535 39 HOH HOH . H 5 HOH A 36 536 42 HOH HOH . H 5 HOH A 37 537 31 HOH HOH . H 5 HOH A 38 538 51 HOH HOH . H 5 HOH A 39 539 48 HOH HOH . I 5 HOH B 1 601 17 HOH HOH . I 5 HOH B 2 602 501 HOH MO6 . I 5 HOH B 3 603 58 HOH HOH . I 5 HOH B 4 604 1 HOH HOH . I 5 HOH B 5 605 49 HOH HOH . I 5 HOH B 6 606 14 HOH HOH . I 5 HOH B 7 607 19 HOH HOH . I 5 HOH B 8 608 16 HOH HOH . I 5 HOH B 9 609 10 HOH HOH . I 5 HOH B 10 610 6 HOH HOH . I 5 HOH B 11 611 501 HOH MO6 . I 5 HOH B 12 612 54 HOH HOH . I 5 HOH B 13 613 55 HOH HOH . I 5 HOH B 14 614 15 HOH HOH . I 5 HOH B 15 615 24 HOH HOH . I 5 HOH B 16 616 56 HOH HOH . I 5 HOH B 17 617 21 HOH HOH . I 5 HOH B 18 618 12 HOH HOH . I 5 HOH B 19 619 53 HOH HOH . I 5 HOH B 20 620 62 HOH HOH . I 5 HOH B 21 621 57 HOH HOH . I 5 HOH B 22 622 59 HOH HOH . I 5 HOH B 23 623 34 HOH HOH . I 5 HOH B 24 624 64 HOH HOH . I 5 HOH B 25 625 61 HOH HOH . I 5 HOH B 26 626 63 HOH HOH . I 5 HOH B 27 627 60 HOH HOH . I 5 HOH B 28 628 37 HOH HOH . I 5 HOH B 29 629 501 HOH MO6 . I 5 HOH B 30 630 11 HOH HOH . I 5 HOH B 31 631 501 HOH MO6 . # 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 C05 OT2 . . . C 2 -36.617 -9.284 14.569 1 33.23 ? C05 OT2 401 A 1 HETATM 2 C C06 OT2 . . . C 2 -35.291 -8.905 14.427 1 34.76 ? C06 OT2 401 A 1 HETATM 3 C C07 OT2 . . . C 2 -34.668 -9.103 13.168 1 24.45 ? C07 OT2 401 A 1 HETATM 4 C C08 OT2 . . . C 2 -33.298 -8.712 13.033 1 31.56 ? C08 OT2 401 A 1 HETATM 5 C C09 OT2 . . . C 2 -32.652 -8.856 11.822 1 23.39 ? C09 OT2 401 A 1 HETATM 6 C C10 OT2 . . . C 2 -33.375 -9.39 10.747 1 30.37 ? C10 OT2 401 A 1 HETATM 7 C C12 OT2 . . . C 2 -34.723 -9.775 10.876 1 30.05 ? C12 OT2 401 A 1 HETATM 8 C C15 OT2 . . . C 2 -35.597 -10.079 7.388 1 32.09 ? C15 OT2 401 A 1 HETATM 9 C C16 OT2 . . . C 2 -36.523 -11.142 7.356 1 30.31 ? C16 OT2 401 A 1 HETATM 10 C C17 OT2 . . . C 2 -36.94 -11.651 6.135 1 28.26 ? C17 OT2 401 A 1 HETATM 11 C C18 OT2 . . . C 2 -36.421 -11.093 4.948 1 31.7 ? C18 OT2 401 A 1 HETATM 12 C C19 OT2 . . . C 2 -35.465 -10.019 4.987 1 26.19 ? C19 OT2 401 A 1 HETATM 13 C C20 OT2 . . . C 2 -34.909 -9.455 3.806 1 31.53 ? C20 OT2 401 A 1 HETATM 14 C C21 OT2 . . . C 2 -34.008 -8.381 3.879 1 27.66 ? C21 OT2 401 A 1 HETATM 15 C C22 OT2 . . . C 2 -33.615 -7.861 5.113 1 25.29 ? C22 OT2 401 A 1 HETATM 16 C C23 OT2 . . . C 2 -34.139 -8.433 6.273 1 29.28 ? C23 OT2 401 A 1 HETATM 17 C C24 OT2 . . . C 2 -35.069 -9.519 6.191 1 29.19 ? C24 OT2 401 A 1 HETATM 18 C C29 OT2 . . . C 2 -35.39 -9.626 12.124 1 25.24 ? C29 OT2 401 A 1 HETATM 19 C C30 OT2 . . . C 2 -36.793 -9.983 12.31 1 35.54 ? C30 OT2 401 A 1 HETATM 20 C C31 OT2 . . . C 2 -37.382 -9.82 13.547 1 31.76 ? C31 OT2 401 A 1 HETATM 21 N N13 OT2 . . . C 2 -35.315 -10.236 9.841 1 27.01 ? N13 OT2 401 A 1 HETATM 22 N N14 OT2 . . . C 2 -35.134 -9.508 8.632 1 21.94 ? N14 OT2 401 A 1 HETATM 23 O O01 OT2 . . . C 2 -36.51 -8.322 17.075 1 52.4 -1 O01 OT2 401 A 1 HETATM 24 O O03 OT2 . . . C 2 -38.678 -8.264 15.79 1 46.35 ? O03 OT2 401 A 1 HETATM 25 O O04 OT2 . . . C 2 -37.938 -10.406 16.719 1 53.94 ? O04 OT2 401 A 1 HETATM 26 O O11 OT2 . . . C 2 -32.875 -9.536 9.667 1 35.75 ? O11 OT2 401 A 1 HETATM 27 O O26 OT2 . . . C 2 -37.621 -13.086 3.471 1 41.29 -1 O26 OT2 401 A 1 HETATM 28 O O27 OT2 . . . C 2 -35.54 -12.072 2.661 1 27.51 ? O27 OT2 401 A 1 HETATM 29 O O28 OT2 . . . C 2 -37.516 -10.835 2.312 1 52.77 ? O28 OT2 401 A 1 HETATM 30 O O33 OT2 . . . C 2 -38.35 -9.804 9.939 1 39.81 -1 O33 OT2 401 A 1 HETATM 31 O O34 OT2 . . . C 2 -37.336 -11.935 10.367 1 27.23 ? O34 OT2 401 A 1 HETATM 32 O O35 OT2 . . . C 2 -39.027 -11.326 11.979 1 36.95 ? O35 OT2 401 A 1 HETATM 33 S S02 OT2 . . . C 2 -37.436 -9.064 16.124 1 38.71 ? S02 OT2 401 A 1 HETATM 34 S S25 OT2 . . . C 2 -36.869 -11.77 3.345 1 36.53 ? S25 OT2 401 A 1 HETATM 35 S S32 OT2 . . . C 2 -37.902 -10.735 11.09 1 34.73 ? S32 OT2 401 A 1 HETATM 36 H H061 OT2 . . . C 2 -34.822 -8.531 15.138 1 42.84 ? H061 OT2 401 A 1 HETATM 37 H H081 OT2 . . . C 2 -32.842 -8.36 13.764 1 39.01 ? H081 OT2 401 A 1 HETATM 38 H H091 OT2 . . . C 2 -31.763 -8.605 11.722 1 29.2 ? H091 OT2 401 A 1 HETATM 39 H H161 OT2 . . . C 2 -36.851 -11.5 8.149 1 37.51 ? H161 OT2 401 A 1 HETATM 40 H H171 OT2 . . . C 2 -37.553 -12.35 6.1 1 35.04 ? H171 OT2 401 A 1 HETATM 41 H H201 OT2 . . . C 2 -35.145 -9.801 2.975 1 38.97 ? H201 OT2 401 A 1 HETATM 42 H H211 OT2 . . . C 2 -33.669 -8.012 3.096 1 34.33 ? H211 OT2 401 A 1 HETATM 43 H H221 OT2 . . . C 2 -33.018 -7.149 5.161 1 31.48 ? H221 OT2 401 A 1 HETATM 44 H H231 OT2 . . . C 2 -33.882 -8.107 7.106 1 36.26 ? H231 OT2 401 A 1 HETATM 45 H H311 OT2 . . . C 2 -38.269 -10.063 13.691 1 39.25 ? H311 OT2 401 A 1 HETATM 46 H H141 OT2 . . . C 2 -34.754 -8.736 8.641 1 27.46 ? H141 OT2 401 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 46 #