data_1QDN # _model_server_result.job_id IRt5qPxAvhIb_mAYA8Fsdg _model_server_result.datetime_utc '2025-04-24 03:27:02' _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 1qdn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":401}' # _entry.id 1QDN # _exptl.entry_id 1QDN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 78.133 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description BETA-MERCAPTOETHANOL _entity.pdbx_number_of_molecules 6 _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 1QDN _cell.length_a 101.9 _cell.length_b 101.9 _cell.length_c 126.94 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1QDN _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 21 2' # 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 trimeric 3 author_and_software_defined_assembly 1 PISA hexameric 6 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T 1 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T 2 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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 G N N ? 3 H N N ? 3 L N N ? 3 M N N ? 3 P N N ? 3 Q 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 covale ? covale1 A SG CYS 12 A CYS 11 1_555 G S2 BME . A BME 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale2 A SG CYS 92 A CYS 91 1_555 H S2 BME . A BME 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale3 B SG CYS 12 B CYS 11 1_555 L S2 BME . B BME 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? covale ? covale4 B SG CYS 92 B CYS 91 1_555 M S2 BME . B BME 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale5 C SG CYS 12 C CYS 11 1_555 P S2 BME . C BME 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale6 C SG CYS 92 C CYS 91 1_555 Q S2 BME . C BME 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? # _chem_comp.formula 'C2 H6 O S' _chem_comp.formula_weight 78.133 _chem_comp.id BME _chem_comp.mon_nstd_flag . _chem_comp.name BETA-MERCAPTOETHANOL _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 C1 C2 BME sing 70 n n C1 O1 BME sing 71 n n C1 H11 BME sing 72 n n C1 H12 BME sing 73 n n C2 S2 BME sing 74 n n C2 H21 BME sing 75 n n C2 H22 BME sing 76 n n O1 HO1 BME sing 77 n n S2 HS2 BME sing 78 n n # _atom_sites.entry_id 1QDN _atom_sites.fract_transf_matrix[1][1] 0.009814 _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] 0.009814 _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] 0.007878 _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 D 2 SO4 A 1 501 501 SO4 SO4 . E 2 SO4 A 1 502 502 SO4 SO4 . F 2 SO4 A 1 505 505 SO4 SO4 . G 3 BME A 1 400 400 BME BME . H 3 BME A 1 401 401 BME BME . I 2 SO4 B 1 503 503 SO4 SO4 . J 2 SO4 B 1 506 506 SO4 SO4 . K 2 SO4 B 1 507 507 SO4 SO4 . L 3 BME B 1 400 400 BME BME . M 3 BME B 1 401 401 BME BME . N 2 SO4 C 1 504 504 SO4 SO4 . O 2 SO4 C 1 508 508 SO4 SO4 . P 3 BME C 1 400 400 BME BME . Q 3 BME C 1 401 401 BME BME . R 4 HOH A 1 506 1 HOH HOH . R 4 HOH A 2 507 2 HOH HOH . R 4 HOH A 3 508 3 HOH HOH . R 4 HOH A 4 509 4 HOH HOH . R 4 HOH A 5 510 5 HOH HOH . R 4 HOH A 6 511 6 HOH HOH . R 4 HOH A 7 512 7 HOH HOH . R 4 HOH A 8 513 8 HOH HOH . R 4 HOH A 9 514 9 HOH HOH . R 4 HOH A 10 515 10 HOH HOH . R 4 HOH A 11 516 12 HOH HOH . R 4 HOH A 12 517 13 HOH HOH . R 4 HOH A 13 518 14 HOH HOH . R 4 HOH A 14 519 15 HOH HOH . R 4 HOH A 15 520 16 HOH HOH . R 4 HOH A 16 521 17 HOH HOH . R 4 HOH A 17 522 18 HOH HOH . R 4 HOH A 18 523 19 HOH HOH . R 4 HOH A 19 524 20 HOH HOH . R 4 HOH A 20 525 21 HOH HOH . R 4 HOH A 21 526 22 HOH HOH . R 4 HOH A 22 527 23 HOH HOH . R 4 HOH A 23 528 25 HOH HOH . R 4 HOH A 24 529 26 HOH HOH . R 4 HOH A 25 530 27 HOH HOH . R 4 HOH A 26 531 28 HOH HOH . R 4 HOH A 27 532 29 HOH HOH . R 4 HOH A 28 533 30 HOH HOH . R 4 HOH A 29 534 31 HOH HOH . R 4 HOH A 30 535 32 HOH HOH . R 4 HOH A 31 536 33 HOH HOH . R 4 HOH A 32 537 34 HOH HOH . R 4 HOH A 33 538 35 HOH HOH . R 4 HOH A 34 539 39 HOH HOH . R 4 HOH A 35 540 42 HOH HOH . R 4 HOH A 36 541 43 HOH HOH . R 4 HOH A 37 542 45 HOH HOH . R 4 HOH A 38 543 50 HOH HOH . R 4 HOH A 39 544 59 HOH HOH . R 4 HOH A 40 545 66 HOH HOH . R 4 HOH A 41 546 68 HOH HOH . R 4 HOH A 42 547 79 HOH HOH . R 4 HOH A 43 548 80 HOH HOH . R 4 HOH A 44 549 84 HOH HOH . R 4 HOH A 45 550 87 HOH HOH . R 4 HOH A 46 551 121 HOH HOH . R 4 HOH A 47 552 123 HOH HOH . R 4 HOH A 48 553 125 HOH HOH . R 4 HOH A 49 554 126 HOH HOH . R 4 HOH A 50 555 130 HOH HOH . R 4 HOH A 51 556 132 HOH HOH . R 4 HOH A 52 557 133 HOH HOH . R 4 HOH A 53 558 136 HOH HOH . R 4 HOH A 54 559 141 HOH HOH . R 4 HOH A 55 560 146 HOH HOH . R 4 HOH A 56 561 148 HOH HOH . R 4 HOH A 57 562 151 HOH HOH . R 4 HOH A 58 563 152 HOH HOH . R 4 HOH A 59 564 153 HOH HOH . R 4 HOH A 60 565 155 HOH HOH . R 4 HOH A 61 566 161 HOH HOH . R 4 HOH A 62 567 166 HOH HOH . R 4 HOH A 63 568 168 HOH HOH . R 4 HOH A 64 569 173 HOH HOH . R 4 HOH A 65 570 174 HOH HOH . R 4 HOH A 66 571 176 HOH HOH . R 4 HOH A 67 572 178 HOH HOH . R 4 HOH A 68 573 180 HOH HOH . R 4 HOH A 69 574 183 HOH HOH . R 4 HOH A 70 575 184 HOH HOH . R 4 HOH A 71 576 185 HOH HOH . R 4 HOH A 72 577 189 HOH HOH . R 4 HOH A 73 578 191 HOH HOH . R 4 HOH A 74 579 192 HOH HOH . R 4 HOH A 75 580 197 HOH HOH . R 4 HOH A 76 581 202 HOH HOH . R 4 HOH A 77 582 203 HOH HOH . R 4 HOH A 78 583 206 HOH HOH . R 4 HOH A 79 584 207 HOH HOH . R 4 HOH A 80 585 212 HOH HOH . R 4 HOH A 81 586 213 HOH HOH . R 4 HOH A 82 587 215 HOH HOH . R 4 HOH A 83 588 216 HOH HOH . R 4 HOH A 84 589 218 HOH HOH . R 4 HOH A 85 590 219 HOH HOH . R 4 HOH A 86 591 220 HOH HOH . R 4 HOH A 87 592 222 HOH HOH . R 4 HOH A 88 593 223 HOH HOH . R 4 HOH A 89 594 230 HOH HOH . R 4 HOH A 90 595 231 HOH HOH . R 4 HOH A 91 596 233 HOH HOH . R 4 HOH A 92 597 235 HOH HOH . R 4 HOH A 93 598 241 HOH HOH . S 4 HOH B 1 508 11 HOH HOH . S 4 HOH B 2 509 36 HOH HOH . S 4 HOH B 3 510 37 HOH HOH . S 4 HOH B 4 511 38 HOH HOH . S 4 HOH B 5 512 41 HOH HOH . S 4 HOH B 6 513 46 HOH HOH . S 4 HOH B 7 514 47 HOH HOH . S 4 HOH B 8 515 48 HOH HOH . S 4 HOH B 9 516 49 HOH HOH . S 4 HOH B 10 517 51 HOH HOH . S 4 HOH B 11 518 52 HOH HOH . S 4 HOH B 12 519 53 HOH HOH . S 4 HOH B 13 520 54 HOH HOH . S 4 HOH B 14 521 55 HOH HOH . S 4 HOH B 15 522 56 HOH HOH . S 4 HOH B 16 523 57 HOH HOH . S 4 HOH B 17 524 58 HOH HOH . S 4 HOH B 18 525 60 HOH HOH . S 4 HOH B 19 526 61 HOH HOH . S 4 HOH B 20 527 62 HOH HOH . S 4 HOH B 21 528 63 HOH HOH . S 4 HOH B 22 529 64 HOH HOH . S 4 HOH B 23 530 65 HOH HOH . S 4 HOH B 24 531 67 HOH HOH . S 4 HOH B 25 532 69 HOH HOH . S 4 HOH B 26 533 70 HOH HOH . S 4 HOH B 27 534 71 HOH HOH . S 4 HOH B 28 535 72 HOH HOH . S 4 HOH B 29 536 73 HOH HOH . S 4 HOH B 30 537 74 HOH HOH . S 4 HOH B 31 538 75 HOH HOH . S 4 HOH B 32 539 76 HOH HOH . S 4 HOH B 33 540 77 HOH HOH . S 4 HOH B 34 541 78 HOH HOH . S 4 HOH B 35 542 82 HOH HOH . S 4 HOH B 36 543 83 HOH HOH . S 4 HOH B 37 544 85 HOH HOH . S 4 HOH B 38 545 86 HOH HOH . S 4 HOH B 39 546 88 HOH HOH . S 4 HOH B 40 547 89 HOH HOH . S 4 HOH B 41 548 111 HOH HOH . S 4 HOH B 42 549 128 HOH HOH . S 4 HOH B 43 550 134 HOH HOH . S 4 HOH B 44 551 139 HOH HOH . S 4 HOH B 45 552 140 HOH HOH . S 4 HOH B 46 553 142 HOH HOH . S 4 HOH B 47 554 144 HOH HOH . S 4 HOH B 48 555 145 HOH HOH . S 4 HOH B 49 556 147 HOH HOH . S 4 HOH B 50 557 150 HOH HOH . S 4 HOH B 51 558 156 HOH HOH . S 4 HOH B 52 559 157 HOH HOH . S 4 HOH B 53 560 158 HOH HOH . S 4 HOH B 54 561 163 HOH HOH . S 4 HOH B 55 562 164 HOH HOH . S 4 HOH B 56 563 165 HOH HOH . S 4 HOH B 57 564 169 HOH HOH . S 4 HOH B 58 565 170 HOH HOH . S 4 HOH B 59 566 172 HOH HOH . S 4 HOH B 60 567 177 HOH HOH . S 4 HOH B 61 568 179 HOH HOH . S 4 HOH B 62 569 182 HOH HOH . S 4 HOH B 63 570 186 HOH HOH . S 4 HOH B 64 571 187 HOH HOH . S 4 HOH B 65 572 190 HOH HOH . S 4 HOH B 66 573 194 HOH HOH . S 4 HOH B 67 574 198 HOH HOH . S 4 HOH B 68 575 201 HOH HOH . S 4 HOH B 69 576 205 HOH HOH . S 4 HOH B 70 577 208 HOH HOH . S 4 HOH B 71 578 211 HOH HOH . S 4 HOH B 72 579 217 HOH HOH . S 4 HOH B 73 580 232 HOH HOH . S 4 HOH B 74 581 234 HOH HOH . S 4 HOH B 75 582 236 HOH HOH . S 4 HOH B 76 583 237 HOH HOH . S 4 HOH B 77 584 239 HOH HOH . S 4 HOH B 78 585 240 HOH HOH . S 4 HOH B 79 586 242 HOH HOH . T 4 HOH C 1 509 24 HOH HOH . T 4 HOH C 2 510 40 HOH HOH . T 4 HOH C 3 511 44 HOH HOH . T 4 HOH C 4 512 81 HOH HOH . T 4 HOH C 5 513 90 HOH HOH . T 4 HOH C 6 514 91 HOH HOH . T 4 HOH C 7 515 92 HOH HOH . T 4 HOH C 8 516 93 HOH HOH . T 4 HOH C 9 517 94 HOH HOH . T 4 HOH C 10 518 95 HOH HOH . T 4 HOH C 11 519 96 HOH HOH . T 4 HOH C 12 520 97 HOH HOH . T 4 HOH C 13 521 98 HOH HOH . T 4 HOH C 14 522 99 HOH HOH . T 4 HOH C 15 523 100 HOH HOH . T 4 HOH C 16 524 101 HOH HOH . T 4 HOH C 17 525 102 HOH HOH . T 4 HOH C 18 526 103 HOH HOH . T 4 HOH C 19 527 104 HOH HOH . T 4 HOH C 20 528 105 HOH HOH . T 4 HOH C 21 529 106 HOH HOH . T 4 HOH C 22 530 107 HOH HOH . T 4 HOH C 23 531 108 HOH HOH . T 4 HOH C 24 532 109 HOH HOH . T 4 HOH C 25 533 110 HOH HOH . T 4 HOH C 26 534 112 HOH HOH . T 4 HOH C 27 535 113 HOH HOH . T 4 HOH C 28 536 114 HOH HOH . T 4 HOH C 29 537 115 HOH HOH . T 4 HOH C 30 538 116 HOH HOH . T 4 HOH C 31 539 117 HOH HOH . T 4 HOH C 32 540 118 HOH HOH . T 4 HOH C 33 541 119 HOH HOH . T 4 HOH C 34 542 120 HOH HOH . T 4 HOH C 35 543 122 HOH HOH . T 4 HOH C 36 544 124 HOH HOH . T 4 HOH C 37 545 127 HOH HOH . T 4 HOH C 38 546 129 HOH HOH . T 4 HOH C 39 547 131 HOH HOH . T 4 HOH C 40 548 135 HOH HOH . T 4 HOH C 41 549 137 HOH HOH . T 4 HOH C 42 550 138 HOH HOH . T 4 HOH C 43 551 143 HOH HOH . T 4 HOH C 44 552 149 HOH HOH . T 4 HOH C 45 553 154 HOH HOH . T 4 HOH C 46 554 159 HOH HOH . T 4 HOH C 47 555 160 HOH HOH . T 4 HOH C 48 556 162 HOH HOH . T 4 HOH C 49 557 167 HOH HOH . T 4 HOH C 50 558 171 HOH HOH . T 4 HOH C 51 559 175 HOH HOH . T 4 HOH C 52 560 181 HOH HOH . T 4 HOH C 53 561 188 HOH HOH . T 4 HOH C 54 562 193 HOH HOH . T 4 HOH C 55 563 195 HOH HOH . T 4 HOH C 56 564 196 HOH HOH . T 4 HOH C 57 565 199 HOH HOH . T 4 HOH C 58 566 200 HOH HOH . T 4 HOH C 59 567 204 HOH HOH . T 4 HOH C 60 568 209 HOH HOH . T 4 HOH C 61 569 210 HOH HOH . T 4 HOH C 62 570 214 HOH HOH . T 4 HOH C 63 571 221 HOH HOH . T 4 HOH C 64 572 224 HOH HOH . T 4 HOH C 65 573 225 HOH HOH . T 4 HOH C 66 574 226 HOH HOH . T 4 HOH C 67 575 227 HOH HOH . T 4 HOH C 68 576 228 HOH HOH . T 4 HOH C 69 577 229 HOH HOH . T 4 HOH C 70 578 238 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 BME . . . H 3 72.931 86.231 13.557 1 27.05 ? C1 BME 401 A 1 HETATM 2 C C2 BME . . . H 3 73.641 86.042 14.896 1 27 ? C2 BME 401 A 1 HETATM 3 O O1 BME . . . H 3 72.699 87.597 13.142 1 29.32 ? O1 BME 401 A 1 HETATM 4 S S2 BME . . . H 3 74.05 87.614 15.715 1 24.69 ? S2 BME 401 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 4 #