data_3VB3 # _model_server_result.job_id MoQl3zm8jXj-6ZlO0rT4AA _model_server_result.datetime_utc '2024-11-24 02:10:12' _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 3vb3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 3VB3 # _exptl.entry_id 3VB3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _entity.pdbx_number_of_molecules 7 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 102.73 _cell.angle_gamma 90 _cell.entry_id 3VB3 _cell.length_a 52.434 _cell.length_b 96.741 _cell.length_c 67.719 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VB3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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,J,K,L _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 ? 3 D N N ? 3 E N N ? 3 F N N ? 3 G N N ? 3 H N N ? 3 I N N ? 3 J N N # _chem_comp.formula 'C2 H6 O2' _chem_comp.formula_weight 62.068 _chem_comp.id EDO _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-ETHANEDIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ETHYLENE GLYCOL' # 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 O1 EDO sing 83 n n C1 C2 EDO sing 84 n n C1 H11 EDO sing 85 n n C1 H12 EDO sing 86 n n O1 HO1 EDO sing 87 n n C2 O2 EDO sing 88 n n C2 H21 EDO sing 89 n n C2 H22 EDO sing 90 n n O2 HO2 EDO sing 91 n n # _atom_sites.entry_id 3VB3 _atom_sites.fract_transf_matrix[1][1] 0.019071 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004309 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010337 _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] 0.015139 _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 PEG A 1 401 1 PEG PEG . D 3 EDO A 1 402 2 EDO EDO . E 3 EDO A 1 403 3 EDO EDO . F 3 EDO A 1 404 5 EDO EDO . G 3 EDO A 1 405 7 EDO EDO . H 3 EDO A 1 406 8 EDO EDO . I 3 EDO B 1 401 4 EDO EDO . J 3 EDO B 1 402 6 EDO EDO . K 4 HOH A 1 501 4 HOH HOH . K 4 HOH A 2 502 7 HOH HOH . K 4 HOH A 3 503 8 HOH HOH . K 4 HOH A 4 504 10 HOH HOH . K 4 HOH A 5 505 12 HOH HOH . K 4 HOH A 6 506 15 HOH HOH . K 4 HOH A 7 507 17 HOH HOH . K 4 HOH A 8 508 18 HOH HOH . K 4 HOH A 9 509 24 HOH HOH . K 4 HOH A 10 510 26 HOH HOH . K 4 HOH A 11 511 27 HOH HOH . K 4 HOH A 12 512 28 HOH HOH . K 4 HOH A 13 513 29 HOH HOH . K 4 HOH A 14 514 36 HOH HOH . K 4 HOH A 15 515 40 HOH HOH . K 4 HOH A 16 516 43 HOH HOH . K 4 HOH A 17 517 52 HOH HOH . K 4 HOH A 18 518 55 HOH HOH . K 4 HOH A 19 519 58 HOH HOH . K 4 HOH A 20 520 62 HOH HOH . K 4 HOH A 21 521 68 HOH HOH . K 4 HOH A 22 522 70 HOH HOH . K 4 HOH A 23 523 71 HOH HOH . K 4 HOH A 24 524 76 HOH HOH . K 4 HOH A 25 525 78 HOH HOH . K 4 HOH A 26 526 90 HOH HOH . K 4 HOH A 27 527 91 HOH HOH . K 4 HOH A 28 528 99 HOH HOH . K 4 HOH A 29 529 106 HOH HOH . K 4 HOH A 30 530 116 HOH HOH . K 4 HOH A 31 531 121 HOH HOH . K 4 HOH A 32 532 134 HOH HOH . K 4 HOH A 33 533 135 HOH HOH . K 4 HOH A 34 534 136 HOH HOH . K 4 HOH A 35 535 144 HOH HOH . K 4 HOH A 36 536 145 HOH HOH . K 4 HOH A 37 537 148 HOH HOH . K 4 HOH A 38 538 149 HOH HOH . K 4 HOH A 39 539 150 HOH HOH . K 4 HOH A 40 540 159 HOH HOH . K 4 HOH A 41 541 161 HOH HOH . K 4 HOH A 42 542 166 HOH HOH . K 4 HOH A 43 543 167 HOH HOH . K 4 HOH A 44 544 170 HOH HOH . K 4 HOH A 45 545 172 HOH HOH . K 4 HOH A 46 546 175 HOH HOH . K 4 HOH A 47 547 179 HOH HOH . K 4 HOH A 48 548 180 HOH HOH . K 4 HOH A 49 549 182 HOH HOH . K 4 HOH A 50 550 185 HOH HOH . K 4 HOH A 51 551 187 HOH HOH . K 4 HOH A 52 552 189 HOH HOH . K 4 HOH A 53 553 190 HOH HOH . K 4 HOH A 54 554 191 HOH HOH . K 4 HOH A 55 555 192 HOH HOH . K 4 HOH A 56 556 193 HOH HOH . K 4 HOH A 57 557 194 HOH HOH . K 4 HOH A 58 558 197 HOH HOH . K 4 HOH A 59 559 198 HOH HOH . K 4 HOH A 60 560 203 HOH HOH . K 4 HOH A 61 561 207 HOH HOH . K 4 HOH A 62 562 209 HOH HOH . K 4 HOH A 63 563 213 HOH HOH . K 4 HOH A 64 564 229 HOH HOH . K 4 HOH A 65 565 230 HOH HOH . K 4 HOH A 66 566 231 HOH HOH . K 4 HOH A 67 567 232 HOH HOH . K 4 HOH A 68 568 233 HOH HOH . K 4 HOH A 69 569 234 HOH HOH . K 4 HOH A 70 570 240 HOH HOH . K 4 HOH A 71 571 249 HOH HOH . K 4 HOH A 72 572 253 HOH HOH . L 4 HOH B 1 501 2 HOH HOH . L 4 HOH B 2 502 5 HOH HOH . L 4 HOH B 3 503 14 HOH HOH . L 4 HOH B 4 504 16 HOH HOH . L 4 HOH B 5 505 20 HOH HOH . L 4 HOH B 6 506 22 HOH HOH . L 4 HOH B 7 507 25 HOH HOH . L 4 HOH B 8 508 30 HOH HOH . L 4 HOH B 9 509 31 HOH HOH . L 4 HOH B 10 510 33 HOH HOH . L 4 HOH B 11 511 35 HOH HOH . L 4 HOH B 12 512 37 HOH HOH . L 4 HOH B 13 513 39 HOH HOH . L 4 HOH B 14 514 41 HOH HOH . L 4 HOH B 15 515 44 HOH HOH . L 4 HOH B 16 516 46 HOH HOH . L 4 HOH B 17 517 47 HOH HOH . L 4 HOH B 18 518 50 HOH HOH . L 4 HOH B 19 519 54 HOH HOH . L 4 HOH B 20 520 57 HOH HOH . L 4 HOH B 21 521 61 HOH HOH . L 4 HOH B 22 522 63 HOH HOH . L 4 HOH B 23 523 64 HOH HOH . L 4 HOH B 24 524 67 HOH HOH . L 4 HOH B 25 525 69 HOH HOH . L 4 HOH B 26 526 72 HOH HOH . L 4 HOH B 27 527 73 HOH HOH . L 4 HOH B 28 528 75 HOH HOH . L 4 HOH B 29 529 81 HOH HOH . L 4 HOH B 30 530 86 HOH HOH . L 4 HOH B 31 531 95 HOH HOH . L 4 HOH B 32 532 96 HOH HOH . L 4 HOH B 33 533 98 HOH HOH . L 4 HOH B 34 534 101 HOH HOH . L 4 HOH B 35 535 102 HOH HOH . L 4 HOH B 36 536 103 HOH HOH . L 4 HOH B 37 537 104 HOH HOH . L 4 HOH B 38 538 107 HOH HOH . L 4 HOH B 39 539 108 HOH HOH . L 4 HOH B 40 540 111 HOH HOH . L 4 HOH B 41 541 113 HOH HOH . L 4 HOH B 42 542 115 HOH HOH . L 4 HOH B 43 543 118 HOH HOH . L 4 HOH B 44 544 122 HOH HOH . L 4 HOH B 45 545 123 HOH HOH . L 4 HOH B 46 546 124 HOH HOH . L 4 HOH B 47 547 125 HOH HOH . L 4 HOH B 48 548 126 HOH HOH . L 4 HOH B 49 549 127 HOH HOH . L 4 HOH B 50 550 130 HOH HOH . L 4 HOH B 51 551 131 HOH HOH . L 4 HOH B 52 552 132 HOH HOH . L 4 HOH B 53 553 133 HOH HOH . L 4 HOH B 54 554 138 HOH HOH . L 4 HOH B 55 555 141 HOH HOH . L 4 HOH B 56 556 142 HOH HOH . L 4 HOH B 57 557 146 HOH HOH . L 4 HOH B 58 558 147 HOH HOH . L 4 HOH B 59 559 151 HOH HOH . L 4 HOH B 60 560 152 HOH HOH . L 4 HOH B 61 561 153 HOH HOH . L 4 HOH B 62 562 154 HOH HOH . L 4 HOH B 63 563 155 HOH HOH . L 4 HOH B 64 564 158 HOH HOH . L 4 HOH B 65 565 160 HOH HOH . L 4 HOH B 66 566 165 HOH HOH . L 4 HOH B 67 567 168 HOH HOH . L 4 HOH B 68 568 171 HOH HOH . L 4 HOH B 69 569 173 HOH HOH . L 4 HOH B 70 570 174 HOH HOH . L 4 HOH B 71 571 176 HOH HOH . L 4 HOH B 72 572 178 HOH HOH . L 4 HOH B 73 573 183 HOH HOH . L 4 HOH B 74 574 186 HOH HOH . L 4 HOH B 75 575 188 HOH HOH . L 4 HOH B 76 576 196 HOH HOH . L 4 HOH B 77 577 199 HOH HOH . L 4 HOH B 78 578 200 HOH HOH . L 4 HOH B 79 579 201 HOH HOH . L 4 HOH B 80 580 202 HOH HOH . L 4 HOH B 81 581 206 HOH HOH . L 4 HOH B 82 582 216 HOH HOH . L 4 HOH B 83 583 218 HOH HOH . L 4 HOH B 84 584 219 HOH HOH . L 4 HOH B 85 585 220 HOH HOH . L 4 HOH B 86 586 221 HOH HOH . L 4 HOH B 87 587 222 HOH HOH . L 4 HOH B 88 588 223 HOH HOH . L 4 HOH B 89 589 226 HOH HOH . L 4 HOH B 90 590 227 HOH HOH . L 4 HOH B 91 591 228 HOH HOH . L 4 HOH B 92 592 239 HOH HOH . L 4 HOH B 93 593 242 HOH HOH . L 4 HOH B 94 594 247 HOH HOH . L 4 HOH B 95 595 248 HOH HOH . L 4 HOH B 96 596 250 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 EDO . . . D 3 5.063 -12.036 16.077 1 48.74 ? C1 EDO 402 A 1 HETATM 2 O O1 EDO . . . D 3 4.814 -10.621 16.11 1 48.38 ? O1 EDO 402 A 1 HETATM 3 C C2 EDO . . . D 3 3.884 -12.744 15.414 1 47.96 ? C2 EDO 402 A 1 HETATM 4 O O2 EDO . . . D 3 2.725 -12.631 16.248 1 46.24 ? O2 EDO 402 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 4 #