data_5W56 # _model_server_result.job_id Igsk45NfvWFD-HSRMXseRg _model_server_result.datetime_utc '2024-11-27 23:47:18' _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 5w56 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 5W56 # _exptl.entry_id 5W56 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 110.98 _cell.angle_gamma 90 _cell.entry_id 5W56 _cell.length_a 61.469 _cell.length_b 106.261 _cell.length_c 61.672 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5W56 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,I 1 1 B,F,G,H,J 2 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 D N N ? 2 F N N ? 2 G 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 disulf ? disulf1 A SG CYS 135 A CYS 158 1_555 A SG CYS 142 A CYS 165 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.091 ? disulf ? disulf2 B SG CYS 135 B CYS 158 1_555 B SG CYS 142 B CYS 165 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc1 A O THR 37 A THR 60 1_555 E NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? metalc ? metalc2 A OD1 ASN 231 A ASN 254 1_555 E NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? metalc ? metalc3 A OD1 ASP 256 A ASP 279 1_555 E NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.693 ? metalc ? metalc4 A OD2 ASP 256 A ASP 279 1_555 E NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? metalc ? metalc5 E NA NA . A NA 403 1_555 I O HOH . A HOH 548 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.603 ? metalc ? metalc6 B O SER 35 B SER 58 1_555 H NA NA . B NA 403 1_555 ? A ? ? ? ? ? ? ? ? ? ? 3.149 ? metalc ? metalc7 B O SER 35 B SER 58 1_555 H NA NA . B NA 403 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.999 ? metalc ? metalc8 B OG SER 35 B SER 58 1_555 H NA NA . B NA 403 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.613 ? metalc ? metalc9 B O THR 37 B THR 60 1_555 H NA NA . B NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? metalc ? metalc10 B OD1 ASN 231 B ASN 254 1_555 H NA NA . B NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.669 ? metalc ? metalc11 B OD1 ASP 256 B ASP 279 1_555 H NA NA . B NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.693 ? metalc ? metalc12 B OD2 ASP 256 B ASP 279 1_555 H NA NA . B NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc13 H NA NA . B NA 403 1_555 J O HOH . B HOH 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 GOL sing 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 5W56 _atom_sites.fract_transf_matrix[1][1] 0.016268 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006238 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009411 _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] 0.017366 _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 GOL A 1 401 2 GOL GOL . D 2 GOL A 1 402 4 GOL GOL . E 3 NA A 1 403 1 NA NA . F 2 GOL B 1 401 1 GOL GOL . G 2 GOL B 1 402 3 GOL GOL . H 3 NA B 1 403 1 NA NA . I 4 HOH A 1 501 131 HOH HOH . I 4 HOH A 2 502 108 HOH HOH . I 4 HOH A 3 503 170 HOH HOH . I 4 HOH A 4 504 175 HOH HOH . I 4 HOH A 5 505 130 HOH HOH . I 4 HOH A 6 506 160 HOH HOH . I 4 HOH A 7 507 53 HOH HOH . I 4 HOH A 8 508 89 HOH HOH . I 4 HOH A 9 509 149 HOH HOH . I 4 HOH A 10 510 110 HOH HOH . I 4 HOH A 11 511 94 HOH HOH . I 4 HOH A 12 512 90 HOH HOH . I 4 HOH A 13 513 66 HOH HOH . I 4 HOH A 14 514 37 HOH HOH . I 4 HOH A 15 515 4 HOH HOH . I 4 HOH A 16 516 96 HOH HOH . I 4 HOH A 17 517 173 HOH HOH . I 4 HOH A 18 518 24 HOH HOH . I 4 HOH A 19 519 140 HOH HOH . I 4 HOH A 20 520 34 HOH HOH . I 4 HOH A 21 521 115 HOH HOH . I 4 HOH A 22 522 118 HOH HOH . I 4 HOH A 23 523 7 HOH HOH . I 4 HOH A 24 524 161 HOH HOH . I 4 HOH A 25 525 21 HOH HOH . I 4 HOH A 26 526 101 HOH HOH . I 4 HOH A 27 527 27 HOH HOH . I 4 HOH A 28 528 29 HOH HOH . I 4 HOH A 29 529 79 HOH HOH . I 4 HOH A 30 530 71 HOH HOH . I 4 HOH A 31 531 67 HOH HOH . I 4 HOH A 32 532 99 HOH HOH . I 4 HOH A 33 533 141 HOH HOH . I 4 HOH A 34 534 77 HOH HOH . I 4 HOH A 35 535 16 HOH HOH . I 4 HOH A 36 536 143 HOH HOH . I 4 HOH A 37 537 14 HOH HOH . I 4 HOH A 38 538 163 HOH HOH . I 4 HOH A 39 539 10 HOH HOH . I 4 HOH A 40 540 162 HOH HOH . I 4 HOH A 41 541 121 HOH HOH . I 4 HOH A 42 542 158 HOH HOH . I 4 HOH A 43 543 88 HOH HOH . I 4 HOH A 44 544 59 HOH HOH . I 4 HOH A 45 545 152 HOH HOH . I 4 HOH A 46 546 100 HOH HOH . I 4 HOH A 47 547 82 HOH HOH . I 4 HOH A 48 548 25 HOH HOH . I 4 HOH A 49 549 150 HOH HOH . I 4 HOH A 50 550 124 HOH HOH . I 4 HOH A 51 551 13 HOH HOH . I 4 HOH A 52 552 142 HOH HOH . I 4 HOH A 53 553 107 HOH HOH . I 4 HOH A 54 554 145 HOH HOH . I 4 HOH A 55 555 23 HOH HOH . I 4 HOH A 56 556 109 HOH HOH . I 4 HOH A 57 557 58 HOH HOH . I 4 HOH A 58 558 15 HOH HOH . I 4 HOH A 59 559 113 HOH HOH . I 4 HOH A 60 560 133 HOH HOH . I 4 HOH A 61 561 20 HOH HOH . I 4 HOH A 62 562 167 HOH HOH . I 4 HOH A 63 563 98 HOH HOH . I 4 HOH A 64 564 35 HOH HOH . I 4 HOH A 65 565 40 HOH HOH . I 4 HOH A 66 566 41 HOH HOH . J 4 HOH B 1 501 174 HOH HOH . J 4 HOH B 2 502 60 HOH HOH . J 4 HOH B 3 503 132 HOH HOH . J 4 HOH B 4 504 49 HOH HOH . J 4 HOH B 5 505 116 HOH HOH . J 4 HOH B 6 506 102 HOH HOH . J 4 HOH B 7 507 156 HOH HOH . J 4 HOH B 8 508 22 HOH HOH . J 4 HOH B 9 509 164 HOH HOH . J 4 HOH B 10 510 19 HOH HOH . J 4 HOH B 11 511 112 HOH HOH . J 4 HOH B 12 512 3 HOH HOH . J 4 HOH B 13 513 111 HOH HOH . J 4 HOH B 14 514 61 HOH HOH . J 4 HOH B 15 515 126 HOH HOH . J 4 HOH B 16 516 28 HOH HOH . J 4 HOH B 17 517 9 HOH HOH . J 4 HOH B 18 518 75 HOH HOH . J 4 HOH B 19 519 92 HOH HOH . J 4 HOH B 20 520 85 HOH HOH . J 4 HOH B 21 521 18 HOH HOH . J 4 HOH B 22 522 117 HOH HOH . J 4 HOH B 23 523 55 HOH HOH . J 4 HOH B 24 524 93 HOH HOH . J 4 HOH B 25 525 166 HOH HOH . J 4 HOH B 26 526 136 HOH HOH . J 4 HOH B 27 527 12 HOH HOH . J 4 HOH B 28 528 139 HOH HOH . J 4 HOH B 29 529 76 HOH HOH . J 4 HOH B 30 530 97 HOH HOH . J 4 HOH B 31 531 81 HOH HOH . J 4 HOH B 32 532 52 HOH HOH . J 4 HOH B 33 533 106 HOH HOH . J 4 HOH B 34 534 123 HOH HOH . J 4 HOH B 35 535 6 HOH HOH . J 4 HOH B 36 536 148 HOH HOH . J 4 HOH B 37 537 47 HOH HOH . J 4 HOH B 38 538 153 HOH HOH . J 4 HOH B 39 539 26 HOH HOH . J 4 HOH B 40 540 56 HOH HOH . J 4 HOH B 41 541 114 HOH HOH . J 4 HOH B 42 542 69 HOH HOH . J 4 HOH B 43 543 154 HOH HOH . J 4 HOH B 44 544 105 HOH HOH . J 4 HOH B 45 545 57 HOH HOH . J 4 HOH B 46 546 11 HOH HOH . J 4 HOH B 47 547 125 HOH HOH . J 4 HOH B 48 548 32 HOH HOH . J 4 HOH B 49 549 74 HOH HOH . J 4 HOH B 50 550 157 HOH HOH . J 4 HOH B 51 551 87 HOH HOH . J 4 HOH B 52 552 83 HOH HOH . J 4 HOH B 53 553 151 HOH HOH . J 4 HOH B 54 554 104 HOH HOH . J 4 HOH B 55 555 84 HOH HOH . J 4 HOH B 56 556 144 HOH HOH . J 4 HOH B 57 557 172 HOH HOH . J 4 HOH B 58 558 103 HOH HOH . J 4 HOH B 59 559 176 HOH HOH . J 4 HOH B 60 560 31 HOH HOH . J 4 HOH B 61 561 91 HOH HOH . J 4 HOH B 62 562 137 HOH HOH . J 4 HOH B 63 563 169 HOH HOH . J 4 HOH B 64 564 46 HOH HOH . J 4 HOH B 65 565 119 HOH HOH . J 4 HOH B 66 566 146 HOH HOH . J 4 HOH B 67 567 147 HOH HOH . J 4 HOH B 68 568 30 HOH HOH . J 4 HOH B 69 569 165 HOH HOH . J 4 HOH B 70 570 128 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 GOL . . . D 2 9.933 47.187 19.585 1 61.31 ? C1 GOL 402 A 1 HETATM 2 O O1 GOL . . . D 2 9.394 47.288 18.272 1 48.22 ? O1 GOL 402 A 1 HETATM 3 C C2 GOL . . . D 2 9.897 45.799 20.175 1 69.29 ? C2 GOL 402 A 1 HETATM 4 O O2 GOL . . . D 2 10.558 44.973 19.188 1 92.21 ? O2 GOL 402 A 1 HETATM 5 C C3 GOL . . . D 2 10.54 45.807 21.594 1 83.79 ? C3 GOL 402 A 1 HETATM 6 O O3 GOL . . . D 2 11.995 45.749 21.599 1 89.59 ? O3 GOL 402 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 287 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 6 #