data_5CQD # _model_server_result.job_id VHEHYlF-qnfaL1nRdC0ReA _model_server_result.datetime_utc '2024-11-18 17:43:43' _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 5cqd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 5CQD # _exptl.entry_id 5CQD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 5 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 100.83 _cell.angle_gamma 90 _cell.entry_id 5CQD _cell.length_a 53.44 _cell.length_b 50.84 _cell.length_c 70.15 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CQD _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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_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,C,D,E,F,G,J 1 1 B,H,I,K 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 ? 3 D N N ? 3 E N N ? 3 F N N ? 3 G N N ? 3 I 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 A ND1 HIS 60 A HIS 253 1_555 C ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc2 A SG CYS 91 A CYS 284 1_555 C ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? metalc ? metalc3 A SG CYS 96 A CYS 289 1_555 C ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc4 C ZN ZN . A ZN 501 1_555 J O HOH . A HOH 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc5 B ND1 HIS 60 C HIS 253 1_555 H ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc6 B SG CYS 91 C CYS 284 1_555 H ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc7 B SG CYS 96 C CYS 289 1_555 H ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? metalc ? metalc8 H ZN ZN . C ZN 501 1_555 K O HOH . C HOH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? # _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 5CQD _atom_sites.fract_transf_matrix[1][1] 0.018713 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003579 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01967 _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] 0.014514 _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 ZN A 1 501 501 ZN ZN . D 3 GOL A 1 502 2 GOL GOL . E 3 GOL A 1 503 3 GOL GOL . F 3 GOL A 1 504 4 GOL GOL . G 3 GOL A 1 505 5 GOL GOL . H 2 ZN C 1 501 501 ZN ZN . I 3 GOL C 1 502 1 GOL GOL . J 4 HOH A 1 601 77 HOH HOH . J 4 HOH A 2 602 7 HOH HOH . J 4 HOH A 3 603 18 HOH HOH . J 4 HOH A 4 604 45 HOH HOH . J 4 HOH A 5 605 46 HOH HOH . J 4 HOH A 6 606 64 HOH HOH . J 4 HOH A 7 607 43 HOH HOH . J 4 HOH A 8 608 60 HOH HOH . J 4 HOH A 9 609 19 HOH HOH . J 4 HOH A 10 610 83 HOH HOH . J 4 HOH A 11 611 4 HOH HOH . J 4 HOH A 12 612 78 HOH HOH . J 4 HOH A 13 613 11 HOH HOH . J 4 HOH A 14 614 21 HOH HOH . J 4 HOH A 15 615 39 HOH HOH . J 4 HOH A 16 616 61 HOH HOH . J 4 HOH A 17 617 85 HOH HOH . J 4 HOH A 18 618 38 HOH HOH . J 4 HOH A 19 619 36 HOH HOH . J 4 HOH A 20 620 35 HOH HOH . J 4 HOH A 21 621 16 HOH HOH . J 4 HOH A 22 622 1 HOH HOH . J 4 HOH A 23 623 40 HOH HOH . J 4 HOH A 24 624 82 HOH HOH . J 4 HOH A 25 625 10 HOH HOH . J 4 HOH A 26 626 37 HOH HOH . J 4 HOH A 27 627 32 HOH HOH . J 4 HOH A 28 628 33 HOH HOH . J 4 HOH A 29 629 66 HOH HOH . J 4 HOH A 30 630 3 HOH HOH . J 4 HOH A 31 631 68 HOH HOH . J 4 HOH A 32 632 49 HOH HOH . J 4 HOH A 33 633 55 HOH HOH . J 4 HOH A 34 634 47 HOH HOH . J 4 HOH A 35 635 84 HOH HOH . J 4 HOH A 36 636 58 HOH HOH . J 4 HOH A 37 637 86 HOH HOH . J 4 HOH A 38 638 42 HOH HOH . J 4 HOH A 39 639 53 HOH HOH . J 4 HOH A 40 640 72 HOH HOH . J 4 HOH A 41 641 14 HOH HOH . J 4 HOH A 42 642 80 HOH HOH . J 4 HOH A 43 643 51 HOH HOH . J 4 HOH A 44 644 17 HOH HOH . K 4 HOH C 1 601 12 HOH HOH . K 4 HOH C 2 602 23 HOH HOH . K 4 HOH C 3 603 71 HOH HOH . K 4 HOH C 4 604 52 HOH HOH . K 4 HOH C 5 605 44 HOH HOH . K 4 HOH C 6 606 22 HOH HOH . K 4 HOH C 7 607 75 HOH HOH . K 4 HOH C 8 608 6 HOH HOH . K 4 HOH C 9 609 48 HOH HOH . K 4 HOH C 10 610 8 HOH HOH . K 4 HOH C 11 611 15 HOH HOH . K 4 HOH C 12 612 5 HOH HOH . K 4 HOH C 13 613 13 HOH HOH . K 4 HOH C 14 614 29 HOH HOH . K 4 HOH C 15 615 31 HOH HOH . K 4 HOH C 16 616 63 HOH HOH . K 4 HOH C 17 617 9 HOH HOH . K 4 HOH C 18 618 2 HOH HOH . K 4 HOH C 19 619 25 HOH HOH . K 4 HOH C 20 620 70 HOH HOH . K 4 HOH C 21 621 20 HOH HOH . K 4 HOH C 22 622 24 HOH HOH . K 4 HOH C 23 623 65 HOH HOH . K 4 HOH C 24 624 34 HOH HOH . K 4 HOH C 25 625 79 HOH HOH . K 4 HOH C 26 626 59 HOH HOH . K 4 HOH C 27 627 27 HOH HOH . K 4 HOH C 28 628 54 HOH HOH . K 4 HOH C 29 629 73 HOH HOH . K 4 HOH C 30 630 57 HOH HOH . K 4 HOH C 31 631 26 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 3 67.973 0.088 -5.246 1 50.11 ? C1 GOL 502 A 1 HETATM 2 O O1 GOL . . . D 3 68.411 -1.247 -5.098 1 51.08 ? O1 GOL 502 A 1 HETATM 3 C C2 GOL . . . D 3 68.377 0.883 -4.013 1 47.87 ? C2 GOL 502 A 1 HETATM 4 O O2 GOL . . . D 3 69.776 1.048 -3.989 1 49.95 ? O2 GOL 502 A 1 HETATM 5 C C3 GOL . . . D 3 67.694 2.245 -3.994 1 50.94 ? C3 GOL 502 A 1 HETATM 6 O O3 GOL . . . D 3 67.131 2.438 -2.713 1 52.72 ? O3 GOL 502 A 1 HETATM 7 H H11 GOL . . . D 3 68.422 0.529 -6.136 1 60.14 ? H11 GOL 502 A 1 HETATM 8 H H12 GOL . . . D 3 66.889 0.111 -5.363 1 60.14 ? H12 GOL 502 A 1 HETATM 9 H HO1 GOL . . . D 3 68.096 -1.78 -5.858 1 61.29 ? HO1 GOL 502 A 1 HETATM 10 H H2 GOL . . . D 3 68.062 0.33 -3.129 1 57.44 ? H2 GOL 502 A 1 HETATM 11 H HO2 GOL . . . D 3 70.057 1.571 -4.769 1 59.94 ? HO2 GOL 502 A 1 HETATM 12 H H31 GOL . . . D 3 68.42 3.03 -4.206 1 61.13 ? H31 GOL 502 A 1 HETATM 13 H H32 GOL . . . D 3 66.914 2.282 -4.755 1 61.13 ? H32 GOL 502 A 1 HETATM 14 H HO3 GOL . . . D 3 66.57 3.241 -2.72 1 63.26 ? HO3 GOL 502 A 1 # _model_server_stats.io_time_ms 54 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 233 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #