data_2H28 # _model_server_result.job_id i6hW_BiMRV7RFSOK10SNeQ _model_server_result.datetime_utc '2025-03-09 04:15:07' _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 2h28 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":6000}' # _entry.id 2H28 # _exptl.entry_id 2H28 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 108.79 _cell.angle_gamma 90 _cell.entry_id 2H28 _cell.length_a 54.216 _cell.length_b 45.31 _cell.length_c 60.185 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2H28 _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 PQS monomeric 1 author_and_software_defined_assembly 1 PQS monomeric 1 author_and_software_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,H 1 1 B,E,F,G,I 2 1 A,B,C,D,E,F,G,H,I 3 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 ? 4 F N N ? 4 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 covale ? covale1 A C LEU 69 A LEU 69 1_555 A N MSE 70 A MSE 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 A C MSE 70 A MSE 70 1_555 A N LYS 71 A LYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale3 A C LEU 75 A LEU 75 1_555 A N MSE 76 A MSE 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale4 A C MSE 76 A MSE 76 1_555 A N LEU 77 A LEU 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale5 A C GLU 119 A GLU 119 1_555 A N MSE 120 A MSE 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale6 A C MSE 120 A MSE 120 1_555 A N LYS 121 A LYS 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale7 B C LEU 69 B LEU 69 1_555 B N MSE 70 B MSE 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale8 B C MSE 70 B MSE 70 1_555 B N LYS 71 B LYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale9 B C LEU 75 B LEU 75 1_555 B N MSE 76 B MSE 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale10 B C MSE 76 B MSE 76 1_555 B N LEU 77 B LEU 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? metalc ? metalc1 A O HIS 86 A HIS 86 1_555 D MG MG . A MG 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.002 ? metalc ? metalc2 A O HIS 88 A HIS 88 1_555 D MG MG . A MG 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? metalc ? metalc3 A OD1 ASP 102 A ASP 102 1_555 D MG MG . A MG 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.774 ? metalc ? metalc4 H O HOH . A HOH 3014 1_555 E MG MG . B MG 5002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.881 ? metalc ? metalc5 B O GLY 21 B GLY 21 1_555 E MG MG . B MG 5002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.64 ? # _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 2H28 _atom_sites.fract_transf_matrix[1][1] 0.018445 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006276 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.02207 _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] 0.017551 _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 CL A 1 4001 4001 CL CL . D 3 MG A 1 5001 5001 MG MG . E 3 MG B 1 5002 5002 MG MG . F 4 GOL B 1 6000 6000 GOL GOL . G 4 GOL B 1 6001 6001 GOL GOL . H 5 HOH A 1 3002 3002 HOH HOH . H 5 HOH A 2 3005 3005 HOH HOH . H 5 HOH A 3 3008 3008 HOH HOH . H 5 HOH A 4 3010 3010 HOH HOH . H 5 HOH A 5 3013 3013 HOH HOH . H 5 HOH A 6 3014 3014 HOH HOH . H 5 HOH A 7 3016 3016 HOH HOH . H 5 HOH A 8 3018 3018 HOH HOH . H 5 HOH A 9 3020 3020 HOH HOH . H 5 HOH A 10 3021 3021 HOH HOH . H 5 HOH A 11 3022 3022 HOH HOH . H 5 HOH A 12 3023 3023 HOH HOH . H 5 HOH A 13 3024 3024 HOH HOH . H 5 HOH A 14 3025 3025 HOH HOH . H 5 HOH A 15 3029 3029 HOH HOH . H 5 HOH A 16 3031 3031 HOH HOH . H 5 HOH A 17 3035 3035 HOH HOH . H 5 HOH A 18 3040 3040 HOH HOH . H 5 HOH A 19 3041 3041 HOH HOH . H 5 HOH A 20 3042 3042 HOH HOH . H 5 HOH A 21 3044 3044 HOH HOH . H 5 HOH A 22 3048 3048 HOH HOH . H 5 HOH A 23 3049 3049 HOH HOH . H 5 HOH A 24 3054 3054 HOH HOH . H 5 HOH A 25 3055 3055 HOH HOH . H 5 HOH A 26 3056 3056 HOH HOH . H 5 HOH A 27 3058 3058 HOH HOH . H 5 HOH A 28 3063 3063 HOH HOH . H 5 HOH A 29 3064 3064 HOH HOH . H 5 HOH A 30 3065 3065 HOH HOH . H 5 HOH A 31 3067 3067 HOH HOH . H 5 HOH A 32 3068 3068 HOH HOH . H 5 HOH A 33 3069 3069 HOH HOH . H 5 HOH A 34 3072 3072 HOH HOH . H 5 HOH A 35 3073 3073 HOH HOH . H 5 HOH A 36 3075 3075 HOH HOH . H 5 HOH A 37 3076 3076 HOH HOH . H 5 HOH A 38 3077 3077 HOH HOH . H 5 HOH A 39 3079 3079 HOH HOH . H 5 HOH A 40 3080 3080 HOH HOH . H 5 HOH A 41 3081 3081 HOH HOH . I 5 HOH B 1 3001 3001 HOH HOH . I 5 HOH B 2 3003 3003 HOH HOH . I 5 HOH B 3 3004 3004 HOH HOH . I 5 HOH B 4 3006 3006 HOH HOH . I 5 HOH B 5 3007 3007 HOH HOH . I 5 HOH B 6 3009 3009 HOH HOH . I 5 HOH B 7 3011 3011 HOH HOH . I 5 HOH B 8 3012 3012 HOH HOH . I 5 HOH B 9 3015 3015 HOH HOH . I 5 HOH B 10 3017 3017 HOH HOH . I 5 HOH B 11 3019 3019 HOH HOH . I 5 HOH B 12 3026 3026 HOH HOH . I 5 HOH B 13 3027 3027 HOH HOH . I 5 HOH B 14 3028 3028 HOH HOH . I 5 HOH B 15 3030 3030 HOH HOH . I 5 HOH B 16 3032 3032 HOH HOH . I 5 HOH B 17 3033 3033 HOH HOH . I 5 HOH B 18 3034 3034 HOH HOH . I 5 HOH B 19 3036 3036 HOH HOH . I 5 HOH B 20 3037 3037 HOH HOH . I 5 HOH B 21 3038 3038 HOH HOH . I 5 HOH B 22 3039 3039 HOH HOH . I 5 HOH B 23 3043 3043 HOH HOH . I 5 HOH B 24 3045 3045 HOH HOH . I 5 HOH B 25 3046 3046 HOH HOH . I 5 HOH B 26 3047 3047 HOH HOH . I 5 HOH B 27 3050 3050 HOH HOH . I 5 HOH B 28 3051 3051 HOH HOH . I 5 HOH B 29 3052 3052 HOH HOH . I 5 HOH B 30 3053 3053 HOH HOH . I 5 HOH B 31 3057 3057 HOH HOH . I 5 HOH B 32 3059 3059 HOH HOH . I 5 HOH B 33 3060 3060 HOH HOH . I 5 HOH B 34 3061 3061 HOH HOH . I 5 HOH B 35 3062 3062 HOH HOH . I 5 HOH B 36 3066 3066 HOH HOH . I 5 HOH B 37 3070 3070 HOH HOH . I 5 HOH B 38 3071 3071 HOH HOH . I 5 HOH B 39 3074 3074 HOH HOH . I 5 HOH B 40 3078 3078 HOH HOH . I 5 HOH B 41 3082 3082 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 . . . F 4 28.713 32.008 37.439 1 77.49 ? C1 GOL 6000 B 1 HETATM 2 O O1 GOL . . . F 4 27.402 31.842 36.892 1 78.64 ? O1 GOL 6000 B 1 HETATM 3 C C2 GOL . . . F 4 29.088 33.496 37.464 1 77.27 ? C2 GOL 6000 B 1 HETATM 4 O O2 GOL . . . F 4 28.146 34.22 38.259 1 76.29 ? O2 GOL 6000 B 1 HETATM 5 C C3 GOL . . . F 4 30.493 33.656 38.046 1 75.87 ? C3 GOL 6000 B 1 HETATM 6 O O3 GOL . . . F 4 30.856 35.033 38.076 1 77.22 ? O3 GOL 6000 B 1 # _model_server_stats.io_time_ms 53 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 247 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 6 #