data_4Y5Y # _model_server_result.job_id CpsOnGadjRODFQFmYuW07w _model_server_result.datetime_utc '2024-12-11 09:31:04' _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 4y5y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":301}' # _entry.id 4Y5Y # _exptl.entry_id 4Y5Y _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 1 _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 4Y5Y _cell.length_a 78.141 _cell.length_b 95.799 _cell.length_c 144.972 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4Y5Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 2 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_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,M _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 29 A CYS 22 1_555 A SG CYS 103 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 B SG CYS 22 B CYS 22 1_555 B SG CYS 90 B CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 C SG CYS 26 C CYS 28 1_555 C SG CYS 36 C CYS 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 C SG CYS 65 C CYS 67 1_555 C SG CYS 81 C CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 D SG CYS 29 D CYS 22 1_555 D SG CYS 103 D CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 E SG CYS 22 E CYS 22 1_555 E SG CYS 90 E CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 F SG CYS 26 F CYS 28 1_555 F SG CYS 36 F CYS 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf8 F SG CYS 65 F CYS 67 1_555 F SG CYS 81 F CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 A C SER 37 A SER 30 1_555 A N MLY 38 A MLY 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 A C MLY 38 A MLY 31 1_555 A N TYR 39 A TYR 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale3 A C ILE 58 A ILE 51 1_555 A N MLY 59 A MLY 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale4 A C MLY 59 A MLY 52 1_555 A N PRO 60 A PRO 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? covale ? covale5 C C PRO 7 C PRO 9 1_555 C N MLY 8 C MLY 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 C C MLY 8 C MLY 10 1_555 C N PHE 9 C PHE 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale7 C C SER 11 C SER 13 1_555 C N MLY 12 C MLY 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale8 C C MLY 12 C MLY 14 1_555 C N ALA 13 C ALA 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale9 C C TRP 62 C TRP 64 1_555 C N MLY 63 C MLY 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale10 C C MLY 63 C MLY 65 1_555 C N LEU 64 C LEU 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale11 D C SER 37 D SER 30 1_555 D N MLY 38 D MLY 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale12 D C MLY 38 D MLY 31 1_555 D N TYR 39 D TYR 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale13 D C ILE 58 D ILE 51 1_555 D N MLY 59 D MLY 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale14 D C MLY 59 D MLY 52 1_555 D N PRO 60 D PRO 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? covale ? covale15 F C PRO 7 F PRO 9 1_555 F N MLY 8 F MLY 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale16 F C MLY 8 F MLY 10 1_555 F N PHE 9 F PHE 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale17 F C SER 11 F SER 13 1_555 F N MLY 12 F MLY 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale18 F C MLY 12 F MLY 14 1_555 F N ALA 13 F ALA 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale19 F C TRP 62 F TRP 64 1_555 F N MLY 63 F MLY 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale20 F C MLY 63 F MLY 65 1_555 F N LEU 64 F LEU 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _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 4Y5Y _atom_sites.fract_transf_matrix[1][1] 0.012797 _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] 0.010439 _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] 0.006898 _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 G 4 GOL C 1 301 1 GOL GOL . H 5 HOH A 1 201 2 HOH HOH . H 5 HOH A 2 202 8 HOH HOH . H 5 HOH A 3 203 13 HOH HOH . H 5 HOH A 4 204 23 HOH HOH . I 5 HOH B 1 201 1 HOH HOH . J 5 HOH C 1 401 20 HOH HOH . J 5 HOH C 2 402 21 HOH HOH . J 5 HOH C 3 403 19 HOH HOH . J 5 HOH C 4 404 24 HOH HOH . K 5 HOH D 1 201 4 HOH HOH . K 5 HOH D 2 202 3 HOH HOH . K 5 HOH D 3 203 5 HOH HOH . K 5 HOH D 4 204 9 HOH HOH . K 5 HOH D 5 205 14 HOH HOH . K 5 HOH D 6 206 15 HOH HOH . K 5 HOH D 7 207 18 HOH HOH . K 5 HOH D 8 208 25 HOH HOH . K 5 HOH D 9 209 33 HOH HOH . L 5 HOH E 1 201 22 HOH HOH . L 5 HOH E 2 202 10 HOH HOH . L 5 HOH E 3 203 26 HOH HOH . L 5 HOH E 4 204 27 HOH HOH . L 5 HOH E 5 205 29 HOH HOH . M 5 HOH F 1 301 32 HOH HOH . M 5 HOH F 2 302 16 HOH HOH . M 5 HOH F 3 303 17 HOH HOH . M 5 HOH F 4 304 6 HOH HOH . M 5 HOH F 5 305 7 HOH HOH . M 5 HOH F 6 306 11 HOH HOH . M 5 HOH F 7 307 12 HOH HOH . M 5 HOH F 8 308 28 HOH HOH . M 5 HOH F 9 309 30 HOH HOH . M 5 HOH F 10 310 31 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 . . . G 4 -21.371 15.141 -55.1 1 66.63 ? C1 GOL 301 C 1 HETATM 2 O O1 GOL . . . G 4 -21.624 13.98 -54.342 1 66.14 ? O1 GOL 301 C 1 HETATM 3 C C2 GOL . . . G 4 -20.568 16.134 -54.268 1 68.47 ? C2 GOL 301 C 1 HETATM 4 O O2 GOL . . . G 4 -19.815 15.44 -53.299 1 66.44 ? O2 GOL 301 C 1 HETATM 5 C C3 GOL . . . G 4 -19.623 16.911 -55.179 1 70.91 ? C3 GOL 301 C 1 HETATM 6 O O3 GOL . . . G 4 -19.059 17.988 -54.463 1 71.41 ? O3 GOL 301 C 1 # _model_server_stats.io_time_ms 48 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 226 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 6 #