data_3UDT # _model_server_result.job_id we_pWsrV_A1O3yzhXo149Q _model_server_result.datetime_utc '2024-11-13 03:49:05' _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 3udt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":911}' # _entry.id 3UDT # _exptl.entry_id 3UDT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 580.055 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description MYO-INOSITOL-(1,3,4,5,6)-PENTAKISPHOSPHATE _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90.02 _cell.angle_beta 97.04 _cell.angle_gamma 116.81 _cell.entry_id 3UDT _cell.length_a 59.362 _cell.length_b 59.913 _cell.length_c 83.146 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3UDT _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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 ? dimeric 2 author_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,E,F 1 1 B,G,H,I,J 2 1 A,B,C,D,E,F,G,H,I,J 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 ? 2 C 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 metalc ? metalc1 A ND1 HIS 354 A HIS 320 1_555 F ZN ZN . A ZN 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? metalc ? metalc2 A SG CYS 364 A CYS 330 1_555 F ZN ZN . A ZN 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc3 A SG CYS 367 A CYS 333 1_555 F ZN ZN . A ZN 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc4 A NE2 HIS 380 A HIS 346 1_555 F ZN ZN . A ZN 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc5 A OD2 ASP 441 A ASP 407 1_555 E MG MG . A MG 913 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? metalc ? metalc6 D O2A ADP . A ADP 912 1_555 E MG MG . A MG 913 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? metalc ? metalc7 B ND1 HIS 354 B HIS 320 1_555 J ZN ZN . B ZN 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? metalc ? metalc8 B SG CYS 364 B CYS 330 1_555 J ZN ZN . B ZN 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? metalc ? metalc9 B SG CYS 367 B CYS 333 1_555 J ZN ZN . B ZN 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? metalc ? metalc10 B NE2 HIS 380 B HIS 346 1_555 J ZN ZN . B ZN 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc11 H O1A ADP . B ADP 912 1_555 I MG MG . B MG 913 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? # _chem_comp.formula 'C6 H17 O21 P5' _chem_comp.formula_weight 580.055 _chem_comp.id 5MY _chem_comp.mon_nstd_flag . _chem_comp.name MYO-INOSITOL-(1,3,4,5,6)-PENTAKISPHOSPHATE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O31 P1 5MY sing 1 n n P1 O21 5MY sing 2 n n P1 O41 5MY doub 3 n n P1 O11 5MY sing 4 n n O11 C1 5MY sing 5 n n C1 C2 5MY sing 6 n n C1 C6 5MY sing 7 n n C2 O12 5MY sing 8 n n C2 C3 5MY sing 9 n n C3 O13 5MY sing 10 n n C3 C4 5MY sing 11 n n O13 P3 5MY sing 12 n n P3 O23 5MY sing 13 n n P3 O33 5MY doub 14 n n P3 O43 5MY sing 15 n n C6 O16 5MY sing 16 n n C6 C5 5MY sing 17 n n O16 P6 5MY sing 18 n n P6 O26 5MY sing 19 n n P6 O36 5MY doub 20 n n P6 O46 5MY sing 21 n n C5 O15 5MY sing 22 n n C5 C4 5MY sing 23 n n O15 P5 5MY sing 24 n n P5 O25 5MY sing 25 n n P5 O35 5MY doub 26 n n P5 O45 5MY sing 27 n n C4 O14 5MY sing 28 n n O14 P4 5MY sing 29 n n P4 O34 5MY doub 30 n n P4 O44 5MY sing 31 n n P4 O24 5MY sing 32 n n O31 H31 5MY sing 33 n n O21 H21 5MY sing 34 n n C1 H1 5MY sing 35 n n C2 H2 5MY sing 36 n n C6 H6 5MY sing 37 n n O12 H12 5MY sing 38 n n C3 H3 5MY sing 39 n n C4 H4 5MY sing 40 n n O23 H23 5MY sing 41 n n O43 H43 5MY sing 42 n n C5 H5 5MY sing 43 n n O26 H26 5MY sing 44 n n O46 H46 5MY sing 45 n n O25 H25 5MY sing 46 n n O45 H45 5MY sing 47 n n O44 H44 5MY sing 48 n n O24 H24 5MY sing 49 n n # _atom_sites.entry_id 3UDT _atom_sites.fract_transf_matrix[1][1] 0.016846 _atom_sites.fract_transf_matrix[1][2] 0.008513 _atom_sites.fract_transf_matrix[1][3] 0.00262 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018701 _atom_sites.fract_transf_matrix[2][3] 0.001177 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.012142 _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 5MY A 1 911 500 5MY I5P . D 3 ADP A 1 912 600 ADP ADP . E 4 MG A 1 913 700 MG MG . F 5 ZN A 1 914 800 ZN ZN . G 2 5MY B 1 911 500 5MY I5P . H 3 ADP B 1 912 600 ADP ADP . I 4 MG B 1 913 700 MG MG . J 5 ZN B 1 914 800 ZN ZN . # 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 O O31 5MY . . . G 2 -20.545 -25.133 22.094 1 25.58 ? O31 5MY 911 B 1 HETATM 2 P P1 5MY . . . G 2 -19.857 -24.893 20.756 1 43.25 ? P1 5MY 911 B 1 HETATM 3 O O21 5MY . . . G 2 -18.364 -25.166 20.806 1 35.57 ? O21 5MY 911 B 1 HETATM 4 O O41 5MY . . . G 2 -20.574 -25.748 19.647 1 29.97 ? O41 5MY 911 B 1 HETATM 5 O O11 5MY . . . G 2 -20.109 -23.384 20.42 1 44.84 ? O11 5MY 911 B 1 HETATM 6 C C1 5MY . . . G 2 -19.383 -22.76 19.408 1 32.03 ? C1 5MY 911 B 1 HETATM 7 C C2 5MY . . . G 2 -18.178 -22.048 19.995 1 36.02 ? C2 5MY 911 B 1 HETATM 8 O O12 5MY . . . G 2 -18.464 -21.327 21.174 1 29 ? O12 5MY 911 B 1 HETATM 9 C C3 5MY . . . G 2 -17.459 -21.217 18.944 1 35.01 ? C3 5MY 911 B 1 HETATM 10 O O13 5MY . . . G 2 -16.53 -20.387 19.575 1 41.64 ? O13 5MY 911 B 1 HETATM 11 P P3 5MY . . . G 2 -15.034 -20.841 19.743 1 49.32 ? P3 5MY 911 B 1 HETATM 12 O O23 5MY . . . G 2 -14.863 -22.285 19.304 1 39.91 ? O23 5MY 911 B 1 HETATM 13 O O33 5MY . . . G 2 -14.127 -19.917 18.965 1 33.75 ? O33 5MY 911 B 1 HETATM 14 O O43 5MY . . . G 2 -14.735 -20.806 21.281 1 41.51 ? O43 5MY 911 B 1 HETATM 15 C C6 5MY . . . G 2 -20.285 -21.935 18.534 1 26.51 ? C6 5MY 911 B 1 HETATM 16 O O16 5MY . . . G 2 -21.252 -22.758 17.938 1 32.55 ? O16 5MY 911 B 1 HETATM 17 P P6 5MY . . . G 2 -22.73 -22.96 18.469 1 36.87 ? P6 5MY 911 B 1 HETATM 18 O O26 5MY . . . G 2 -22.844 -24.382 18.986 1 21.3 ? O26 5MY 911 B 1 HETATM 19 O O36 5MY . . . G 2 -23.748 -22.887 17.281 1 32.4 ? O36 5MY 911 B 1 HETATM 20 O O46 5MY . . . G 2 -23.116 -21.936 19.52 1 31.31 ? O46 5MY 911 B 1 HETATM 21 C C5 5MY . . . G 2 -19.486 -21.243 17.458 1 26.19 ? C5 5MY 911 B 1 HETATM 22 O O15 5MY . . . G 2 -20.312 -20.396 16.74 1 29.13 ? O15 5MY 911 B 1 HETATM 23 P P5 5MY . . . G 2 -20.953 -20.807 15.362 1 37.56 ? P5 5MY 911 B 1 HETATM 24 O O25 5MY . . . G 2 -22.087 -19.751 15.123 1 25.92 ? O25 5MY 911 B 1 HETATM 25 O O35 5MY . . . G 2 -19.921 -20.665 14.257 1 30.2 ? O35 5MY 911 B 1 HETATM 26 O O45 5MY . . . G 2 -21.501 -22.22 15.324 1 28.31 ? O45 5MY 911 B 1 HETATM 27 C C4 5MY . . . G 2 -18.324 -20.437 17.995 1 28.02 ? C4 5MY 911 B 1 HETATM 28 O O14 5MY . . . G 2 -17.498 -20.018 16.947 1 41.24 ? O14 5MY 911 B 1 HETATM 29 P P4 5MY . . . G 2 -17.528 -18.621 16.223 1 34.33 ? P4 5MY 911 B 1 HETATM 30 O O34 5MY . . . G 2 -18.546 -18.602 15.105 1 35.51 ? O34 5MY 911 B 1 HETATM 31 O O44 5MY . . . G 2 -17.799 -17.558 17.263 1 32.33 ? O44 5MY 911 B 1 HETATM 32 O O24 5MY . . . G 2 -16.101 -18.34 15.648 1 20.7 ? O24 5MY 911 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 32 #