data_3UDT # _model_server_result.job_id Vk5QagfFyT-kzk-2OI4nvA _model_server_result.datetime_utc '2024-11-12 07:38:39' _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":"C","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 . . . C 2 -32.14 1.887 -4.184 1 30.95 ? O31 5MY 911 A 1 HETATM 2 P P1 5MY . . . C 2 -33.202 1.826 -5.27 1 42.57 ? P1 5MY 911 A 1 HETATM 3 O O21 5MY . . . C 2 -33.938 0.451 -5.116 1 35.18 ? O21 5MY 911 A 1 HETATM 4 O O41 5MY . . . C 2 -32.63 2.065 -6.668 1 25.7 ? O41 5MY 911 A 1 HETATM 5 O O11 5MY . . . C 2 -34.299 2.907 -4.97 1 45.21 ? O11 5MY 911 A 1 HETATM 6 C C1 5MY . . . C 2 -35.195 2.719 -3.921 1 32.04 ? C1 5MY 911 A 1 HETATM 7 C C2 5MY . . . C 2 -36.526 2.181 -4.394 1 27.68 ? C2 5MY 911 A 1 HETATM 8 O O12 5MY . . . C 2 -37.043 2.904 -5.471 1 27.7 ? O12 5MY 911 A 1 HETATM 9 C C3 5MY . . . C 2 -37.488 2.087 -3.233 1 28.13 ? C3 5MY 911 A 1 HETATM 10 O O13 5MY . . . C 2 -38.764 1.803 -3.686 1 34.84 ? O13 5MY 911 A 1 HETATM 11 P P3 5MY . . . C 2 -39.105 0.328 -4.043 1 46.91 ? P3 5MY 911 A 1 HETATM 12 O O23 5MY . . . C 2 -40.573 0.114 -3.552 1 36.02 ? O23 5MY 911 A 1 HETATM 13 O O33 5MY . . . C 2 -39.08 0.224 -5.557 1 39.28 ? O33 5MY 911 A 1 HETATM 14 O O43 5MY . . . C 2 -38.125 -0.64 -3.397 1 41.12 ? O43 5MY 911 A 1 HETATM 15 C C6 5MY . . . C 2 -35.223 3.927 -3.029 1 27.47 ? C6 5MY 911 A 1 HETATM 16 O O16 5MY . . . C 2 -33.941 4.071 -2.492 1 30.41 ? O16 5MY 911 A 1 HETATM 17 P P6 5MY . . . C 2 -32.997 5.295 -2.744 1 30.53 ? P6 5MY 911 A 1 HETATM 18 O O26 5MY . . . C 2 -31.655 4.757 -3.321 1 28.32 ? O26 5MY 911 A 1 HETATM 19 O O36 5MY . . . C 2 -33.594 6.215 -3.787 1 34.06 ? O36 5MY 911 A 1 HETATM 20 O O46 5MY . . . C 2 -32.709 6.049 -1.474 1 30.75 ? O46 5MY 911 A 1 HETATM 21 C C5 5MY . . . C 2 -36.194 3.726 -1.893 1 28.33 ? C5 5MY 911 A 1 HETATM 22 O O15 5MY . . . C 2 -36.336 4.914 -1.206 1 31.44 ? O15 5MY 911 A 1 HETATM 23 P P5 5MY . . . C 2 -35.754 5.146 0.224 1 38.97 ? P5 5MY 911 A 1 HETATM 24 O O25 5MY . . . C 2 -35.932 6.64 0.405 1 34.39 ? O25 5MY 911 A 1 HETATM 25 O O35 5MY . . . C 2 -34.223 4.822 0.219 1 30.22 ? O35 5MY 911 A 1 HETATM 26 O O45 5MY . . . C 2 -36.454 4.336 1.308 1 27.87 ? O45 5MY 911 A 1 HETATM 27 C C4 5MY . . . C 2 -37.565 3.278 -2.337 1 26.63 ? C4 5MY 911 A 1 HETATM 28 O O14 5MY . . . C 2 -38.374 2.954 -1.235 1 34.77 ? O14 5MY 911 A 1 HETATM 29 P P4 5MY . . . C 2 -39.585 3.8 -0.663 1 35.69 ? P4 5MY 911 A 1 HETATM 30 O O34 5MY . . . C 2 -40.382 4.412 -1.798 1 24.87 ? O34 5MY 911 A 1 HETATM 31 O O44 5MY . . . C 2 -40.534 2.787 0.072 1 23.87 ? O44 5MY 911 A 1 HETATM 32 O O24 5MY . . . C 2 -39.121 4.88 0.293 1 30.94 ? O24 5MY 911 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 32 #