data_5MWL # _model_server_result.job_id rYcYASQpls1rN1o7P4YwsQ _model_server_result.datetime_utc '2024-11-28 00:37:10' _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 5mwl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 5MWL # _exptl.entry_id 5MWL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 580.055 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description MYO-INOSITOL-(1,3,4,5,6)-PENTAKISPHOSPHATE _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 106.53 _cell.angle_gamma 90 _cell.entry_id 5MWL _cell.length_a 64.623 _cell.length_b 140.758 _cell.length_c 68.662 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5MWL _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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_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,H,K 1 1 B,I,J,L 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _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 metalc ? metalc1 A ND1 HIS 128 A HIS 125 1_555 F ZN ZN . A ZN 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? metalc ? metalc2 A NE2 HIS 132 A HIS 129 1_555 F ZN ZN . A ZN 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? metalc ? metalc3 A SG CYS 162 A CYS 159 1_555 E ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc4 A SG CYS 165 A CYS 162 1_555 E ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc5 A SG CYS 184 A CYS 181 1_555 E ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.971 ? metalc ? metalc6 A SG CYS 294 A CYS 291 1_555 E ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? metalc ? metalc7 A OG SER 405 A SER 402 1_555 H MG MG . A MG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.582 ? metalc ? metalc8 A SG CYS 413 A CYS 410 1_555 F ZN ZN . A ZN 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? metalc ? metalc9 A OD2 ASP 440 A ASP 437 1_555 H MG MG . A MG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc10 C O1B ATP . A ATP 501 1_555 G MG MG . A MG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.672 ? metalc ? metalc11 C O2A ATP . A ATP 501 1_555 H MG MG . A MG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.723 ? metalc ? metalc12 D O43 5MY . A 5MY 502 1_555 G MG MG . A MG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? metalc ? metalc13 F ZN ZN . A ZN 504 1_555 K O HOH . A HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc14 B ND1 HIS 128 B HIS 125 1_555 J ZN ZN . B ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? metalc ? metalc15 B NE2 HIS 132 B HIS 129 1_555 J ZN ZN . B ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc16 B SG CYS 162 B CYS 159 1_555 I ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.479 ? metalc ? metalc17 B SG CYS 165 B CYS 162 1_555 I ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc18 B SG CYS 184 B CYS 181 1_555 I ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? metalc ? metalc19 B SG CYS 294 B CYS 291 1_555 I ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.479 ? metalc ? metalc20 B SG CYS 413 B CYS 410 1_555 J ZN ZN . B ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? metalc ? metalc21 J ZN ZN . B ZN 502 1_555 L O HOH . B HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? # _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 5MWL _atom_sites.fract_transf_matrix[1][1] 0.015474 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004593 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007104 _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] 0.015192 _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 ATP A 1 501 600 ATP ATP . D 3 5MY A 1 502 500 5MY 5MY . E 4 ZN A 1 503 3 ZN ZN . F 4 ZN A 1 504 4 ZN ZN . G 5 MG A 1 505 1 MG MG . H 5 MG A 1 506 2 MG MG . I 4 ZN B 1 501 1 ZN ZN . J 4 ZN B 1 502 2 ZN ZN . K 6 HOH A 1 601 1 HOH HOH . K 6 HOH A 2 602 3 HOH HOH . L 6 HOH B 1 601 2 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 O O31 5MY . . . D 3 80.108 6.064 32.147 1 174.78 ? O31 5MY 502 A 1 HETATM 2 P P1 5MY . . . D 3 78.773 6.544 31.626 1 171.52 ? P1 5MY 502 A 1 HETATM 3 O O21 5MY . . . D 3 77.712 6.7 32.69 1 170.25 ? O21 5MY 502 A 1 HETATM 4 O O41 5MY . . . D 3 78.882 7.724 30.689 1 168.34 ? O41 5MY 502 A 1 HETATM 5 O O11 5MY . . . D 3 78.223 5.325 30.72 1 165.33 ? O11 5MY 502 A 1 HETATM 6 C C1 5MY . . . D 3 78.656 5.098 29.375 1 159.28 ? C1 5MY 502 A 1 HETATM 7 C C2 5MY . . . D 3 77.645 5.717 28.41 1 157.55 ? C2 5MY 502 A 1 HETATM 8 O O12 5MY . . . D 3 76.341 5.216 28.723 1 152.63 ? O12 5MY 502 A 1 HETATM 9 C C3 5MY . . . D 3 77.987 5.473 26.933 1 159.24 ? C3 5MY 502 A 1 HETATM 10 O O13 5MY . . . D 3 76.851 5.804 26.122 1 161.5 ? O13 5MY 502 A 1 HETATM 11 P P3 5MY . . . D 3 76.834 6.974 25.007 1 161.12 ? P3 5MY 502 A 1 HETATM 12 O O23 5MY . . . D 3 77.395 8.185 25.707 1 157.59 ? O23 5MY 502 A 1 HETATM 13 O O33 5MY . . . D 3 77.707 6.451 23.891 1 163.97 ? O33 5MY 502 A 1 HETATM 14 O O43 5MY . . . D 3 75.374 7.097 24.637 1 163.03 ? O43 5MY 502 A 1 HETATM 15 C C6 5MY . . . D 3 78.815 3.602 29.102 1 157.33 ? C6 5MY 502 A 1 HETATM 16 O O16 5MY . . . D 3 79.746 3.009 30.024 1 155.1 ? O16 5MY 502 A 1 HETATM 17 P P6 5MY . . . D 3 79.37 2.322 31.445 1 148.68 ? P6 5MY 502 A 1 HETATM 18 O O26 5MY . . . D 3 77.862 2.269 31.509 1 151.45 ? O26 5MY 502 A 1 HETATM 19 O O36 5MY . . . D 3 80.016 0.959 31.393 1 150.82 ? O36 5MY 502 A 1 HETATM 20 O O46 5MY . . . D 3 79.998 3.23 32.479 1 145.52 ? O46 5MY 502 A 1 HETATM 21 C C5 5MY . . . D 3 79.314 3.395 27.672 1 156.02 ? C5 5MY 502 A 1 HETATM 22 O O15 5MY . . . D 3 79.398 1.987 27.414 1 149.99 ? O15 5MY 502 A 1 HETATM 23 P P5 5MY . . . D 3 80.775 1.143 27.361 1 141.62 ? P5 5MY 502 A 1 HETATM 24 O O25 5MY . . . D 3 81.852 2.147 27.021 1 140.01 ? O25 5MY 502 A 1 HETATM 25 O O35 5MY . . . D 3 80.519 0.106 26.294 1 142.75 ? O35 5MY 502 A 1 HETATM 26 O O45 5MY . . . D 3 80.913 0.534 28.734 1 145.53 ? O45 5MY 502 A 1 HETATM 27 C C4 5MY . . . D 3 78.402 4.031 26.615 1 158.12 ? C4 5MY 502 A 1 HETATM 28 O O14 5MY . . . D 3 79.071 4.044 25.346 1 157.38 ? O14 5MY 502 A 1 HETATM 29 P P4 5MY . . . D 3 78.691 3.114 24.076 1 149.59 ? P4 5MY 502 A 1 HETATM 30 O O34 5MY . . . D 3 78.98 3.994 22.881 1 149.04 ? O34 5MY 502 A 1 HETATM 31 O O44 5MY . . . D 3 79.632 1.945 24.211 1 150.17 ? O44 5MY 502 A 1 HETATM 32 O O24 5MY . . . D 3 77.238 2.729 24.23 1 149.61 ? O24 5MY 502 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 237 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #