data_6JPH # _model_server_result.job_id LS7K92nOV-4YPlyerfHuBQ _model_server_result.datetime_utc '2024-11-25 23:27:42' _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 6jph # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":802}' # _entry.id 6JPH # _exptl.entry_id 6JPH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _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 90 _cell.angle_gamma 120 _cell.entry_id 6JPH _cell.length_a 261.923 _cell.length_b 261.923 _cell.length_c 58.292 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6JPH _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 BEM BEM C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BEM BEM C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B BEM 1 B 1 BEM E 1 3XM 2 n B BEM 2 B 2 BEM E 1 3XM 2 n B BEM 3 B 3 BEM E 1 3XM # 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 B O4 BEM . B BEM 1 1_555 B C1 BEM . B BEM 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.398 ? covale ? covale2 B O4 BEM . B BEM 2 1_555 B C1 BEM . B BEM 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.403 ? metalc ? metalc1 A O PRO 125 A PRO 124 1_555 G MG MG . A MG 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? metalc ? metalc2 A OD1 ASP 133 A ASP 132 1_555 G MG MG . A MG 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? metalc ? metalc3 A OE1 GLU 288 A GLU 287 1_555 D CA CA . A CA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.644 ? metalc ? metalc4 A OE2 GLU 288 A GLU 287 1_555 D CA CA . A CA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.801 ? metalc ? metalc5 A OE1 GLU 402 A GLU 401 1_555 D CA CA . A CA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.917 ? metalc ? metalc6 A OE2 GLU 402 A GLU 401 1_555 D CA CA . A CA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? metalc ? metalc7 A ND1 HIS 408 A HIS 407 1_555 C MN MN . A MN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? metalc ? metalc8 A O HIS 408 A HIS 407 1_555 D CA CA . A CA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc9 A OD1 ASP 410 A ASP 409 1_555 D CA CA . A CA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? metalc ? metalc10 A OD1 ASP 426 A ASP 425 1_555 C MN MN . A MN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? metalc ? metalc11 A NE2 HIS 449 A HIS 448 1_555 C MN MN . A MN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc12 A OD1 ASP 475 A ASP 474 1_555 E CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? metalc ? metalc13 A O THR 476 A THR 475 1_555 E CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.468 ? metalc ? metalc14 A OD1 ASP 480 A ASP 479 1_555 E CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.663 ? metalc ? metalc15 A OD2 ASP 480 A ASP 479 1_555 E CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.721 ? metalc ? metalc16 A OE1 GLN 514 A GLN 513 1_555 E CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc17 C MN MN . A MN 801 1_555 H O HOH . A HOH 905 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.889 ? metalc ? metalc18 C MN MN . A MN 801 1_555 H O HOH . A HOH 916 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc19 C MN MN . A MN 801 1_555 H O HOH . A HOH 921 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc20 G MG MG . A MG 805 1_555 H O HOH . A HOH 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.824 ? metalc ? metalc21 G MG MG . A MG 805 1_555 H O HOH . A HOH 917 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 6JPH _atom_sites.fract_transf_matrix[1][1] 0.003818 _atom_sites.fract_transf_matrix[1][2] 0.002204 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004409 _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] 0.017155 _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 3 MN A 1 801 1 MN MN . D 4 CA A 1 802 1 CA CA . E 4 CA A 1 803 2 CA CA . F 5 ACT A 1 804 1 ACT ACT . G 6 MG A 1 805 1 MG MG . H 7 HOH A 1 901 4 HOH HOH . H 7 HOH A 2 902 72 HOH HOH . H 7 HOH A 3 903 82 HOH HOH . H 7 HOH A 4 904 81 HOH HOH . H 7 HOH A 5 905 2 HOH HOH . H 7 HOH A 6 906 46 HOH HOH . H 7 HOH A 7 907 124 HOH HOH . H 7 HOH A 8 908 75 HOH HOH . H 7 HOH A 9 909 126 HOH HOH . H 7 HOH A 10 910 29 HOH HOH . H 7 HOH A 11 911 108 HOH HOH . H 7 HOH A 12 912 89 HOH HOH . H 7 HOH A 13 913 60 HOH HOH . H 7 HOH A 14 914 144 HOH HOH . H 7 HOH A 15 915 145 HOH HOH . H 7 HOH A 16 916 1 HOH HOH . H 7 HOH A 17 917 5 HOH HOH . H 7 HOH A 18 918 19 HOH HOH . H 7 HOH A 19 919 146 HOH HOH . H 7 HOH A 20 920 101 HOH HOH . H 7 HOH A 21 921 6 HOH HOH . H 7 HOH A 22 922 9 HOH HOH . H 7 HOH A 23 923 77 HOH HOH . H 7 HOH A 24 924 73 HOH HOH . H 7 HOH A 25 925 33 HOH HOH . H 7 HOH A 26 926 54 HOH HOH . H 7 HOH A 27 927 30 HOH HOH . H 7 HOH A 28 928 3 HOH HOH . H 7 HOH A 29 929 59 HOH HOH . H 7 HOH A 30 930 120 HOH HOH . H 7 HOH A 31 931 139 HOH HOH . H 7 HOH A 32 932 138 HOH HOH . H 7 HOH A 33 933 48 HOH HOH . H 7 HOH A 34 934 95 HOH HOH . H 7 HOH A 35 935 34 HOH HOH . H 7 HOH A 36 936 25 HOH HOH . H 7 HOH A 37 937 98 HOH HOH . H 7 HOH A 38 938 92 HOH HOH . H 7 HOH A 39 939 37 HOH HOH . H 7 HOH A 40 940 38 HOH HOH . H 7 HOH A 41 941 24 HOH HOH . H 7 HOH A 42 942 22 HOH HOH . H 7 HOH A 43 943 115 HOH HOH . H 7 HOH A 44 944 135 HOH HOH . H 7 HOH A 45 945 7 HOH HOH . H 7 HOH A 46 946 68 HOH HOH . H 7 HOH A 47 947 132 HOH HOH . H 7 HOH A 48 948 15 HOH HOH . H 7 HOH A 49 949 23 HOH HOH . H 7 HOH A 50 950 80 HOH HOH . H 7 HOH A 51 951 66 HOH HOH . H 7 HOH A 52 952 13 HOH HOH . H 7 HOH A 53 953 32 HOH HOH . H 7 HOH A 54 954 52 HOH HOH . H 7 HOH A 55 955 117 HOH HOH . H 7 HOH A 56 956 88 HOH HOH . H 7 HOH A 57 957 110 HOH HOH . H 7 HOH A 58 958 74 HOH HOH . H 7 HOH A 59 959 35 HOH HOH . H 7 HOH A 60 960 57 HOH HOH . H 7 HOH A 61 961 61 HOH HOH . H 7 HOH A 62 962 21 HOH HOH . H 7 HOH A 63 963 113 HOH HOH . H 7 HOH A 64 964 78 HOH HOH . H 7 HOH A 65 965 118 HOH HOH . H 7 HOH A 66 966 140 HOH HOH . H 7 HOH A 67 967 125 HOH HOH . H 7 HOH A 68 968 100 HOH HOH . H 7 HOH A 69 969 62 HOH HOH . H 7 HOH A 70 970 20 HOH HOH . H 7 HOH A 71 971 67 HOH HOH . H 7 HOH A 72 972 14 HOH HOH . H 7 HOH A 73 973 27 HOH HOH . H 7 HOH A 74 974 109 HOH HOH . H 7 HOH A 75 975 17 HOH HOH . H 7 HOH A 76 976 63 HOH HOH . H 7 HOH A 77 977 141 HOH HOH . H 7 HOH A 78 978 8 HOH HOH . H 7 HOH A 79 979 97 HOH HOH . H 7 HOH A 80 980 39 HOH HOH . H 7 HOH A 81 981 102 HOH HOH . H 7 HOH A 82 982 18 HOH HOH . H 7 HOH A 83 983 50 HOH HOH . H 7 HOH A 84 984 53 HOH HOH . H 7 HOH A 85 985 127 HOH HOH . H 7 HOH A 86 986 55 HOH HOH . H 7 HOH A 87 987 136 HOH HOH . H 7 HOH A 88 988 69 HOH HOH . H 7 HOH A 89 989 28 HOH HOH . H 7 HOH A 90 990 119 HOH HOH . H 7 HOH A 91 991 114 HOH HOH . H 7 HOH A 92 992 36 HOH HOH . H 7 HOH A 93 993 133 HOH HOH . H 7 HOH A 94 994 71 HOH HOH . H 7 HOH A 95 995 56 HOH HOH . H 7 HOH A 96 996 83 HOH HOH . H 7 HOH A 97 997 43 HOH HOH . H 7 HOH A 98 998 84 HOH HOH . H 7 HOH A 99 999 45 HOH HOH . H 7 HOH A 100 1000 111 HOH HOH . H 7 HOH A 101 1001 129 HOH HOH . H 7 HOH A 102 1002 11 HOH HOH . H 7 HOH A 103 1003 131 HOH HOH . H 7 HOH A 104 1004 93 HOH HOH . H 7 HOH A 105 1005 130 HOH HOH . H 7 HOH A 106 1006 106 HOH HOH . H 7 HOH A 107 1007 142 HOH HOH . H 7 HOH A 108 1008 42 HOH HOH . H 7 HOH A 109 1009 103 HOH HOH . H 7 HOH A 110 1010 99 HOH HOH . H 7 HOH A 111 1011 31 HOH HOH . H 7 HOH A 112 1012 94 HOH HOH . H 7 HOH A 113 1013 58 HOH HOH . H 7 HOH A 114 1014 41 HOH HOH . H 7 HOH A 115 1015 12 HOH HOH . H 7 HOH A 116 1016 79 HOH HOH . H 7 HOH A 117 1017 87 HOH HOH . H 7 HOH A 118 1018 116 HOH HOH . H 7 HOH A 119 1019 85 HOH HOH . H 7 HOH A 120 1020 137 HOH HOH . H 7 HOH A 121 1021 16 HOH HOH . H 7 HOH A 122 1022 49 HOH HOH . H 7 HOH A 123 1023 143 HOH HOH . H 7 HOH A 124 1024 51 HOH HOH . H 7 HOH A 125 1025 121 HOH HOH . H 7 HOH A 126 1026 10 HOH HOH . H 7 HOH A 127 1027 90 HOH HOH . H 7 HOH A 128 1028 123 HOH HOH . H 7 HOH A 129 1029 70 HOH HOH . H 7 HOH A 130 1030 86 HOH HOH . H 7 HOH A 131 1031 47 HOH HOH . H 7 HOH A 132 1032 105 HOH HOH . H 7 HOH A 133 1033 122 HOH HOH . H 7 HOH A 134 1034 76 HOH HOH . H 7 HOH A 135 1035 65 HOH HOH . H 7 HOH A 136 1036 147 HOH HOH . H 7 HOH A 137 1037 134 HOH HOH . H 7 HOH A 138 1038 104 HOH HOH . H 7 HOH A 139 1039 91 HOH HOH . H 7 HOH A 140 1040 96 HOH HOH . H 7 HOH A 141 1041 64 HOH HOH . H 7 HOH A 142 1042 112 HOH HOH . H 7 HOH A 143 1043 107 HOH HOH . H 7 HOH A 144 1044 128 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 4 _atom_site.Cartn_x -124.455 _atom_site.Cartn_y 21.671 _atom_site.Cartn_z 18.849 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 54.54 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 802 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #