data_8XO0 # _model_server_result.job_id F5WgrSKnVFChhxeH8LeOYw _model_server_result.datetime_utc '2024-11-30 17:48:00' _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 8xo0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"JA","auth_seq_id":401}' # _entry.id 8XO0 # _exptl.entry_id 8XO0 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 745.421 _entity.id 29 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 23-meric _pdbx_struct_assembly.oligomeric_count 23 _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,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA _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 ? _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 29 _struct_asym.id JA _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 M SG CYS 24 S CYS 24 1_555 M SG CYS 58 S CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 Q SG CYS 46 X CYS 46 1_555 Q SG CYS 56 X CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 Q SG CYS 88 X CYS 88 1_555 Q SG CYS 100 X CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? metalc ? metalc1 B SG CYS 99 B CYS 99 1_555 X FE1 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.591 ? metalc ? metalc2 B SG CYS 100 B CYS 100 1_555 X FE4 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? metalc ? metalc3 B SG CYS 194 B CYS 194 1_555 X FE3 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? metalc ? metalc4 E SG CYS 134 E CYS 134 1_555 Z FE1 FES . E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.909 ? metalc ? metalc5 E SG CYS 139 E CYS 139 1_555 Z FE1 FES . E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.981 ? metalc ? metalc6 F SG CYS 385 F CYS 385 1_555 BA FE3 SF4 . F SF4 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? metalc ? metalc7 G SG CYS 75 G CYS 75 1_555 EA FE1 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.922 ? metalc ? metalc8 G SG CYS 92 G CYS 92 1_555 EA FE2 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.664 ? metalc ? metalc9 G NE2 HIS 124 G HIS 124 1_555 CA FE1 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.959 ? metalc ? metalc10 G SG CYS 128 G CYS 128 1_555 CA FE3 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? metalc ? metalc11 G SG CYS 137 G CYS 137 1_555 CA FE4 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc12 G SG CYS 179 G CYS 179 1_555 DA FE3 SF4 . G SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.936 ? metalc ? metalc13 G SG CYS 182 G CYS 182 1_555 DA FE2 SF4 . G SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.191 ? metalc ? metalc14 G SG CYS 226 G CYS 226 1_555 DA FE1 SF4 . G SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.926 ? metalc ? metalc15 I SG CYS 116 I CYS 116 1_555 IA FE1 SF4 . I SF4 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.929 ? metalc ? metalc16 I SG CYS 119 I CYS 119 1_555 IA FE2 SF4 . I SF4 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.911 ? metalc ? metalc17 I SG CYS 123 I CYS 123 1_555 HA FE1 SF4 . I SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? metalc ? metalc18 I SG CYS 152 I CYS 152 1_555 HA FE2 SF4 . I SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc19 I SG CYS 155 I CYS 155 1_555 HA FE4 SF4 . I SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? metalc ? metalc20 I SG CYS 158 I CYS 158 1_555 HA FE3 SF4 . I SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? # _chem_comp.formula 'C21 H30 N7 O17 P3' _chem_comp.formula_weight 745.421 _chem_comp.id NDP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 PA O1A NDP doub 680 n n PA O2A NDP sing 681 n n PA O5B NDP sing 682 n n PA O3 NDP sing 683 n n O2A HOA2 NDP sing 684 n n O5B C5B NDP sing 685 n n C5B C4B NDP sing 686 n n C5B H51A NDP sing 687 n n C5B H52A NDP sing 688 n n C4B O4B NDP sing 689 n n C4B C3B NDP sing 690 n n C4B H4B NDP sing 691 n n O4B C1B NDP sing 692 n n C3B O3B NDP sing 693 n n C3B C2B NDP sing 694 n n C3B H3B NDP sing 695 n n O3B HO3A NDP sing 696 n n C2B O2B NDP sing 697 n n C2B C1B NDP sing 698 n n C2B H2B NDP sing 699 n n O2B P2B NDP sing 700 n n C1B N9A NDP sing 701 n n C1B H1B NDP sing 702 n n N9A C8A NDP sing 703 n y N9A C4A NDP sing 704 n y C8A N7A NDP doub 705 n y C8A H8A NDP sing 706 n n N7A C5A NDP sing 707 n y C5A C6A NDP sing 708 n y C5A C4A NDP doub 709 n y C6A N6A NDP sing 710 n n C6A N1A NDP doub 711 n y N6A H61A NDP sing 712 n n N6A H62A NDP sing 713 n n N1A C2A NDP sing 714 n y C2A N3A NDP doub 715 n y C2A H2A NDP sing 716 n n N3A C4A NDP sing 717 n y O3 PN NDP sing 718 n n PN O1N NDP doub 719 n n PN O2N NDP sing 720 n n PN O5D NDP sing 721 n n O2N H21N NDP sing 722 n n O5D C5D NDP sing 723 n n C5D C4D NDP sing 724 n n C5D H51N NDP sing 725 n n C5D H52N NDP sing 726 n n C4D O4D NDP sing 727 n n C4D C3D NDP sing 728 n n C4D H4D NDP sing 729 n n O4D C1D NDP sing 730 n n C3D O3D NDP sing 731 n n C3D C2D NDP sing 732 n n C3D H3D NDP sing 733 n n O3D HO3N NDP sing 734 n n C2D O2D NDP sing 735 n n C2D C1D NDP sing 736 n n C2D H2D NDP sing 737 n n O2D HO2N NDP sing 738 n n C1D N1N NDP sing 739 n n C1D H1D NDP sing 740 n n N1N C2N NDP sing 741 n n N1N C6N NDP sing 742 n n C2N C3N NDP doub 743 n n C2N H2N NDP sing 744 n n C3N C7N NDP sing 745 n n C3N C4N NDP sing 746 n n C7N O7N NDP doub 747 n n C7N N7N NDP sing 748 n n N7N H71N NDP sing 749 n n N7N H72N NDP sing 750 n n C4N C5N NDP sing 751 n n C4N H41N NDP sing 752 n n C4N H42N NDP sing 753 n n C5N C6N NDP doub 754 n n C5N H5N NDP sing 755 n n C6N H6N NDP sing 756 n n P2B O1X NDP doub 757 n n P2B O2X NDP sing 758 n n P2B O3X NDP sing 759 n n O2X HOP2 NDP sing 760 n n O3X HOP3 NDP sing 761 n n # _atom_sites.entry_id 8XO0 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 X 24 SF4 B 1 301 236 SF4 SF4 . Y 25 PC1 B 1 302 406 PC1 PC1 . Z 26 FES E 1 301 332 FES FES . AA 27 FMN F 1 501 521 FMN FMN . BA 24 SF4 F 1 502 522 SF4 SF4 . CA 24 SF4 G 1 801 824 SF4 SF4 . DA 24 SF4 G 1 802 825 SF4 SF4 . EA 26 FES G 1 803 826 FES FES . FA 28 3PE H 1 401 403 3PE 3PE . GA 25 PC1 I 1 301 404 PC1 PC1 . HA 24 SF4 I 1 302 235 SF4 SF4 . IA 24 SF4 I 1 303 236 SF4 SF4 . JA 29 NDP P 1 401 536 NDP NDP . KA 30 CDL q 1 201 405 CDL CDL . # 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 P PA NDP . . . JA 29 245.894 171.626 205.055 1 42.05 0 PA NDP 401 P 1 HETATM 2 O O1A NDP . . . JA 29 245.244 171.177 203.774 1 42.05 -1 O1A NDP 401 P 1 HETATM 3 O O2A NDP . . . JA 29 246.339 173.058 205.213 1 42.05 0 O2A NDP 401 P 1 HETATM 4 O O5B NDP . . . JA 29 247.146 170.664 205.342 1 42.05 0 O5B NDP 401 P 1 HETATM 5 C C5B NDP . . . JA 29 247.626 170.524 206.676 1 42.05 0 C5B NDP 401 P 1 HETATM 6 C C4B NDP . . . JA 29 249.058 170.015 206.66 1 42.05 0 C4B NDP 401 P 1 HETATM 7 O O4B NDP . . . JA 29 249.12 168.644 206.258 1 42.05 0 O4B NDP 401 P 1 HETATM 8 C C3B NDP . . . JA 29 249.906 170.8 205.679 1 42.05 0 C3B NDP 401 P 1 HETATM 9 O O3B NDP . . . JA 29 251.032 171.353 206.351 1 42.05 0 O3B NDP 401 P 1 HETATM 10 C C2B NDP . . . JA 29 250.35 169.796 204.646 1 42.05 0 C2B NDP 401 P 1 HETATM 11 O O2B NDP . . . JA 29 251.687 170.033 204.228 1 42.05 0 O2B NDP 401 P 1 HETATM 12 C C1B NDP . . . JA 29 250.216 168.472 205.361 1 42.05 0 C1B NDP 401 P 1 HETATM 13 N N9A NDP . . . JA 29 249.953 167.387 204.396 1 42.05 0 N9A NDP 401 P 1 HETATM 14 C C8A NDP . . . JA 29 248.838 167.227 203.663 1 42.05 0 C8A NDP 401 P 1 HETATM 15 N N7A NDP . . . JA 29 248.933 166.124 202.878 1 42.05 0 N7A NDP 401 P 1 HETATM 16 C C5A NDP . . . JA 29 250.133 165.566 203.105 1 42.05 0 C5A NDP 401 P 1 HETATM 17 C C6A NDP . . . JA 29 250.874 164.382 202.612 1 42.05 0 C6A NDP 401 P 1 HETATM 18 N N6A NDP . . . JA 29 250.333 163.553 201.687 1 42.05 0 N6A NDP 401 P 1 HETATM 19 N N1A NDP . . . JA 29 252.106 164.158 203.115 1 42.05 0 N1A NDP 401 P 1 HETATM 20 C C2A NDP . . . JA 29 252.653 164.972 204.033 1 42.05 0 C2A NDP 401 P 1 HETATM 21 N N3A NDP . . . JA 29 252.039 166.059 204.524 1 42.05 0 N3A NDP 401 P 1 HETATM 22 C C4A NDP . . . JA 29 250.8 166.404 204.107 1 42.05 0 C4A NDP 401 P 1 HETATM 23 O O3 NDP . . . JA 29 244.916 171.246 206.274 1 42.05 0 O3 NDP 401 P 1 HETATM 24 P PN NDP . . . JA 29 244.557 172.32 207.413 1 42.05 0 PN NDP 401 P 1 HETATM 25 O O1N NDP . . . JA 29 245.832 172.961 207.905 1 42.05 -1 O1N NDP 401 P 1 HETATM 26 O O2N NDP . . . JA 29 243.425 173.181 206.909 1 42.05 0 O2N NDP 401 P 1 HETATM 27 O O5D NDP . . . JA 29 243.99 171.372 208.58 1 42.05 0 O5D NDP 401 P 1 HETATM 28 C C5D NDP . . . JA 29 244.887 170.724 209.476 1 42.05 0 C5D NDP 401 P 1 HETATM 29 C C4D NDP . . . JA 29 244.24 169.433 209.948 1 42.05 0 C4D NDP 401 P 1 HETATM 30 O O4D NDP . . . JA 29 243.012 169.718 210.613 1 42.05 0 O4D NDP 401 P 1 HETATM 31 C C3D NDP . . . JA 29 243.924 168.516 208.781 1 42.05 0 C3D NDP 401 P 1 HETATM 32 O O3D NDP . . . JA 29 244.673 167.309 208.906 1 42.05 0 O3D NDP 401 P 1 HETATM 33 C C2D NDP . . . JA 29 242.441 168.239 208.852 1 42.05 0 C2D NDP 401 P 1 HETATM 34 O O2D NDP . . . JA 29 242.173 166.836 208.818 1 42.05 0 O2D NDP 401 P 1 HETATM 35 C C1D NDP . . . JA 29 241.981 168.834 210.168 1 42.05 0 C1D NDP 401 P 1 HETATM 36 N N1N NDP . . . JA 29 240.736 169.579 209.996 1 42.05 0 N1N NDP 401 P 1 HETATM 37 C C2N NDP . . . JA 29 240.698 170.613 209.154 1 42.05 0 C2N NDP 401 P 1 HETATM 38 C C3N NDP . . . JA 29 239.538 171.349 208.961 1 42.05 0 C3N NDP 401 P 1 HETATM 39 C C7N NDP . . . JA 29 239.548 172.499 208.002 1 42.05 0 C7N NDP 401 P 1 HETATM 40 O O7N NDP . . . JA 29 239.193 172.321 206.85 1 42.05 0 O7N NDP 401 P 1 HETATM 41 N N7N NDP . . . JA 29 239.939 173.693 208.439 1 42.05 0 N7N NDP 401 P 1 HETATM 42 C C4N NDP . . . JA 29 238.269 171.021 209.701 1 42.05 0 C4N NDP 401 P 1 HETATM 43 C C5N NDP . . . JA 29 238.451 169.882 210.585 1 42.05 0 C5N NDP 401 P 1 HETATM 44 C C6N NDP . . . JA 29 239.661 169.214 210.696 1 42.05 0 C6N NDP 401 P 1 HETATM 45 P P2B NDP . . . JA 29 251.998 170.157 202.657 1 42.05 0 P2B NDP 401 P 1 HETATM 46 O O1X NDP . . . JA 29 250.853 170.988 202.14 1 42.05 0 O1X NDP 401 P 1 HETATM 47 O O2X NDP . . . JA 29 252.001 168.726 202.181 1 42.05 -1 O2X NDP 401 P 1 HETATM 48 O O3X NDP . . . JA 29 253.345 170.835 202.59 1 42.05 0 O3X NDP 401 P 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 50 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 48 #