data_6ZNX # _model_server_result.job_id xznHP0HBZLRapiF2WQ6y4w _model_server_result.datetime_utc '2024-11-27 19:15:27' _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 6znx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":401}' # _entry.id 6ZNX # _exptl.entry_id 6ZNX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 98.2 _cell.angle_gamma 90 _cell.entry_id 6ZNX _cell.length_a 44.21 _cell.length_b 155.55 _cell.length_c 83.04 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ZNX _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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,I 1 1 D,H,L 1 3 B,F,J 2 1 C,G,K 2 2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 1_455 x-1,y,z 1 0 0 0 1 0 0 0 1 -44.21 0 0 3 'crystal symmetry operation' 2_556 -x,y+1/2,-z+1 -1 0 0 0 1 0 0 0 -1 -11.843907 77.775 82.191018 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 6ZNX _atom_sites.fract_transf_matrix[1][1] 0.022619 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003259 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006429 _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] 0.012167 _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 E 2 ADP A 1 401 401 ADP ADP . F 2 ADP B 1 401 401 ADP ADP . G 2 ADP C 1 401 401 ADP ADP . H 2 ADP D 1 401 401 ADP ADP . I 3 HOH A 1 501 170 HOH HOH . I 3 HOH A 2 502 173 HOH HOH . I 3 HOH A 3 503 38 HOH HOH . I 3 HOH A 4 504 90 HOH HOH . I 3 HOH A 5 505 41 HOH HOH . I 3 HOH A 6 506 134 HOH HOH . I 3 HOH A 7 507 139 HOH HOH . I 3 HOH A 8 508 43 HOH HOH . I 3 HOH A 9 509 30 HOH HOH . I 3 HOH A 10 510 98 HOH HOH . I 3 HOH A 11 511 172 HOH HOH . I 3 HOH A 12 512 187 HOH HOH . I 3 HOH A 13 513 192 HOH HOH . I 3 HOH A 14 514 108 HOH HOH . I 3 HOH A 15 515 193 HOH HOH . I 3 HOH A 16 516 29 HOH HOH . I 3 HOH A 17 517 124 HOH HOH . I 3 HOH A 18 518 39 HOH HOH . I 3 HOH A 19 519 111 HOH HOH . I 3 HOH A 20 520 3 HOH HOH . I 3 HOH A 21 521 123 HOH HOH . I 3 HOH A 22 522 66 HOH HOH . I 3 HOH A 23 523 109 HOH HOH . I 3 HOH A 24 524 129 HOH HOH . I 3 HOH A 25 525 190 HOH HOH . I 3 HOH A 26 526 45 HOH HOH . I 3 HOH A 27 527 68 HOH HOH . I 3 HOH A 28 528 80 HOH HOH . I 3 HOH A 29 529 159 HOH HOH . I 3 HOH A 30 530 17 HOH HOH . I 3 HOH A 31 531 191 HOH HOH . I 3 HOH A 32 532 76 HOH HOH . I 3 HOH A 33 533 143 HOH HOH . I 3 HOH A 34 534 203 HOH HOH . I 3 HOH A 35 535 67 HOH HOH . I 3 HOH A 36 536 9 HOH HOH . I 3 HOH A 37 537 37 HOH HOH . I 3 HOH A 38 538 64 HOH HOH . I 3 HOH A 39 539 102 HOH HOH . I 3 HOH A 40 540 197 HOH HOH . I 3 HOH A 41 541 97 HOH HOH . I 3 HOH A 42 542 126 HOH HOH . I 3 HOH A 43 543 6 HOH HOH . I 3 HOH A 44 544 34 HOH HOH . I 3 HOH A 45 545 169 HOH HOH . I 3 HOH A 46 546 71 HOH HOH . I 3 HOH A 47 547 195 HOH HOH . I 3 HOH A 48 548 18 HOH HOH . I 3 HOH A 49 549 47 HOH HOH . I 3 HOH A 50 550 11 HOH HOH . I 3 HOH A 51 551 127 HOH HOH . J 3 HOH B 1 501 122 HOH HOH . J 3 HOH B 2 502 77 HOH HOH . J 3 HOH B 3 503 15 HOH HOH . J 3 HOH B 4 504 177 HOH HOH . J 3 HOH B 5 505 125 HOH HOH . J 3 HOH B 6 506 153 HOH HOH . J 3 HOH B 7 507 117 HOH HOH . J 3 HOH B 8 508 19 HOH HOH . J 3 HOH B 9 509 154 HOH HOH . J 3 HOH B 10 510 152 HOH HOH . J 3 HOH B 11 511 118 HOH HOH . J 3 HOH B 12 512 70 HOH HOH . J 3 HOH B 13 513 113 HOH HOH . J 3 HOH B 14 514 132 HOH HOH . J 3 HOH B 15 515 49 HOH HOH . J 3 HOH B 16 516 14 HOH HOH . J 3 HOH B 17 517 33 HOH HOH . J 3 HOH B 18 518 212 HOH HOH . J 3 HOH B 19 519 200 HOH HOH . J 3 HOH B 20 520 106 HOH HOH . J 3 HOH B 21 521 209 HOH HOH . J 3 HOH B 22 522 55 HOH HOH . J 3 HOH B 23 523 196 HOH HOH . J 3 HOH B 24 524 181 HOH HOH . J 3 HOH B 25 525 157 HOH HOH . J 3 HOH B 26 526 35 HOH HOH . J 3 HOH B 27 527 32 HOH HOH . J 3 HOH B 28 528 79 HOH HOH . J 3 HOH B 29 529 54 HOH HOH . J 3 HOH B 30 530 162 HOH HOH . J 3 HOH B 31 531 27 HOH HOH . J 3 HOH B 32 532 60 HOH HOH . J 3 HOH B 33 533 50 HOH HOH . J 3 HOH B 34 534 74 HOH HOH . J 3 HOH B 35 535 135 HOH HOH . J 3 HOH B 36 536 25 HOH HOH . J 3 HOH B 37 537 105 HOH HOH . J 3 HOH B 38 538 147 HOH HOH . J 3 HOH B 39 539 204 HOH HOH . J 3 HOH B 40 540 36 HOH HOH . J 3 HOH B 41 541 194 HOH HOH . J 3 HOH B 42 542 163 HOH HOH . J 3 HOH B 43 543 168 HOH HOH . J 3 HOH B 44 544 166 HOH HOH . J 3 HOH B 45 545 5 HOH HOH . J 3 HOH B 46 546 16 HOH HOH . J 3 HOH B 47 547 142 HOH HOH . J 3 HOH B 48 548 78 HOH HOH . J 3 HOH B 49 549 23 HOH HOH . J 3 HOH B 50 550 91 HOH HOH . J 3 HOH B 51 551 89 HOH HOH . J 3 HOH B 52 552 121 HOH HOH . J 3 HOH B 53 553 189 HOH HOH . J 3 HOH B 54 554 202 HOH HOH . J 3 HOH B 55 555 210 HOH HOH . K 3 HOH C 1 501 138 HOH HOH . K 3 HOH C 2 502 88 HOH HOH . K 3 HOH C 3 503 207 HOH HOH . K 3 HOH C 4 504 59 HOH HOH . K 3 HOH C 5 505 186 HOH HOH . K 3 HOH C 6 506 199 HOH HOH . K 3 HOH C 7 507 101 HOH HOH . K 3 HOH C 8 508 28 HOH HOH . K 3 HOH C 9 509 4 HOH HOH . K 3 HOH C 10 510 52 HOH HOH . K 3 HOH C 11 511 211 HOH HOH . K 3 HOH C 12 512 180 HOH HOH . K 3 HOH C 13 513 119 HOH HOH . K 3 HOH C 14 514 164 HOH HOH . K 3 HOH C 15 515 120 HOH HOH . K 3 HOH C 16 516 58 HOH HOH . K 3 HOH C 17 517 42 HOH HOH . K 3 HOH C 18 518 155 HOH HOH . K 3 HOH C 19 519 133 HOH HOH . K 3 HOH C 20 520 184 HOH HOH . K 3 HOH C 21 521 213 HOH HOH . K 3 HOH C 22 522 26 HOH HOH . K 3 HOH C 23 523 61 HOH HOH . K 3 HOH C 24 524 115 HOH HOH . K 3 HOH C 25 525 93 HOH HOH . K 3 HOH C 26 526 104 HOH HOH . K 3 HOH C 27 527 73 HOH HOH . K 3 HOH C 28 528 63 HOH HOH . K 3 HOH C 29 529 174 HOH HOH . K 3 HOH C 30 530 112 HOH HOH . K 3 HOH C 31 531 140 HOH HOH . K 3 HOH C 32 532 144 HOH HOH . K 3 HOH C 33 533 24 HOH HOH . K 3 HOH C 34 534 114 HOH HOH . K 3 HOH C 35 535 75 HOH HOH . K 3 HOH C 36 536 31 HOH HOH . K 3 HOH C 37 537 95 HOH HOH . K 3 HOH C 38 538 130 HOH HOH . K 3 HOH C 39 539 92 HOH HOH . K 3 HOH C 40 540 83 HOH HOH . K 3 HOH C 41 541 7 HOH HOH . K 3 HOH C 42 542 103 HOH HOH . L 3 HOH D 1 501 51 HOH HOH . L 3 HOH D 2 502 81 HOH HOH . L 3 HOH D 3 503 156 HOH HOH . L 3 HOH D 4 504 141 HOH HOH . L 3 HOH D 5 505 85 HOH HOH . L 3 HOH D 6 506 171 HOH HOH . L 3 HOH D 7 507 84 HOH HOH . L 3 HOH D 8 508 131 HOH HOH . L 3 HOH D 9 509 46 HOH HOH . L 3 HOH D 10 510 128 HOH HOH . L 3 HOH D 11 511 185 HOH HOH . L 3 HOH D 12 512 110 HOH HOH . L 3 HOH D 13 513 107 HOH HOH . L 3 HOH D 14 514 208 HOH HOH . L 3 HOH D 15 515 182 HOH HOH . L 3 HOH D 16 516 69 HOH HOH . L 3 HOH D 17 517 94 HOH HOH . L 3 HOH D 18 518 148 HOH HOH . L 3 HOH D 19 519 48 HOH HOH . L 3 HOH D 20 520 65 HOH HOH . L 3 HOH D 21 521 44 HOH HOH . L 3 HOH D 22 522 12 HOH HOH . L 3 HOH D 23 523 8 HOH HOH . L 3 HOH D 24 524 87 HOH HOH . L 3 HOH D 25 525 40 HOH HOH . L 3 HOH D 26 526 136 HOH HOH . L 3 HOH D 27 527 137 HOH HOH . L 3 HOH D 28 528 145 HOH HOH . L 3 HOH D 29 529 183 HOH HOH . L 3 HOH D 30 530 62 HOH HOH . L 3 HOH D 31 531 167 HOH HOH . L 3 HOH D 32 532 57 HOH HOH . L 3 HOH D 33 533 20 HOH HOH . L 3 HOH D 34 534 72 HOH HOH . L 3 HOH D 35 535 151 HOH HOH . L 3 HOH D 36 536 100 HOH HOH . L 3 HOH D 37 537 82 HOH HOH . L 3 HOH D 38 538 165 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 P PB ADP . . . F 2 8.788 -31.213 14.535 1 38.84 ? PB ADP 401 B 1 HETATM 2 O O1B ADP . . . F 2 9.898 -31.583 13.59 1 36.31 ? O1B ADP 401 B 1 HETATM 3 O O2B ADP . . . F 2 9.159 -31.485 15.959 1 39.4 ? O2B ADP 401 B 1 HETATM 4 O O3B ADP . . . F 2 7.452 -31.846 14.132 1 41.83 ? O3B ADP 401 B 1 HETATM 5 P PA ADP . . . F 2 8.24 -28.488 15.552 1 35.73 ? PA ADP 401 B 1 HETATM 6 O O1A ADP . . . F 2 9.58 -28.115 16.133 1 34.99 ? O1A ADP 401 B 1 HETATM 7 O O2A ADP . . . F 2 7.147 -28.927 16.459 1 34.51 ? O2A ADP 401 B 1 HETATM 8 O O3A ADP . . . F 2 8.498 -29.625 14.443 1 36.05 ? O3A ADP 401 B 1 HETATM 9 O O5' ADP . . . F 2 7.679 -27.269 14.678 1 33.39 ? O5' ADP 401 B 1 HETATM 10 C C5' ADP . . . F 2 8.291 -26.966 13.405 1 30.98 ? C5' ADP 401 B 1 HETATM 11 C C4' ADP . . . F 2 7.944 -25.547 13.012 1 30.42 ? C4' ADP 401 B 1 HETATM 12 O O4' ADP . . . F 2 6.546 -25.461 12.642 1 27.4 ? O4' ADP 401 B 1 HETATM 13 C C3' ADP . . . F 2 8.126 -24.48 14.095 1 29.52 ? C3' ADP 401 B 1 HETATM 14 O O3' ADP . . . F 2 9.501 -24.107 14.124 1 27.01 ? O3' ADP 401 B 1 HETATM 15 C C2' ADP . . . F 2 7.146 -23.41 13.603 1 28.86 ? C2' ADP 401 B 1 HETATM 16 O O2' ADP . . . F 2 7.616 -22.657 12.506 1 27.82 ? O2' ADP 401 B 1 HETATM 17 C C1' ADP . . . F 2 5.981 -24.255 13.089 1 28.69 ? C1' ADP 401 B 1 HETATM 18 N N9 ADP . . . F 2 4.954 -24.553 14.082 1 28.36 ? N9 ADP 401 B 1 HETATM 19 C C8 ADP . . . F 2 4.77 -25.737 14.758 1 28.41 ? C8 ADP 401 B 1 HETATM 20 N N7 ADP . . . F 2 3.773 -25.702 15.604 1 27.44 ? N7 ADP 401 B 1 HETATM 21 C C5 ADP . . . F 2 3.269 -24.412 15.49 1 27.68 ? C5 ADP 401 B 1 HETATM 22 C C6 ADP . . . F 2 2.197 -23.745 16.122 1 28.05 ? C6 ADP 401 B 1 HETATM 23 N N6 ADP . . . F 2 1.431 -24.3 17.056 1 29.39 ? N6 ADP 401 B 1 HETATM 24 N N1 ADP . . . F 2 1.949 -22.458 15.764 1 26.74 ? N1 ADP 401 B 1 HETATM 25 C C2 ADP . . . F 2 2.733 -21.895 14.84 1 26.98 ? C2 ADP 401 B 1 HETATM 26 N N3 ADP . . . F 2 3.759 -22.431 14.174 1 29.79 ? N3 ADP 401 B 1 HETATM 27 C C4 ADP . . . F 2 3.984 -23.701 14.547 1 26.57 ? C4 ADP 401 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #