data_5ZI2 # _model_server_result.job_id jycpUOB43JT0MEpTnQjzYg _model_server_result.datetime_utc '2024-11-26 00:34:46' _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 5zi2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":402}' # _entry.id 5ZI2 # _exptl.entry_id 5ZI2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 99.88 _cell.angle_gamma 90 _cell.entry_id 5ZI2 _cell.length_a 45.099 _cell.length_b 92.559 _cell.length_c 82.114 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ZI2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,I _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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 5ZI2 _atom_sites.fract_transf_matrix[1][1] 0.022173 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003864 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010804 _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] 0.012362 _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 GOL A 1 401 1 GOL GOL . D 3 NAD A 1 402 1 NAD NAD . E 4 CL A 1 403 2 CL CL . F 4 CL B 1 401 1 CL CL . G 5 ADP B 1 402 1 ADP ADP . H 6 HOH A 1 501 83 HOH HOH . H 6 HOH A 2 502 98 HOH HOH . H 6 HOH A 3 503 149 HOH HOH . H 6 HOH A 4 504 101 HOH HOH . H 6 HOH A 5 505 203 HOH HOH . H 6 HOH A 6 506 30 HOH HOH . H 6 HOH A 7 507 29 HOH HOH . H 6 HOH A 8 508 160 HOH HOH . H 6 HOH A 9 509 95 HOH HOH . H 6 HOH A 10 510 85 HOH HOH . H 6 HOH A 11 511 6 HOH HOH . H 6 HOH A 12 512 84 HOH HOH . H 6 HOH A 13 513 39 HOH HOH . H 6 HOH A 14 514 35 HOH HOH . H 6 HOH A 15 515 92 HOH HOH . H 6 HOH A 16 516 193 HOH HOH . H 6 HOH A 17 517 76 HOH HOH . H 6 HOH A 18 518 161 HOH HOH . H 6 HOH A 19 519 122 HOH HOH . H 6 HOH A 20 520 19 HOH HOH . H 6 HOH A 21 521 69 HOH HOH . H 6 HOH A 22 522 194 HOH HOH . H 6 HOH A 23 523 156 HOH HOH . H 6 HOH A 24 524 42 HOH HOH . H 6 HOH A 25 525 90 HOH HOH . H 6 HOH A 26 526 70 HOH HOH . H 6 HOH A 27 527 123 HOH HOH . H 6 HOH A 28 528 132 HOH HOH . H 6 HOH A 29 529 138 HOH HOH . H 6 HOH A 30 530 37 HOH HOH . H 6 HOH A 31 531 22 HOH HOH . H 6 HOH A 32 532 137 HOH HOH . H 6 HOH A 33 533 58 HOH HOH . H 6 HOH A 34 534 196 HOH HOH . H 6 HOH A 35 535 188 HOH HOH . H 6 HOH A 36 536 89 HOH HOH . H 6 HOH A 37 537 94 HOH HOH . H 6 HOH A 38 538 26 HOH HOH . H 6 HOH A 39 539 62 HOH HOH . H 6 HOH A 40 540 155 HOH HOH . H 6 HOH A 41 541 48 HOH HOH . H 6 HOH A 42 542 141 HOH HOH . H 6 HOH A 43 543 1 HOH HOH . H 6 HOH A 44 544 46 HOH HOH . H 6 HOH A 45 545 133 HOH HOH . H 6 HOH A 46 546 67 HOH HOH . H 6 HOH A 47 547 192 HOH HOH . H 6 HOH A 48 548 159 HOH HOH . H 6 HOH A 49 549 190 HOH HOH . H 6 HOH A 50 550 154 HOH HOH . H 6 HOH A 51 551 162 HOH HOH . H 6 HOH A 52 552 130 HOH HOH . H 6 HOH A 53 553 97 HOH HOH . H 6 HOH A 54 554 129 HOH HOH . H 6 HOH A 55 555 145 HOH HOH . H 6 HOH A 56 556 71 HOH HOH . H 6 HOH A 57 557 78 HOH HOH . H 6 HOH A 58 558 53 HOH HOH . H 6 HOH A 59 559 148 HOH HOH . H 6 HOH A 60 560 93 HOH HOH . H 6 HOH A 61 561 87 HOH HOH . H 6 HOH A 62 562 189 HOH HOH . H 6 HOH A 63 563 80 HOH HOH . H 6 HOH A 64 564 24 HOH HOH . H 6 HOH A 65 565 125 HOH HOH . H 6 HOH A 66 566 134 HOH HOH . H 6 HOH A 67 567 63 HOH HOH . H 6 HOH A 68 568 10 HOH HOH . H 6 HOH A 69 569 143 HOH HOH . H 6 HOH A 70 570 5 HOH HOH . H 6 HOH A 71 571 121 HOH HOH . H 6 HOH A 72 572 124 HOH HOH . H 6 HOH A 73 573 99 HOH HOH . H 6 HOH A 74 574 191 HOH HOH . H 6 HOH A 75 575 25 HOH HOH . H 6 HOH A 76 576 126 HOH HOH . H 6 HOH A 77 577 140 HOH HOH . H 6 HOH A 78 578 74 HOH HOH . H 6 HOH A 79 579 100 HOH HOH . H 6 HOH A 80 580 197 HOH HOH . H 6 HOH A 81 581 31 HOH HOH . H 6 HOH A 82 582 45 HOH HOH . H 6 HOH A 83 583 88 HOH HOH . H 6 HOH A 84 584 202 HOH HOH . H 6 HOH A 85 585 7 HOH HOH . H 6 HOH A 86 586 77 HOH HOH . H 6 HOH A 87 587 144 HOH HOH . H 6 HOH A 88 588 146 HOH HOH . H 6 HOH A 89 589 96 HOH HOH . H 6 HOH A 90 590 79 HOH HOH . H 6 HOH A 91 591 81 HOH HOH . H 6 HOH A 92 592 158 HOH HOH . H 6 HOH A 93 593 82 HOH HOH . H 6 HOH A 94 594 75 HOH HOH . H 6 HOH A 95 595 175 HOH HOH . H 6 HOH A 96 596 50 HOH HOH . H 6 HOH A 97 597 142 HOH HOH . H 6 HOH A 98 598 40 HOH HOH . H 6 HOH A 99 599 147 HOH HOH . H 6 HOH A 100 600 91 HOH HOH . H 6 HOH A 101 601 157 HOH HOH . H 6 HOH A 102 602 153 HOH HOH . H 6 HOH A 103 603 102 HOH HOH . H 6 HOH A 104 604 73 HOH HOH . H 6 HOH A 105 605 86 HOH HOH . H 6 HOH A 106 606 187 HOH HOH . I 6 HOH B 1 501 104 HOH HOH . I 6 HOH B 2 502 181 HOH HOH . I 6 HOH B 3 503 170 HOH HOH . I 6 HOH B 4 504 115 HOH HOH . I 6 HOH B 5 505 173 HOH HOH . I 6 HOH B 6 506 103 HOH HOH . I 6 HOH B 7 507 36 HOH HOH . I 6 HOH B 8 508 113 HOH HOH . I 6 HOH B 9 509 44 HOH HOH . I 6 HOH B 10 510 109 HOH HOH . I 6 HOH B 11 511 4 HOH HOH . I 6 HOH B 12 512 18 HOH HOH . I 6 HOH B 13 513 152 HOH HOH . I 6 HOH B 14 514 55 HOH HOH . I 6 HOH B 15 515 120 HOH HOH . I 6 HOH B 16 516 171 HOH HOH . I 6 HOH B 17 517 27 HOH HOH . I 6 HOH B 18 518 163 HOH HOH . I 6 HOH B 19 519 108 HOH HOH . I 6 HOH B 20 520 34 HOH HOH . I 6 HOH B 21 521 14 HOH HOH . I 6 HOH B 22 522 178 HOH HOH . I 6 HOH B 23 523 51 HOH HOH . I 6 HOH B 24 524 165 HOH HOH . I 6 HOH B 25 525 174 HOH HOH . I 6 HOH B 26 526 117 HOH HOH . I 6 HOH B 27 527 112 HOH HOH . I 6 HOH B 28 528 139 HOH HOH . I 6 HOH B 29 529 9 HOH HOH . I 6 HOH B 30 530 184 HOH HOH . I 6 HOH B 31 531 111 HOH HOH . I 6 HOH B 32 532 8 HOH HOH . I 6 HOH B 33 533 16 HOH HOH . I 6 HOH B 34 534 185 HOH HOH . I 6 HOH B 35 535 128 HOH HOH . I 6 HOH B 36 536 116 HOH HOH . I 6 HOH B 37 537 43 HOH HOH . I 6 HOH B 38 538 57 HOH HOH . I 6 HOH B 39 539 201 HOH HOH . I 6 HOH B 40 540 41 HOH HOH . I 6 HOH B 41 541 56 HOH HOH . I 6 HOH B 42 542 33 HOH HOH . I 6 HOH B 43 543 119 HOH HOH . I 6 HOH B 44 544 186 HOH HOH . I 6 HOH B 45 545 38 HOH HOH . I 6 HOH B 46 546 131 HOH HOH . I 6 HOH B 47 547 21 HOH HOH . I 6 HOH B 48 548 66 HOH HOH . I 6 HOH B 49 549 11 HOH HOH . I 6 HOH B 50 550 28 HOH HOH . I 6 HOH B 51 551 182 HOH HOH . I 6 HOH B 52 552 12 HOH HOH . I 6 HOH B 53 553 172 HOH HOH . I 6 HOH B 54 554 135 HOH HOH . I 6 HOH B 55 555 151 HOH HOH . I 6 HOH B 56 556 61 HOH HOH . I 6 HOH B 57 557 136 HOH HOH . I 6 HOH B 58 558 105 HOH HOH . I 6 HOH B 59 559 169 HOH HOH . I 6 HOH B 60 560 65 HOH HOH . I 6 HOH B 61 561 20 HOH HOH . I 6 HOH B 62 562 64 HOH HOH . I 6 HOH B 63 563 164 HOH HOH . I 6 HOH B 64 564 127 HOH HOH . I 6 HOH B 65 565 59 HOH HOH . I 6 HOH B 66 566 49 HOH HOH . I 6 HOH B 67 567 166 HOH HOH . I 6 HOH B 68 568 176 HOH HOH . I 6 HOH B 69 569 110 HOH HOH . I 6 HOH B 70 570 177 HOH HOH . I 6 HOH B 71 571 54 HOH HOH . I 6 HOH B 72 572 52 HOH HOH . I 6 HOH B 73 573 13 HOH HOH . I 6 HOH B 74 574 106 HOH HOH . I 6 HOH B 75 575 68 HOH HOH . I 6 HOH B 76 576 183 HOH HOH . I 6 HOH B 77 577 168 HOH HOH . I 6 HOH B 78 578 23 HOH HOH . I 6 HOH B 79 579 15 HOH HOH . I 6 HOH B 80 580 107 HOH HOH . I 6 HOH B 81 581 114 HOH HOH . I 6 HOH B 82 582 60 HOH HOH . I 6 HOH B 83 583 17 HOH HOH . I 6 HOH B 84 584 2 HOH HOH . I 6 HOH B 85 585 200 HOH HOH . I 6 HOH B 86 586 150 HOH HOH . I 6 HOH B 87 587 198 HOH HOH . I 6 HOH B 88 588 3 HOH HOH . I 6 HOH B 89 589 167 HOH HOH . I 6 HOH B 90 590 47 HOH HOH . I 6 HOH B 91 591 118 HOH HOH . I 6 HOH B 92 592 72 HOH HOH . I 6 HOH B 93 593 195 HOH HOH . I 6 HOH B 94 594 199 HOH HOH . I 6 HOH B 95 595 180 HOH HOH . I 6 HOH B 96 596 32 HOH HOH . I 6 HOH B 97 597 179 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 . . . G 5 -30.2 -14.424 -21.793 1 51.29 ? PB ADP 402 B 1 HETATM 2 O O1B ADP . . . G 5 -30.962 -14.613 -23.119 1 60.71 ? O1B ADP 402 B 1 HETATM 3 O O2B ADP . . . G 5 -29.754 -15.739 -21.219 1 55.74 ? O2B ADP 402 B 1 HETATM 4 O O3B ADP . . . G 5 -29.055 -13.425 -21.797 1 43.11 ? O3B ADP 402 B 1 HETATM 5 P PA ADP . . . G 5 -31.977 -12.643 -20.196 1 46.13 ? PA ADP 402 B 1 HETATM 6 O O1A ADP . . . G 5 -33.485 -12.431 -20.306 1 44.26 ? O1A ADP 402 B 1 HETATM 7 O O2A ADP . . . G 5 -31.361 -12.783 -18.831 1 45.11 ? O2A ADP 402 B 1 HETATM 8 O O3A ADP . . . G 5 -31.514 -13.951 -20.99 1 41.86 ? O3A ADP 402 B 1 HETATM 9 O O5' ADP . . . G 5 -31.266 -11.406 -20.993 1 40.84 ? O5' ADP 402 B 1 HETATM 10 C C5' ADP . . . G 5 -31.754 -10.738 -22.18 1 38.46 ? C5' ADP 402 B 1 HETATM 11 C C4' ADP . . . G 5 -31.582 -9.211 -22.112 1 37.41 ? C4' ADP 402 B 1 HETATM 12 O O4' ADP . . . G 5 -32.104 -8.61 -23.289 1 38.77 ? O4' ADP 402 B 1 HETATM 13 C C3' ADP . . . G 5 -32.348 -8.622 -20.916 1 40.68 ? C3' ADP 402 B 1 HETATM 14 O O3' ADP . . . G 5 -31.448 -7.823 -20.126 1 38.4 ? O3' ADP 402 B 1 HETATM 15 C C2' ADP . . . G 5 -33.491 -7.823 -21.505 1 41.44 ? C2' ADP 402 B 1 HETATM 16 O O2' ADP . . . G 5 -33.869 -6.627 -20.762 1 42.04 ? O2' ADP 402 B 1 HETATM 17 C C1' ADP . . . G 5 -32.833 -7.468 -22.849 1 42.05 ? C1' ADP 402 B 1 HETATM 18 N N9 ADP . . . G 5 -33.775 -6.999 -23.892 1 46.48 ? N9 ADP 402 B 1 HETATM 19 C C8 ADP . . . G 5 -34.997 -7.477 -24.192 1 46.97 ? C8 ADP 402 B 1 HETATM 20 N N7 ADP . . . G 5 -35.501 -6.741 -25.21 1 45.64 ? N7 ADP 402 B 1 HETATM 21 C C5 ADP . . . G 5 -34.632 -5.799 -25.57 1 42.93 ? C5 ADP 402 B 1 HETATM 22 C C6 ADP . . . G 5 -34.56 -4.699 -26.556 1 40.31 ? C6 ADP 402 B 1 HETATM 23 N N6 ADP . . . G 5 -35.539 -4.444 -27.437 1 45.39 ? N6 ADP 402 B 1 HETATM 24 N N1 ADP . . . G 5 -33.453 -3.966 -26.588 1 41.29 ? N1 ADP 402 B 1 HETATM 25 C C2 ADP . . . G 5 -32.411 -4.186 -25.744 1 41.19 ? C2 ADP 402 B 1 HETATM 26 N N3 ADP . . . G 5 -32.435 -5.149 -24.805 1 44.39 ? N3 ADP 402 B 1 HETATM 27 C C4 ADP . . . G 5 -33.487 -5.978 -24.69 1 44.33 ? C4 ADP 402 B 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 252 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #