data_4K43 # _model_server_result.job_id 5vH4AwQBLb8LniQ_eG4QRg _model_server_result.datetime_utc '2024-11-16 00:33:49' _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 4k43 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 4K43 # _exptl.entry_id 4K43 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 104.7 _cell.angle_gamma 90 _cell.entry_id 4K43 _cell.length_a 54.578 _cell.length_b 70.349 _cell.length_c 107.673 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4K43 _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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,D,E,I 1 1 B,F,G,H,J 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 G N 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 C CA CA . A CA 401 1_555 D O2B ADP . A ADP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.908 ? metalc ? metalc2 C CA CA . A CA 401 1_555 I O HOH . A HOH 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? metalc ? metalc3 C CA CA . A CA 401 1_555 I O HOH . A HOH 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc4 F CA CA . B CA 401 1_555 G O2B ADP . B ADP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? # _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 85 n n PB O2B ADP sing 86 n n PB O3B ADP sing 87 n n PB O3A ADP sing 88 n n O2B HOB2 ADP sing 89 n n O3B HOB3 ADP sing 90 n n PA O1A ADP doub 91 n n PA O2A ADP sing 92 n n PA O3A ADP sing 93 n n PA O5' ADP sing 94 n n O2A HOA2 ADP sing 95 n n O5' C5' ADP sing 96 n n C5' C4' ADP sing 97 n n C5' "H5'1" ADP sing 98 n n C5' "H5'2" ADP sing 99 n n C4' O4' ADP sing 100 n n C4' C3' ADP sing 101 n n C4' H4' ADP sing 102 n n O4' C1' ADP sing 103 n n C3' O3' ADP sing 104 n n C3' C2' ADP sing 105 n n C3' H3' ADP sing 106 n n O3' HO3' ADP sing 107 n n C2' O2' ADP sing 108 n n C2' C1' ADP sing 109 n n C2' H2' ADP sing 110 n n O2' HO2' ADP sing 111 n n C1' N9 ADP sing 112 n n C1' H1' ADP sing 113 n n N9 C8 ADP sing 114 n y N9 C4 ADP sing 115 n y C8 N7 ADP doub 116 n y C8 H8 ADP sing 117 n n N7 C5 ADP sing 118 n y C5 C6 ADP sing 119 n y C5 C4 ADP doub 120 n y C6 N6 ADP sing 121 n n C6 N1 ADP doub 122 n y N6 HN61 ADP sing 123 n n N6 HN62 ADP sing 124 n n N1 C2 ADP sing 125 n y C2 N3 ADP doub 126 n y C2 H2 ADP sing 127 n n N3 C4 ADP sing 128 n y # _atom_sites.entry_id 4K43 _atom_sites.fract_transf_matrix[1][1] 0.018322 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004807 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014215 _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] 0.009602 _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 CA A 1 401 376 CA CA . D 3 ADP A 1 402 380 ADP ADP . E 4 1PO A 1 403 381 1PO 1PO . F 2 CA B 1 401 376 CA CA . G 3 ADP B 1 402 380 ADP ADP . H 4 1PO B 1 403 381 1PO 1PO . I 5 HOH A 1 501 2 HOH HOH . I 5 HOH A 2 502 3 HOH HOH . I 5 HOH A 3 503 6 HOH HOH . I 5 HOH A 4 504 7 HOH HOH . I 5 HOH A 5 505 9 HOH HOH . I 5 HOH A 6 506 10 HOH HOH . I 5 HOH A 7 507 11 HOH HOH . I 5 HOH A 8 508 15 HOH HOH . I 5 HOH A 9 509 16 HOH HOH . I 5 HOH A 10 510 18 HOH HOH . I 5 HOH A 11 511 20 HOH HOH . I 5 HOH A 12 512 21 HOH HOH . I 5 HOH A 13 513 22 HOH HOH . I 5 HOH A 14 514 24 HOH HOH . I 5 HOH A 15 515 26 HOH HOH . I 5 HOH A 16 516 29 HOH HOH . I 5 HOH A 17 517 30 HOH HOH . I 5 HOH A 18 518 31 HOH HOH . I 5 HOH A 19 519 32 HOH HOH . I 5 HOH A 20 520 33 HOH HOH . I 5 HOH A 21 521 35 HOH HOH . I 5 HOH A 22 522 36 HOH HOH . I 5 HOH A 23 523 38 HOH HOH . I 5 HOH A 24 524 39 HOH HOH . I 5 HOH A 25 525 40 HOH HOH . I 5 HOH A 26 526 41 HOH HOH . I 5 HOH A 27 527 45 HOH HOH . I 5 HOH A 28 528 46 HOH HOH . I 5 HOH A 29 529 47 HOH HOH . I 5 HOH A 30 530 48 HOH HOH . I 5 HOH A 31 531 49 HOH HOH . I 5 HOH A 32 532 50 HOH HOH . I 5 HOH A 33 533 52 HOH HOH . I 5 HOH A 34 534 54 HOH HOH . I 5 HOH A 35 535 55 HOH HOH . I 5 HOH A 36 536 57 HOH HOH . I 5 HOH A 37 537 61 HOH HOH . I 5 HOH A 38 538 64 HOH HOH . I 5 HOH A 39 539 65 HOH HOH . I 5 HOH A 40 540 68 HOH HOH . I 5 HOH A 41 541 70 HOH HOH . I 5 HOH A 42 542 75 HOH HOH . I 5 HOH A 43 543 77 HOH HOH . I 5 HOH A 44 544 81 HOH HOH . J 5 HOH B 1 501 1 HOH HOH . J 5 HOH B 2 502 4 HOH HOH . J 5 HOH B 3 503 5 HOH HOH . J 5 HOH B 4 504 8 HOH HOH . J 5 HOH B 5 505 12 HOH HOH . J 5 HOH B 6 506 13 HOH HOH . J 5 HOH B 7 507 14 HOH HOH . J 5 HOH B 8 508 17 HOH HOH . J 5 HOH B 9 509 19 HOH HOH . J 5 HOH B 10 510 23 HOH HOH . J 5 HOH B 11 511 25 HOH HOH . J 5 HOH B 12 512 27 HOH HOH . J 5 HOH B 13 513 28 HOH HOH . J 5 HOH B 14 514 34 HOH HOH . J 5 HOH B 15 515 37 HOH HOH . J 5 HOH B 16 516 42 HOH HOH . J 5 HOH B 17 517 43 HOH HOH . J 5 HOH B 18 518 44 HOH HOH . J 5 HOH B 19 519 51 HOH HOH . J 5 HOH B 20 520 53 HOH HOH . J 5 HOH B 21 521 56 HOH HOH . J 5 HOH B 22 522 58 HOH HOH . J 5 HOH B 23 523 59 HOH HOH . J 5 HOH B 24 524 60 HOH HOH . J 5 HOH B 25 525 62 HOH HOH . J 5 HOH B 26 526 63 HOH HOH . J 5 HOH B 27 527 66 HOH HOH . J 5 HOH B 28 528 67 HOH HOH . J 5 HOH B 29 529 69 HOH HOH . J 5 HOH B 30 530 71 HOH HOH . J 5 HOH B 31 531 72 HOH HOH . J 5 HOH B 32 532 73 HOH HOH . J 5 HOH B 33 533 74 HOH HOH . J 5 HOH B 34 534 76 HOH HOH . J 5 HOH B 35 535 78 HOH HOH . J 5 HOH B 36 536 79 HOH HOH . J 5 HOH B 37 537 80 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 . . . D 3 -14.526 -15.025 -11.587 1 11.93 ? PB ADP 402 A 1 HETATM 2 O O1B ADP . . . D 3 -13.021 -14.972 -11.672 1 15.68 ? O1B ADP 402 A 1 HETATM 3 O O2B ADP . . . D 3 -15.09 -14.522 -10.282 1 16.26 ? O2B ADP 402 A 1 HETATM 4 O O3B ADP . . . D 3 -15.142 -16.308 -12.086 1 13.83 ? O3B ADP 402 A 1 HETATM 5 P PA ADP . . . D 3 -14.594 -12.378 -12.528 1 13.25 ? PA ADP 402 A 1 HETATM 6 O O1A ADP . . . D 3 -15.844 -11.541 -12.394 1 13.54 ? O1A ADP 402 A 1 HETATM 7 O O2A ADP . . . D 3 -13.48 -12.272 -11.516 1 13.99 ? O2A ADP 402 A 1 HETATM 8 O O3A ADP . . . D 3 -15.032 -13.921 -12.638 1 14.5 ? O3A ADP 402 A 1 HETATM 9 O O5' ADP . . . D 3 -13.966 -12.157 -13.991 1 12.68 ? O5' ADP 402 A 1 HETATM 10 C C5' ADP . . . D 3 -12.619 -11.722 -14.151 1 12.68 ? C5' ADP 402 A 1 HETATM 11 C C4' ADP . . . D 3 -12.277 -11.717 -15.633 1 11.98 ? C4' ADP 402 A 1 HETATM 12 O O4' ADP . . . D 3 -12.837 -10.549 -16.232 1 11.83 ? O4' ADP 402 A 1 HETATM 13 C C3' ADP . . . D 3 -10.779 -11.684 -15.894 1 12.51 ? C3' ADP 402 A 1 HETATM 14 O O3' ADP . . . D 3 -10.401 -12.792 -16.717 1 13.28 ? O3' ADP 402 A 1 HETATM 15 C C2' ADP . . . D 3 -10.518 -10.374 -16.609 1 11.76 ? C2' ADP 402 A 1 HETATM 16 O O2' ADP . . . D 3 -9.583 -10.535 -17.679 1 13.76 ? O2' ADP 402 A 1 HETATM 17 C C1' ADP . . . D 3 -11.889 -9.955 -17.113 1 11.17 ? C1' ADP 402 A 1 HETATM 18 N N9 ADP . . . D 3 -12.055 -8.484 -17.145 1 10.3 ? N9 ADP 402 A 1 HETATM 19 C C8 ADP . . . D 3 -11.983 -7.632 -16.105 1 10.31 ? C8 ADP 402 A 1 HETATM 20 N N7 ADP . . . D 3 -12.189 -6.355 -16.519 1 9.67 ? N7 ADP 402 A 1 HETATM 21 C C5 ADP . . . D 3 -12.4 -6.386 -17.845 1 10.57 ? C5 ADP 402 A 1 HETATM 22 C C6 ADP . . . D 3 -12.677 -5.398 -18.912 1 12.22 ? C6 ADP 402 A 1 HETATM 23 N N6 ADP . . . D 3 -12.779 -4.077 -18.633 1 13.67 ? N6 ADP 402 A 1 HETATM 24 N N1 ADP . . . D 3 -12.829 -5.861 -20.172 1 11.83 ? N1 ADP 402 A 1 HETATM 25 C C2 ADP . . . D 3 -12.732 -7.169 -20.468 1 11.09 ? C2 ADP 402 A 1 HETATM 26 N N3 ADP . . . D 3 -12.481 -8.115 -19.551 1 10.13 ? N3 ADP 402 A 1 HETATM 27 C C4 ADP . . . D 3 -12.31 -7.793 -18.251 1 10.71 ? C4 ADP 402 A 1 HETATM 28 H "H5'1" ADP . . . D 3 -12.501 -10.718 -13.738 1 15.22 ? "H5'1" ADP 402 A 1 HETATM 29 H "H5'2" ADP . . . D 3 -11.945 -12.395 -13.616 1 15.22 ? "H5'2" ADP 402 A 1 HETATM 30 H H4' ADP . . . D 3 -12.699 -12.617 -16.1 1 14.38 ? H4' ADP 402 A 1 HETATM 31 H H3' ADP . . . D 3 -10.236 -11.7 -14.939 1 15.01 ? H3' ADP 402 A 1 HETATM 32 H H2' ADP . . . D 3 -10.153 -9.631 -15.886 1 14.11 ? H2' ADP 402 A 1 HETATM 33 H HO2' ADP . . . D 3 -8.737 -10.84 -17.325 1 16.51 ? HO2' ADP 402 A 1 HETATM 34 H H1' ADP . . . D 3 -12.024 -10.362 -18.125 1 13.4 ? H1' ADP 402 A 1 HETATM 35 H H8 ADP . . . D 3 -11.787 -7.925 -15.081 1 12.38 ? H8 ADP 402 A 1 HETATM 36 H HN61 ADP . . . D 3 -12.97 -3.417 -19.374 1 16.41 ? HN61 ADP 402 A 1 HETATM 37 H HN62 ADP . . . D 3 -12.663 -3.751 -17.684 1 16.41 ? HN62 ADP 402 A 1 HETATM 38 H H2 ADP . . . D 3 -12.864 -7.474 -21.498 1 13.3 ? H2 ADP 402 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 46 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 38 #