data_1MAB # _model_server_result.job_id 3RLL860_fT7hdmgHFqChoA _model_server_result.datetime_utc '2024-10-24 04:30:01' _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 1mab # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":604}' # _entry.id 1MAB # _exptl.entry_id 1MAB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 7 _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 90 _cell.angle_gamma 120 _cell.entry_id 1MAB _cell.length_a 143.67 _cell.length_b 143.67 _cell.length_c 361.15 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1MAB _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details heptameric _pdbx_struct_assembly.oligomeric_count 7 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,D,E,F,G,H,I 1 1,2 A,B,C,D,E,F,G,H,I,J 1 3 # 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 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 3 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id G _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 metalc ? metalc1 A OG1 THR 176 A THR 176 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? metalc ? metalc2 D MG MG . A MG 602 1_555 E O2G ATP . A ATP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc3 D MG MG . A MG 602 1_555 E O2B ATP . A ATP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc4 D MG MG . A MG 602 1_555 E O1A ATP . A ATP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.934 ? metalc ? metalc5 D MG MG . A MG 602 1_555 H O HOH . A HOH 635 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? # _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 1MAB _atom_sites.fract_transf_matrix[1][1] 0.00696 _atom_sites.fract_transf_matrix[1][2] 0.004018 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008037 _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] 0.002769 _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 D 4 MG A 1 602 4 MG MG . E 5 ATP A 1 603 1 ATP ATP . F 6 PO4 B 1 601 2 PO4 PO4 . G 7 ADP B 1 604 3 ADP ADP . H 8 HOH A 1 604 17 HOH HOH . H 8 HOH A 2 605 18 HOH HOH . H 8 HOH A 3 606 19 HOH HOH . H 8 HOH A 4 607 20 HOH HOH . H 8 HOH A 5 608 21 HOH HOH . H 8 HOH A 6 609 22 HOH HOH . H 8 HOH A 7 610 23 HOH HOH . H 8 HOH A 8 611 24 HOH HOH . H 8 HOH A 9 612 25 HOH HOH . H 8 HOH A 10 613 26 HOH HOH . H 8 HOH A 11 614 27 HOH HOH . H 8 HOH A 12 615 39 HOH HOH . H 8 HOH A 13 616 41 HOH HOH . H 8 HOH A 14 617 42 HOH HOH . H 8 HOH A 15 618 45 HOH HOH . H 8 HOH A 16 619 46 HOH HOH . H 8 HOH A 17 620 47 HOH HOH . H 8 HOH A 18 621 48 HOH HOH . H 8 HOH A 19 622 49 HOH HOH . H 8 HOH A 20 623 50 HOH HOH . H 8 HOH A 21 624 51 HOH HOH . H 8 HOH A 22 625 52 HOH HOH . H 8 HOH A 23 626 53 HOH HOH . H 8 HOH A 24 627 54 HOH HOH . H 8 HOH A 25 628 55 HOH HOH . H 8 HOH A 26 629 56 HOH HOH . H 8 HOH A 27 630 57 HOH HOH . H 8 HOH A 28 631 58 HOH HOH . H 8 HOH A 29 632 61 HOH HOH . H 8 HOH A 30 633 62 HOH HOH . H 8 HOH A 31 634 63 HOH HOH . H 8 HOH A 32 635 64 HOH HOH . H 8 HOH A 33 636 65 HOH HOH . H 8 HOH A 34 637 66 HOH HOH . I 8 HOH B 1 605 1 HOH HOH . I 8 HOH B 2 606 2 HOH HOH . I 8 HOH B 3 607 3 HOH HOH . I 8 HOH B 4 608 4 HOH HOH . I 8 HOH B 5 609 5 HOH HOH . I 8 HOH B 6 610 6 HOH HOH . I 8 HOH B 7 611 7 HOH HOH . I 8 HOH B 8 612 12 HOH HOH . I 8 HOH B 9 613 15 HOH HOH . I 8 HOH B 10 614 28 HOH HOH . I 8 HOH B 11 615 29 HOH HOH . I 8 HOH B 12 616 30 HOH HOH . I 8 HOH B 13 617 31 HOH HOH . I 8 HOH B 14 618 32 HOH HOH . I 8 HOH B 15 619 33 HOH HOH . I 8 HOH B 16 620 34 HOH HOH . I 8 HOH B 17 621 35 HOH HOH . I 8 HOH B 18 622 36 HOH HOH . I 8 HOH B 19 623 37 HOH HOH . I 8 HOH B 20 624 38 HOH HOH . I 8 HOH B 21 625 40 HOH HOH . I 8 HOH B 22 626 44 HOH HOH . I 8 HOH B 23 627 59 HOH HOH . I 8 HOH B 24 628 60 HOH HOH . J 8 HOH G 1 271 9 HOH HOH . J 8 HOH G 2 272 16 HOH HOH . J 8 HOH G 3 273 43 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 7 -18.666 20.542 88.885 1 89.28 ? PB ADP 604 B 1 HETATM 2 O O1B ADP . . . G 7 -17.428 19.95 88.364 1 88.59 ? O1B ADP 604 B 1 HETATM 3 O O2B ADP . . . G 7 -18.718 21.892 89.458 1 88.72 ? O2B ADP 604 B 1 HETATM 4 O O3B ADP . . . G 7 -19.769 20.478 87.773 1 89.99 ? O3B ADP 604 B 1 HETATM 5 P PA ADP . . . G 7 -19.841 20.178 91.457 1 93.28 ? PA ADP 604 B 1 HETATM 6 O O1A ADP . . . G 7 -18.932 21.15 92.075 1 93.08 ? O1A ADP 604 B 1 HETATM 7 O O2A ADP . . . G 7 -21.223 20.683 91.405 1 93.66 ? O2A ADP 604 B 1 HETATM 8 O O3A ADP . . . G 7 -19.223 19.664 90.059 1 91.17 ? O3A ADP 604 B 1 HETATM 9 O O5' ADP . . . G 7 -19.786 18.777 92.212 1 93.56 ? O5' ADP 604 B 1 HETATM 10 C C5' ADP . . . G 7 -20.982 17.99 92.439 1 93.64 ? C5' ADP 604 B 1 HETATM 11 C C4' ADP . . . G 7 -21.128 17.652 93.909 1 93.77 ? C4' ADP 604 B 1 HETATM 12 O O4' ADP . . . G 7 -20.094 18.36 94.643 1 93.63 ? O4' ADP 604 B 1 HETATM 13 C C3' ADP . . . G 7 -22.372 18.249 94.53 1 93.87 ? C3' ADP 604 B 1 HETATM 14 O O3' ADP . . . G 7 -23.558 17.694 93.982 1 93.65 ? O3' ADP 604 B 1 HETATM 15 C C2' ADP . . . G 7 -22.006 18.293 96.041 1 93.61 ? C2' ADP 604 B 1 HETATM 16 O O2' ADP . . . G 7 -21.902 17.126 96.843 1 92.99 ? O2' ADP 604 B 1 HETATM 17 C C1' ADP . . . G 7 -20.591 18.764 95.917 1 93.06 ? C1' ADP 604 B 1 HETATM 18 N N9 ADP . . . G 7 -20.464 20.235 96.02 1 92.27 ? N9 ADP 604 B 1 HETATM 19 C C8 ADP . . . G 7 -20.364 21.112 94.98 1 91.58 ? C8 ADP 604 B 1 HETATM 20 N N7 ADP . . . G 7 -20.247 22.366 95.363 1 91.27 ? N7 ADP 604 B 1 HETATM 21 C C5 ADP . . . G 7 -20.27 22.332 96.738 1 91.38 ? C5 ADP 604 B 1 HETATM 22 C C6 ADP . . . G 7 -20.187 23.287 97.799 1 90.74 ? C6 ADP 604 B 1 HETATM 23 N N6 ADP . . . G 7 -20.05 24.613 97.641 1 90 ? N6 ADP 604 B 1 HETATM 24 N N1 ADP . . . G 7 -20.253 22.85 99.082 1 91.23 ? N1 ADP 604 B 1 HETATM 25 C C2 ADP . . . G 7 -20.397 21.532 99.365 1 91.41 ? C2 ADP 604 B 1 HETATM 26 N N3 ADP . . . G 7 -20.483 20.539 98.453 1 91.52 ? N3 ADP 604 B 1 HETATM 27 C C4 ADP . . . G 7 -20.413 21.001 97.163 1 91.93 ? C4 ADP 604 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #