data_3M6A # _model_server_result.job_id pzlTzoHz1Q000y3b8JagGw _model_server_result.datetime_utc '2024-11-22 18:10:57' _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 3m6a # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":783}' # _entry.id 3M6A # _exptl.entry_id 3M6A _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 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 100.5 _cell.angle_gamma 90 _cell.entry_id 3M6A _cell.length_a 103.382 _cell.length_b 127.4 _cell.length_c 148.993 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3M6A _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 ? hexameric 6 author_defined_assembly 1 PISA monomeric 1 software_defined_assembly 2 PISA monomeric 1 software_defined_assembly 3 PISA monomeric 1 software_defined_assembly 4 PISA monomeric 1 software_defined_assembly 5 PISA monomeric 1 software_defined_assembly 6 PISA monomeric 1 software_defined_assembly 7 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L 1 1 A,G 2 1 B,H 3 1 C,I 4 1 D,J 5 1 E,K 6 1 F,L 7 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 ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L 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 3M6A _atom_sites.fract_transf_matrix[1][1] 0.009673 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001793 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007849 _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] 0.006826 _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 G 2 ADP A 1 783 774 ADP ADP . H 2 ADP B 1 783 774 ADP ADP . I 2 ADP C 1 783 774 ADP ADP . J 2 ADP D 1 783 774 ADP ADP . K 2 ADP E 1 783 774 ADP ADP . L 2 ADP F 1 783 774 ADP ADP . # 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 . . . J 2 41.394 -14.444 32.585 1 329.95 ? PB ADP 783 D 1 HETATM 2 O O1B ADP . . . J 2 39.907 -14.46 32.493 1 324.99 ? O1B ADP 783 D 1 HETATM 3 O O2B ADP . . . J 2 42.041 -13.149 32.991 1 458.89 ? O2B ADP 783 D 1 HETATM 4 O O3B ADP . . . J 2 42.005 -15.12 31.441 1 141.97 ? O3B ADP 783 D 1 HETATM 5 P PA ADP . . . J 2 42.773 -16.777 33.13 1 189.24 ? PA ADP 783 D 1 HETATM 6 O O1A ADP . . . J 2 43.893 -16.265 32.368 1 146.63 ? O1A ADP 783 D 1 HETATM 7 O O2A ADP . . . J 2 43.219 -17.51 34.338 1 113.68 ? O2A ADP 783 D 1 HETATM 8 O O3A ADP . . . J 2 41.783 -15.592 33.626 1 444.49 ? O3A ADP 783 D 1 HETATM 9 O O5' ADP . . . J 2 42.088 -17.987 32.348 1 369.2 ? O5' ADP 783 D 1 HETATM 10 C C5' ADP . . . J 2 42.945 -19.099 32.023 1 343.26 ? C5' ADP 783 D 1 HETATM 11 C C4' ADP . . . J 2 43.646 -19.793 33.196 1 293.91 ? C4' ADP 783 D 1 HETATM 12 O O4' ADP . . . J 2 42.745 -19.892 34.296 1 341.03 ? O4' ADP 783 D 1 HETATM 13 C C3' ADP . . . J 2 44.088 -21.221 32.88 1 219.56 ? C3' ADP 783 D 1 HETATM 14 O O3' ADP . . . J 2 45.505 -21.396 32.771 1 231.94 ? O3' ADP 783 D 1 HETATM 15 C C2' ADP . . . J 2 43.635 -21.98 34.083 1 127.52 ? C2' ADP 783 D 1 HETATM 16 O O2' ADP . . . J 2 44.56 -21.672 35.101 1 142.37 ? O2' ADP 783 D 1 HETATM 17 C C1' ADP . . . J 2 42.398 -21.26 34.472 1 144.19 ? C1' ADP 783 D 1 HETATM 18 N N9 ADP . . . J 2 41.39 -21.592 33.442 1 109.71 ? N9 ADP 783 D 1 HETATM 19 C C8 ADP . . . J 2 40.495 -20.701 32.984 1 163.3 ? C8 ADP 783 D 1 HETATM 20 N N7 ADP . . . J 2 39.652 -21.206 32.028 1 91.96 ? N7 ADP 783 D 1 HETATM 21 C C5 ADP . . . J 2 39.983 -22.47 31.845 1 30.68 ? C5 ADP 783 D 1 HETATM 22 C C6 ADP . . . J 2 39.459 -23.536 31.005 1 54.65 ? C6 ADP 783 D 1 HETATM 23 N N6 ADP . . . J 2 38.435 -23.398 30.129 1 42.34 ? N6 ADP 783 D 1 HETATM 24 N N1 ADP . . . J 2 40.078 -24.697 31.125 1 72.26 ? N1 ADP 783 D 1 HETATM 25 C C2 ADP . . . J 2 41.103 -24.892 31.956 1 63.71 ? C2 ADP 783 D 1 HETATM 26 N N3 ADP . . . J 2 41.627 -23.956 32.739 1 80.25 ? N3 ADP 783 D 1 HETATM 27 C C4 ADP . . . J 2 41.116 -22.728 32.763 1 63.16 ? C4 ADP 783 D 1 # _model_server_stats.io_time_ms 47 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #