data_6G2Y # _model_server_result.job_id 09Z0bXbfA8dCJhZUUE0G4w _model_server_result.datetime_utc '2024-11-22 06:52:14' _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 6g2y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":807}' # _entry.id 6G2Y # _exptl.entry_id 6G2Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 4 _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 6G2Y _cell.length_a 94.502 _cell.length_b 94.502 _cell.length_c 66.266 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6G2Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,J,K _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 4 _struct_asym.id H _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 OD1 ASN 163 A ASN 624 1_555 I NA NA . A NA 808 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.245 ? metalc ? metalc2 H O3B ADP . A ADP 807 1_555 I NA NA . A NA 808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.092 ? # _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 6G2Y _atom_sites.fract_transf_matrix[1][1] 0.010582 _atom_sites.fract_transf_matrix[1][2] 0.006109 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012219 _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] 0.015091 _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 B 2 MPD A 1 801 1 MPD MPD . C 2 MPD A 1 802 2 MPD MPD . D 2 MPD A 1 803 3 MPD MPD . E 2 MPD A 1 804 4 MPD MPD . F 3 DMS A 1 805 5 DMS DMS . G 3 DMS A 1 806 6 DMS DMS . H 4 ADP A 1 807 9 ADP ADP . I 5 NA A 1 808 10 NA NA . J 6 ELQ A 1 809 7 ELQ LIG . K 7 HOH A 1 901 10 HOH HOH . K 7 HOH A 2 902 5 HOH HOH . K 7 HOH A 3 903 6 HOH HOH . K 7 HOH A 4 904 3 HOH HOH . K 7 HOH A 5 905 11 HOH HOH . K 7 HOH A 6 906 1 HOH HOH . K 7 HOH A 7 907 2 HOH HOH . K 7 HOH A 8 908 12 HOH HOH . K 7 HOH A 9 909 9 HOH HOH . K 7 HOH A 10 910 4 HOH HOH . K 7 HOH A 11 911 8 HOH HOH . K 7 HOH A 12 912 7 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 . . . H 4 -1.611 -36.391 1.3 1 51.96 ? PB ADP 807 A 1 HETATM 2 O O1B ADP . . . H 4 -0.565 -37.155 0.535 1 49.69 ? O1B ADP 807 A 1 HETATM 3 O O2B ADP . . . H 4 -1.359 -36.418 2.809 1 53.35 ? O2B ADP 807 A 1 HETATM 4 O O3B ADP . . . H 4 -1.972 -35.087 0.672 1 55.08 ? O3B ADP 807 A 1 HETATM 5 P PA ADP . . . H 4 -3.6 -38.094 2.444 1 53.8 ? PA ADP 807 A 1 HETATM 6 O O1A ADP . . . H 4 -2.565 -39.057 2.937 1 50.64 ? O1A ADP 807 A 1 HETATM 7 O O2A ADP . . . H 4 -4.254 -37.158 3.43 1 55.03 ? O2A ADP 807 A 1 HETATM 8 O O3A ADP . . . H 4 -2.962 -37.296 1.186 1 50.02 ? O3A ADP 807 A 1 HETATM 9 O O5' ADP . . . H 4 -4.745 -38.982 1.711 1 50.71 ? O5' ADP 807 A 1 HETATM 10 C C5' ADP . . . H 4 -6.04 -38.461 1.427 1 46.51 ? C5' ADP 807 A 1 HETATM 11 C C4' ADP . . . H 4 -7.07 -39.589 1.372 1 46.96 ? C4' ADP 807 A 1 HETATM 12 O O4' ADP . . . H 4 -6.935 -40.307 0.145 1 57.46 ? O4' ADP 807 A 1 HETATM 13 C C3' ADP . . . H 4 -6.912 -40.638 2.455 1 52.44 ? C3' ADP 807 A 1 HETATM 14 O O3' ADP . . . H 4 -7.615 -40.286 3.657 1 58.86 ? O3' ADP 807 A 1 HETATM 15 C C2' ADP . . . H 4 -7.456 -41.885 1.799 1 52.22 ? C2' ADP 807 A 1 HETATM 16 O O2' ADP . . . H 4 -8.889 -41.899 1.758 1 53.14 ? O2' ADP 807 A 1 HETATM 17 C C1' ADP . . . H 4 -7.046 -41.718 0.36 1 52.64 ? C1' ADP 807 A 1 HETATM 18 N N9 ADP . . . H 4 -5.704 -42.304 0.125 1 48.86 ? N9 ADP 807 A 1 HETATM 19 C C8 ADP . . . H 4 -4.641 -41.598 -0.309 1 47.14 ? C8 ADP 807 A 1 HETATM 20 N N7 ADP . . . H 4 -3.566 -42.414 -0.461 1 48.57 ? N7 ADP 807 A 1 HETATM 21 C C5 ADP . . . H 4 -3.95 -43.662 -0.136 1 44 ? C5 ADP 807 A 1 HETATM 22 C C6 ADP . . . H 4 -3.292 -44.976 -0.058 1 43.67 ? C6 ADP 807 A 1 HETATM 23 N N6 ADP . . . H 4 -1.975 -45.119 -0.405 1 46.35 ? N6 ADP 807 A 1 HETATM 24 N N1 ADP . . . H 4 -4.041 -46.023 0.363 1 45.45 ? N1 ADP 807 A 1 HETATM 25 C C2 ADP . . . H 4 -5.347 -45.899 0.699 1 49.53 ? C2 ADP 807 A 1 HETATM 26 N N3 ADP . . . H 4 -5.997 -44.72 0.64 1 49.42 ? N3 ADP 807 A 1 HETATM 27 C C4 ADP . . . H 4 -5.365 -43.59 0.241 1 44.27 ? C4 ADP 807 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #