data_6I7E # _model_server_result.job_id pwjB43fMNM00eivwHnFEZg _model_server_result.datetime_utc '2024-11-08 16:03:07' _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 6i7e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":801}' # _entry.id 6I7E # _exptl.entry_id 6I7E _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 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 6I7E _cell.length_a 197.46 _cell.length_b 197.46 _cell.length_c 178.144 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6I7E _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _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 _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 2 _struct_asym.id B _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 covale ? covale1 A C VAL 18 A VAL 18 1_555 A N SEP 19 A SEP 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.356 ? covale ? covale2 A C SEP 19 A SEP 19 1_555 A N ASN 20 A ASN 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? metalc ? metalc1 A OG1 THR 198 A THR 198 1_555 C MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.925 ? metalc ? metalc2 A OG SER 246 A SER 246 1_555 C MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? metalc ? metalc3 B O2B ADP . A ADP 801 1_555 D V VO4 . A VO4 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.798 ? metalc ? metalc4 C MG MG . A MG 802 1_555 D O2 VO4 . A VO4 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? # _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 6I7E _atom_sites.fract_transf_matrix[1][1] 0.005064 _atom_sites.fract_transf_matrix[1][2] 0.002924 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005848 _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] 0.005613 _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 ADP A 1 801 809 ADP ADP . C 3 MG A 1 802 810 MG MG . D 4 VO4 A 1 803 811 VO4 VO4 . # 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 . . . B 2 4.616 61.084 22.054 1 145.22 ? PB ADP 801 A 1 HETATM 2 O O1B ADP . . . B 2 4.372 61 20.612 1 145.43 -1 O1B ADP 801 A 1 HETATM 3 O O2B ADP . . . B 2 5.218 59.827 22.59 1 144.24 ? O2B ADP 801 A 1 HETATM 4 O O3B ADP . . . B 2 5.517 62.277 22.445 1 145.93 ? O3B ADP 801 A 1 HETATM 5 P PA ADP . . . B 2 2.385 60.178 23.663 1 144.55 ? PA ADP 801 A 1 HETATM 6 O O1A ADP . . . B 2 0.968 60.275 23.26 1 147.88 -1 O1A ADP 801 A 1 HETATM 7 O O2A ADP . . . B 2 2.857 58.772 23.273 1 144.58 ? O2A ADP 801 A 1 HETATM 8 O O3A ADP . . . B 2 3.25 61.242 22.854 1 144.92 ? O3A ADP 801 A 1 HETATM 9 O O5' ADP . . . B 2 2.584 60.471 25.245 1 141.07 ? O5' ADP 801 A 1 HETATM 10 C C5' ADP . . . B 2 2.737 59.432 26.234 1 138.55 ? C5' ADP 801 A 1 HETATM 11 C C4' ADP . . . B 2 1.488 59.247 27.061 1 134.71 ? C4' ADP 801 A 1 HETATM 12 O O4' ADP . . . B 2 1.262 60.414 27.878 1 134.52 ? O4' ADP 801 A 1 HETATM 13 C C3' ADP . . . B 2 0.177 59.051 26.311 1 130.93 ? C3' ADP 801 A 1 HETATM 14 O O3' ADP . . . B 2 0.011 57.747 25.768 1 126.73 ? O3' ADP 801 A 1 HETATM 15 C C2' ADP . . . B 2 -0.851 59.429 27.375 1 133.03 ? C2' ADP 801 A 1 HETATM 16 O O2' ADP . . . B 2 -1.12 58.36 28.273 1 132.72 ? O2' ADP 801 A 1 HETATM 17 C C1' ADP . . . B 2 -0.127 60.556 28.125 1 135.97 ? C1' ADP 801 A 1 HETATM 18 N N9 ADP . . . B 2 -0.547 61.909 27.757 1 140.33 ? N9 ADP 801 A 1 HETATM 19 C C8 ADP . . . B 2 0.063 62.76 26.873 1 140.75 ? C8 ADP 801 A 1 HETATM 20 N N7 ADP . . . B 2 -0.494 63.945 26.8 1 141.99 ? N7 ADP 801 A 1 HETATM 21 C C5 ADP . . . B 2 -1.556 63.866 27.69 1 143.16 ? C5 ADP 801 A 1 HETATM 22 C C6 ADP . . . B 2 -2.551 64.793 28.073 1 144.08 ? C6 ADP 801 A 1 HETATM 23 N N6 ADP . . . B 2 -2.601 66.054 27.637 1 144.41 ? N6 ADP 801 A 1 HETATM 24 N N1 ADP . . . B 2 -3.488 64.382 28.961 1 143.93 ? N1 ADP 801 A 1 HETATM 25 C C2 ADP . . . B 2 -3.422 63.131 29.432 1 143.99 ? C2 ADP 801 A 1 HETATM 26 N N3 ADP . . . B 2 -2.526 62.177 29.159 1 143.86 ? N3 ADP 801 A 1 HETATM 27 C C4 ADP . . . B 2 -1.61 62.61 28.276 1 142.82 ? C4 ADP 801 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #