data_6NO1 # _model_server_result.job_id 2aEbYT9tSqMuTb-Yr2tlzQ _model_server_result.datetime_utc '2025-07-31 12:59:21' _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 6no1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 6NO1 # _exptl.entry_id 6NO1 _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 90 _cell.entry_id 6NO1 _cell.length_a 80.129 _cell.length_b 96.681 _cell.length_c 69.235 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6NO1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 C _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 disulf ? disulf1 A SG CYS 151 A CYS 151 1_555 A SG CYS 154 A CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 B SG CYS 151 B CYS 151 1_555 B SG CYS 154 B CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc1 A O ASN 210 A ASN 210 1_555 E MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc2 A OE1 GLU 216 A GLU 216 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc3 A OD1 ASP 220 A ASP 220 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? metalc ? metalc4 A OD2 ASP 220 A ASP 220 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? metalc ? metalc5 A OD2 ASP 228 A ASP 228 1_555 E MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc6 C O3B ADP . A ADP 301 1_555 E MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? metalc ? metalc7 C O2A ADP . A ADP 301 1_555 E MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc8 D MG MG . A MG 302 1_555 F O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc9 D MG MG . A MG 302 1_555 B OD1 ASP 220 B ASP 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? metalc ? metalc10 D MG MG . A MG 302 1_555 B OD2 ASP 220 B ASP 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? # _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 6NO1 _atom_sites.fract_transf_matrix[1][1] 0.01248 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010343 _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] 0.014444 _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 ADP A 1 301 301 ADP ADP . D 3 MG A 1 302 1 MG MG . E 3 MG A 1 303 2 MG MG . F 4 HOH A 1 401 20 HOH HOH . F 4 HOH A 2 402 19 HOH HOH . F 4 HOH A 3 403 15 HOH HOH . F 4 HOH A 4 404 3 HOH HOH . F 4 HOH A 5 405 13 HOH HOH . F 4 HOH A 6 406 4 HOH HOH . F 4 HOH A 7 407 6 HOH HOH . F 4 HOH A 8 408 11 HOH HOH . F 4 HOH A 9 409 10 HOH HOH . F 4 HOH A 10 410 18 HOH HOH . F 4 HOH A 11 411 16 HOH HOH . F 4 HOH A 12 412 8 HOH HOH . G 4 HOH B 1 301 2 HOH HOH . G 4 HOH B 2 302 7 HOH HOH . G 4 HOH B 3 303 5 HOH HOH . G 4 HOH B 4 304 14 HOH HOH . G 4 HOH B 5 305 17 HOH HOH . G 4 HOH B 6 306 1 HOH HOH . G 4 HOH B 7 307 9 HOH HOH . G 4 HOH B 8 308 12 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 . . . C 2 15.938 33.768 -3.237 0.8 76.96 ? PB ADP 301 A 1 HETATM 2 O O1B ADP . . . C 2 15.405 35.161 -3.093 0.8 67.21 ? O1B ADP 301 A 1 HETATM 3 O O2B ADP . . . C 2 14.964 32.824 -3.948 0.8 68.7 ? O2B ADP 301 A 1 HETATM 4 O O3B ADP . . . C 2 16.306 33.134 -1.894 0.8 65.94 ? O3B ADP 301 A 1 HETATM 5 P PA ADP . . . C 2 18.724 33.138 -3.878 0.8 70.03 ? PA ADP 301 A 1 HETATM 6 O O1A ADP . . . C 2 19.768 34.183 -3.886 0.8 71.2 ? O1A ADP 301 A 1 HETATM 7 O O2A ADP . . . C 2 18.655 32.3 -2.605 0.8 70.82 ? O2A ADP 301 A 1 HETATM 8 O O3A ADP . . . C 2 17.275 33.759 -4.107 0.8 69.67 ? O3A ADP 301 A 1 HETATM 9 O O5' ADP . . . C 2 18.916 32.113 -5.094 0.8 69.93 ? O5' ADP 301 A 1 HETATM 10 C C5' ADP . . . C 2 18.078 30.969 -5.361 0.8 74.66 ? C5' ADP 301 A 1 HETATM 11 C C4' ADP . . . C 2 18.921 29.723 -5.288 0.8 79.93 ? C4' ADP 301 A 1 HETATM 12 O O4' ADP . . . C 2 19.867 29.704 -6.374 0.8 81.35 ? O4' ADP 301 A 1 HETATM 13 C C3' ADP . . . C 2 19.783 29.585 -4.044 0.8 78.15 ? C3' ADP 301 A 1 HETATM 14 O O3' ADP . . . C 2 19.028 29.056 -2.96 0.8 75.88 ? O3' ADP 301 A 1 HETATM 15 C C2' ADP . . . C 2 20.869 28.607 -4.505 0.8 76.96 ? C2' ADP 301 A 1 HETATM 16 O O2' ADP . . . C 2 20.474 27.254 -4.304 0.8 76.06 ? O2' ADP 301 A 1 HETATM 17 C C1' ADP . . . C 2 20.984 28.911 -6.009 0.8 76.31 ? C1' ADP 301 A 1 HETATM 18 N N9 ADP . . . C 2 22.2 29.626 -6.385 0.8 64.22 ? N9 ADP 301 A 1 HETATM 19 C C8 ADP . . . C 2 22.554 30.901 -6.028 0.8 65.05 ? C8 ADP 301 A 1 HETATM 20 N N7 ADP . . . C 2 23.713 31.288 -6.504 0.8 58.76 ? N7 ADP 301 A 1 HETATM 21 C C5 ADP . . . C 2 24.153 30.189 -7.228 0.8 62.76 ? C5 ADP 301 A 1 HETATM 22 C C6 ADP . . . C 2 25.32 29.953 -7.98 0.8 51.75 ? C6 ADP 301 A 1 HETATM 23 N N6 ADP . . . C 2 26.3 30.85 -8.134 0.8 47.44 ? N6 ADP 301 A 1 HETATM 24 N N1 ADP . . . C 2 25.449 28.748 -8.578 0.8 46.65 ? N1 ADP 301 A 1 HETATM 25 C C2 ADP . . . C 2 24.474 27.848 -8.426 0.8 50.98 ? C2 ADP 301 A 1 HETATM 26 N N3 ADP . . . C 2 23.331 27.958 -7.743 0.8 53.93 ? N3 ADP 301 A 1 HETATM 27 C C4 ADP . . . C 2 23.23 29.158 -7.163 0.8 58.17 ? C4 ADP 301 A 1 HETATM 28 H HOB2 ADP . . . C 2 13.99 33 -3.867 0.8 82.47 ? HOB2 ADP 301 A 1 HETATM 29 H HOB3 ADP . . . C 2 15.824 33.177 -1.027 0.8 79.16 ? HOB3 ADP 301 A 1 HETATM 30 H HOA2 ADP . . . C 2 19.035 32.537 -1.718 0.8 85.02 ? HOA2 ADP 301 A 1 HETATM 31 H "H5'1" ADP . . . C 2 17.285 30.911 -4.617 0.8 89.63 ? "H5'1" ADP 301 A 1 HETATM 32 H "H5'2" ADP . . . C 2 17.644 31.052 -6.356 0.8 89.63 ? "H5'2" ADP 301 A 1 HETATM 33 H H4' ADP . . . C 2 18.296 28.846 -5.453 0.8 95.95 ? H4' ADP 301 A 1 HETATM 34 H H3' ADP . . . C 2 20.201 30.538 -3.723 0.8 93.81 ? H3' ADP 301 A 1 HETATM 35 H HO3' ADP . . . C 2 19.353 29.514 -2.141 0.8 91.08 ? HO3' ADP 301 A 1 HETATM 36 H H2' ADP . . . C 2 21.809 28.818 -3.997 0.8 92.39 ? H2' ADP 301 A 1 HETATM 37 H HO2' ADP . . . C 2 21.328 26.762 -4.18 0.8 91.3 ? HO2' ADP 301 A 1 HETATM 38 H H1' ADP . . . C 2 20.935 28.002 -6.606 0.8 91.61 ? H1' ADP 301 A 1 HETATM 39 H H8 ADP . . . C 2 21.929 31.54 -5.405 0.8 78.1 ? H8 ADP 301 A 1 HETATM 40 H HN61 ADP . . . C 2 27.12 30.624 -8.689 0.8 56.97 ? HN61 ADP 301 A 1 HETATM 41 H HN62 ADP . . . C 2 26.232 31.764 -7.696 0.8 56.97 ? HN62 ADP 301 A 1 HETATM 42 H H2 ADP . . . C 2 24.647 26.9 -8.934 0.8 61.2 ? H2 ADP 301 A 1 # _model_server_stats.io_time_ms 53 _model_server_stats.parse_time_ms 140 _model_server_stats.create_model_time_ms 85 _model_server_stats.query_time_ms 671 _model_server_stats.encode_time_ms 22 _model_server_stats.element_count 42 #