data_7VY9 # _model_server_result.job_id Ztj21jxdj1IEprs4C8JGFA _model_server_result.datetime_utc '2024-12-21 15:50:30' _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 7vy9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"DB","auth_seq_id":401}' # _entry.id 7VY9 # _exptl.entry_id 7VY9 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 35 _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 7VY9 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7VY9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 29-meric _pdbx_struct_assembly.oligomeric_count 29 _pdbx_struct_assembly.details author_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,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB _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 ? _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 35 _struct_asym.id DB _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 D SG CYS 17 V CYS 18 1_555 D SG CYS 74 V CYS 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 D SG CYS 94 V CYS 95 1_555 D SG CYS 114 V CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 L SG CYS 112 d CYS 113 1_555 L SG CYS 124 d CYS 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 P SG CYS 32 h CYS 33 1_555 P SG CYS 65 h CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 AA SG CYS 45 u CYS 46 1_555 AA SG CYS 55 u CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 AA SG CYS 77 u CYS 78 1_555 AA SG CYS 109 u CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 AA SG CYS 87 u CYS 88 1_555 AA SG CYS 99 u CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _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 ? # _atom_sites.entry_id 7VY9 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 DA 30 PEE Q 1 101 718 PEE PEE . EA 31 CDL V 1 201 201 CDL CDL . FA 31 CDL V 1 202 203 CDL CDL . GA 30 PEE W 1 201 202 PEE PEE . HA 32 8Q1 X 1 201 201 8Q1 8Q1 . IA 31 CDL a 1 201 201 CDL CDL . JA 33 PLX a 1 202 101 PLX PLX . KA 33 PLX g 1 201 705 PLX PLX . LA 31 CDL g 1 202 714 CDL CDL . MA 30 PEE j 1 201 101 PEE PEE . NA 33 PLX j 1 202 202 PLX PLX . OA 33 PLX j 1 203 203 PLX PLX . PA 31 CDL k 1 101 101 CDL CDL . QA 30 PEE l 1 701 207 PEE PEE . RA 31 CDL l 1 702 712 CDL CDL . SA 31 CDL l 1 703 713 CDL CDL . TA 30 PEE l 1 704 719 PEE PEE . UA 30 PEE l 1 705 720 PEE PEE . VA 31 CDL n 1 101 102 CDL CDL . WA 30 PEE r 1 501 202 PEE PEE . XA 33 PLX r 1 502 205 PLX PLX . YA 33 PLX r 1 503 201 PLX PLX . ZA 30 PEE s 1 401 201 PEE PEE . AB 31 CDL s 1 402 201 CDL CDL . BB 30 PEE s 1 403 401 PEE PEE . CB 34 UQ s 1 404 402 UQ UQ . DB 35 ADP w 1 401 401 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 . . . DB 35 193.656 128.943 175.164 0.67 55.01 ? PB ADP 401 w 1 HETATM 2 O O1B ADP . . . DB 35 194.031 128.684 173.73 0.67 40.52 ? O1B ADP 401 w 1 HETATM 3 O O2B ADP . . . DB 35 192.598 127.969 175.589 0.67 42.37 ? O2B ADP 401 w 1 HETATM 4 O O3B ADP . . . DB 35 194.885 128.776 176.05 0.67 45.21 ? O3B ADP 401 w 1 HETATM 5 P PA ADP . . . DB 35 191.689 131.005 174.58 0.67 44.35 ? PA ADP 401 w 1 HETATM 6 O O1A ADP . . . DB 35 191.057 129.868 173.83 0.67 42.9 ? O1A ADP 401 w 1 HETATM 7 O O2A ADP . . . DB 35 190.728 131.518 175.621 0.67 44.15 ? O2A ADP 401 w 1 HETATM 8 O O3A ADP . . . DB 35 193.078 130.472 175.317 0.67 45.59 ? O3A ADP 401 w 1 HETATM 9 O O5' ADP . . . DB 35 192.054 132.215 173.524 0.67 44.93 ? O5' ADP 401 w 1 HETATM 10 C C5' ADP . . . DB 35 193.378 132.694 173.481 0.67 43.78 ? C5' ADP 401 w 1 HETATM 11 C C4' ADP . . . DB 35 193.327 134.227 173.386 0.67 41.21 ? C4' ADP 401 w 1 HETATM 12 O O4' ADP . . . DB 35 192.583 134.662 172.018 0.67 43.19 ? O4' ADP 401 w 1 HETATM 13 C C3' ADP . . . DB 35 192.64 134.707 174.377 0.67 42.11 ? C3' ADP 401 w 1 HETATM 14 O O3' ADP . . . DB 35 193.496 135.63 175.191 0.67 44.9 ? O3' ADP 401 w 1 HETATM 15 C C2' ADP . . . DB 35 191.459 135.501 173.755 0.67 41.53 ? C2' ADP 401 w 1 HETATM 16 O O2' ADP . . . DB 35 191.306 136.68 174.388 0.67 43.6 ? O2' ADP 401 w 1 HETATM 17 C C1' ADP . . . DB 35 191.893 135.735 172.315 0.67 42.57 ? C1' ADP 401 w 1 HETATM 18 N N9 ADP . . . DB 35 190.701 135.86 171.415 0.67 41.36 ? N9 ADP 401 w 1 HETATM 19 C C8 ADP . . . DB 35 190.085 134.868 170.81 0.67 39.6 ? C8 ADP 401 w 1 HETATM 20 N N7 ADP . . . DB 35 189.071 135.361 170.092 0.67 41.65 ? N7 ADP 401 w 1 HETATM 21 C C5 ADP . . . DB 35 189.048 136.695 170.248 0.67 41.61 ? C5 ADP 401 w 1 HETATM 22 C C6 ADP . . . DB 35 188.217 137.738 169.743 0.67 41.9 ? C6 ADP 401 w 1 HETATM 23 N N6 ADP . . . DB 35 187.091 137.444 168.835 0.67 40.26 ? N6 ADP 401 w 1 HETATM 24 N N1 ADP . . . DB 35 188.489 138.989 170.114 0.67 42.17 ? N1 ADP 401 w 1 HETATM 25 C C2 ADP . . . DB 35 189.497 139.272 170.928 0.67 40.63 ? C2 ADP 401 w 1 HETATM 26 N N3 ADP . . . DB 35 190.293 138.318 171.418 0.67 40.21 ? N3 ADP 401 w 1 HETATM 27 C C4 ADP . . . DB 35 190.089 137.024 171.093 0.67 39.99 ? C4 ADP 401 w 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 63 _model_server_stats.query_time_ms 255 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #