data_5M32 # _model_server_result.job_id S4EONw2cITtEoGcLKtdeSg _model_server_result.datetime_utc '2025-01-02 21:33:55' _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 5m32 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"YA","auth_seq_id":501}' # _entry.id 5M32 # _exptl.entry_id 5M32 _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 6 _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 5M32 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5M32 _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 PISA _pdbx_struct_assembly.oligomeric_details 42-meric _pdbx_struct_assembly.oligomeric_count 42 _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,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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 35 VA N N ? 35 WA N N ? 35 XA N N ? 35 YA N N ? 35 ZA N N ? 35 AB N 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 L SG CYS 71 L CYS 43 1_555 L SG CYS 224 L CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 L SG CYS 82 L CYS 54 1_555 L SG CYS 89 L CYS 61 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf3 Z SG CYS 71 Z CYS 43 1_555 Z SG CYS 224 Z CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 Z SG CYS 82 Z CYS 54 1_555 Z SG CYS 89 Z CYS 61 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf5 CA SG CYS 236 c CYS 236 1_555 CA SG CYS 270 c CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? covale ? covale1 K N THR 1 K THR 1 1_555 TA C23 6VA 4 t 6VA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.481 ? covale ? covale2 K OG1 THR 1 K THR 1 1_555 TA C21 6VA 4 t 6VA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? covale ? covale3 Y N THR 1 Y THR 1 1_555 UA C23 6VA 4 u 6VA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.481 ? covale ? covale4 Y OG1 THR 1 Y THR 1 1_555 UA C21 6VA 4 u 6VA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.42 ? covale ? covale5 TA C4 6V9 1 t 6V9 1 1_555 TA N03 7C9 2 t 7C9 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale6 TA C05 7C9 2 t 7C9 2 1_555 TA N03 7C9 3 t 7C9 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale7 TA C05 7C9 3 t 7C9 3 1_555 TA N3 6VA 4 t 6VA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale8 UA C4 6V9 1 u 6V9 1 1_555 UA N03 7C9 2 u 7C9 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale9 UA C05 7C9 2 u 7C9 2 1_555 UA N03 7C9 3 u 7C9 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale10 UA C05 7C9 3 u 7C9 3 1_555 UA N3 6VA 4 u 6VA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? # _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 5M32 _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 VA 35 ADP c 1 501 439 ADP ADP . WA 35 ADP d 1 501 439 ADP ADP . XA 35 ADP e 1 501 439 ADP ADP . YA 35 ADP g 1 501 439 ADP ADP . ZA 35 ADP g 1 502 440 ADP ADP . AB 35 ADP h 1 401 439 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 . . . YA 35 238.574 238.986 190.658 1 0 ? PB ADP 501 g 1 HETATM 2 O O1B ADP . . . YA 35 239.223 239.363 189.354 1 0 ? O1B ADP 501 g 1 HETATM 3 O O2B ADP . . . YA 35 237.072 238.897 190.607 1 0 ? O2B ADP 501 g 1 HETATM 4 O O3B ADP . . . YA 35 239.255 237.869 191.402 1 0 ? O3B ADP 501 g 1 HETATM 5 P PA ADP . . . YA 35 240.429 240.662 191.674 1 0 ? PA ADP 501 g 1 HETATM 6 O O1A ADP . . . YA 35 241.19 239.573 190.975 1 0 ? O1A ADP 501 g 1 HETATM 7 O O2A ADP . . . YA 35 240.729 240.974 193.111 1 0 ? O2A ADP 501 g 1 HETATM 8 O O3A ADP . . . YA 35 238.893 240.254 191.573 1 0 ? O3A ADP 501 g 1 HETATM 9 O O5' ADP . . . YA 35 240.492 242.006 190.8 1 0 ? O5' ADP 501 g 1 HETATM 10 C C5' ADP . . . YA 35 241.659 242.819 190.797 1 0 ? C5' ADP 501 g 1 HETATM 11 C C4' ADP . . . YA 35 241.473 243.944 191.801 1 0 ? C4' ADP 501 g 1 HETATM 12 O O4' ADP . . . YA 35 241.499 243.405 193.119 1 0 ? O4' ADP 501 g 1 HETATM 13 C C3' ADP . . . YA 35 242.585 244.976 191.727 1 0 ? C3' ADP 501 g 1 HETATM 14 O O3' ADP . . . YA 35 242.128 246.134 191.015 1 0 ? O3' ADP 501 g 1 HETATM 15 C C2' ADP . . . YA 35 242.987 245.26 193.17 1 0 ? C2' ADP 501 g 1 HETATM 16 O O2' ADP . . . YA 35 242.645 246.576 193.617 1 0 ? O2' ADP 501 g 1 HETATM 17 C C1' ADP . . . YA 35 242.217 244.258 194.009 1 0 ? C1' ADP 501 g 1 HETATM 18 N N9 ADP . . . YA 35 243.153 243.46 194.835 1 0 ? N9 ADP 501 g 1 HETATM 19 C C8 ADP . . . YA 35 242.906 242.245 195.353 1 0 ? C8 ADP 501 g 1 HETATM 20 N N7 ADP . . . YA 35 243.965 241.792 196.066 1 0 ? N7 ADP 501 g 1 HETATM 21 C C5 ADP . . . YA 35 244.915 242.735 196.006 1 0 ? C5 ADP 501 g 1 HETATM 22 C C6 ADP . . . YA 35 246.277 242.895 196.537 1 0 ? C6 ADP 501 g 1 HETATM 23 N N6 ADP . . . YA 35 246.845 241.931 197.293 1 0 ? N6 ADP 501 g 1 HETATM 24 N N1 ADP . . . YA 35 246.929 244.034 196.242 1 0 ? N1 ADP 501 g 1 HETATM 25 C C2 ADP . . . YA 35 246.371 245 195.494 1 0 ? C2 ADP 501 g 1 HETATM 26 N N3 ADP . . . YA 35 245.137 244.92 194.978 1 0 ? N3 ADP 501 g 1 HETATM 27 C C4 ADP . . . YA 35 244.376 243.831 195.197 1 0 ? C4 ADP 501 g 1 # _model_server_stats.io_time_ms 78 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 188 _model_server_stats.query_time_ms 380 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #