data_5M32 # _model_server_result.job_id ZdEuxskKbVRaRuMTnLAUNw _model_server_result.datetime_utc '2025-09-06 13:26:22' _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":"XA","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 C 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 C 6VA 4 u 6VA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.42 ? covale ? covale5 TA C 6V9 1 t 6V9 1 1_555 TA N 7C9 2 t 7C9 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale6 TA C 7C9 2 t 7C9 2 1_555 TA N 7C9 3 t 7C9 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale7 TA C 7C9 3 t 7C9 3 1_555 TA N 6VA 4 t 6VA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale8 UA C 6V9 1 u 6V9 1 1_555 UA N 7C9 2 u 7C9 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale9 UA C 7C9 2 u 7C9 2 1_555 UA N 7C9 3 u 7C9 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale10 UA C 7C9 3 u 7C9 3 1_555 UA N 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 ? # 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 65 n n PB O2B ADP sing 66 n n PB O3B ADP sing 67 n n PB O3A ADP sing 68 n n O2B HOB2 ADP sing 69 n n O3B HOB3 ADP sing 70 n n PA O1A ADP doub 71 n n PA O2A ADP sing 72 n n PA O3A ADP sing 73 n n PA O5' ADP sing 74 n n O2A HOA2 ADP sing 75 n n O5' C5' ADP sing 76 n n C5' C4' ADP sing 77 n n C5' "H5'1" ADP sing 78 n n C5' "H5'2" ADP sing 79 n n C4' O4' ADP sing 80 n n C4' C3' ADP sing 81 n n C4' H4' ADP sing 82 n n O4' C1' ADP sing 83 n n C3' O3' ADP sing 84 n n C3' C2' ADP sing 85 n n C3' H3' ADP sing 86 n n O3' HO3' ADP sing 87 n n C2' O2' ADP sing 88 n n C2' C1' ADP sing 89 n n C2' H2' ADP sing 90 n n O2' HO2' ADP sing 91 n n C1' N9 ADP sing 92 n n C1' H1' ADP sing 93 n n N9 C8 ADP sing 94 n y N9 C4 ADP sing 95 n y C8 N7 ADP doub 96 n y C8 H8 ADP sing 97 n n N7 C5 ADP sing 98 n y C5 C6 ADP sing 99 n y C5 C4 ADP doub 100 n y C6 N6 ADP sing 101 n n C6 N1 ADP doub 102 n y N6 HN61 ADP sing 103 n n N6 HN62 ADP sing 104 n n N1 C2 ADP sing 105 n y C2 N3 ADP doub 106 n y C2 H2 ADP sing 107 n n N3 C4 ADP sing 108 n y # _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 . . . XA 35 240.721 209.351 183.347 1 0 ? PB ADP 501 e 1 HETATM 2 O O1B ADP . . . XA 35 241.04 209.765 181.93 1 0 ? O1B ADP 501 e 1 HETATM 3 O O2B ADP . . . XA 35 239.916 210.363 184.127 1 0 ? O2B ADP 501 e 1 HETATM 4 O O3B ADP . . . XA 35 240.235 207.928 183.486 1 0 ? O3B ADP 501 e 1 HETATM 5 P PA ADP . . . XA 35 242.251 209.191 185.681 1 0 ? PA ADP 501 e 1 HETATM 6 O O1A ADP . . . XA 35 241.866 207.777 186.044 1 0 ? O1A ADP 501 e 1 HETATM 7 O O2A ADP . . . XA 35 241.526 210.355 186.313 1 0 ? O2A ADP 501 e 1 HETATM 8 O O3A ADP . . . XA 35 242.154 209.345 184.081 1 0 ? O3A ADP 501 e 1 HETATM 9 O O5' ADP . . . XA 35 243.827 209.371 185.956 1 0 ? O5' ADP 501 e 1 HETATM 10 C C5' ADP . . . XA 35 244.303 210.443 186.768 1 0 ? C5' ADP 501 e 1 HETATM 11 C C4' ADP . . . XA 35 245.824 210.393 186.835 1 0 ? C4' ADP 501 e 1 HETATM 12 O O4' ADP . . . XA 35 246.232 209.604 187.956 1 0 ? O4' ADP 501 e 1 HETATM 13 C C3' ADP . . . XA 35 246.411 209.763 185.58 1 0 ? C3' ADP 501 e 1 HETATM 14 O O3' ADP . . . XA 35 247.228 210.721 184.895 1 0 ? O3' ADP 501 e 1 HETATM 15 C C2' ADP . . . XA 35 247.196 208.544 186.046 1 0 ? C2' ADP 501 e 1 HETATM 16 O O2' ADP . . . XA 35 248.586 208.613 185.701 1 0 ? O2' ADP 501 e 1 HETATM 17 C C1' ADP . . . XA 35 247.045 208.496 187.559 1 0 ? C1' ADP 501 e 1 HETATM 18 N N9 ADP . . . XA 35 246.388 207.226 187.957 1 0 ? N9 ADP 501 e 1 HETATM 19 C C8 ADP . . . XA 35 245.064 207.04 188.115 1 0 ? C8 ADP 501 e 1 HETATM 20 N N7 ADP . . . XA 35 244.788 205.763 188.483 1 0 ? N7 ADP 501 e 1 HETATM 21 C C5 ADP . . . XA 35 245.96 205.106 188.567 1 0 ? C5 ADP 501 e 1 HETATM 22 C C6 ADP . . . XA 35 246.389 203.728 188.905 1 0 ? C6 ADP 501 e 1 HETATM 23 N N6 ADP . . . XA 35 245.486 202.774 189.237 1 0 ? N6 ADP 501 e 1 HETATM 24 N N1 ADP . . . XA 35 247.713 203.456 188.872 1 0 ? N1 ADP 501 e 1 HETATM 25 C C2 ADP . . . XA 35 248.62 204.395 188.544 1 0 ? C2 ADP 501 e 1 HETATM 26 N N3 ADP . . . XA 35 248.301 205.663 188.226 1 0 ? N3 ADP 501 e 1 HETATM 27 C C4 ADP . . . XA 35 247.011 206.074 188.219 1 0 ? C4 ADP 501 e 1 # _model_server_stats.io_time_ms 203 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 89 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #