data_6MSD # _model_server_result.job_id RDIjf0fyNqzPB7BsIobv7A _model_server_result.datetime_utc '2024-10-18 16:23:07' _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 6msd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"EB","auth_seq_id":401}' # _entry.id 6MSD # _exptl.entry_id 6MSD _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 35 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _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 6MSD _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6MSD _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 48-meric _pdbx_struct_assembly.oligomeric_count 48 _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,EB,FB,GB,HB _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 XA N N ? 35 ZA N N ? 35 CB N N ? 35 EB 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 M SG CYS 236 A CYS 236 1_555 M SG CYS 270 A CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 AA SG CYS 41 M CYS 41 1_555 AA SG CYS 186 M CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 GA SG CYS 70 S CYS 43 1_555 GA SG CYS 223 S CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf4 OA SG CYS 41 m CYS 41 1_555 OA SG CYS 186 m CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf5 UA SG CYS 70 s CYS 43 1_555 UA SG CYS 223 s CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? metalc ? metalc1 I OE2 GLU 51 c GLU 52 1_555 WA ZN ZN . c ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc2 I ND1 HIS 112 c HIS 113 1_555 WA ZN ZN . c ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.587 ? metalc ? metalc3 I OD2 ASP 125 c ASP 126 1_555 WA ZN ZN . c ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc4 M OG1 THR 223 A THR 223 1_555 YA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.208 ? metalc ? metalc5 N OG1 THR 233 B THR 233 1_555 AB MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc6 P OG1 THR 213 D THR 213 1_555 DB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc7 Q OG1 THR 195 E THR 181 1_555 FB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc8 R OD1 ASP 286 F ASP 286 1_555 HB MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.894 ? metalc ? metalc9 R OD2 ASP 286 F ASP 286 1_555 HB MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.879 ? metalc ? metalc10 XA O1G ATP . A ATP 501 1_555 YA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc11 XA O3G ATP . A ATP 501 1_555 YA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc12 XA O2B ATP . A ATP 501 1_555 YA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? metalc ? metalc13 ZA O1G ATP . B ATP 501 1_555 AB MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? metalc ? metalc14 ZA O1B ATP . B ATP 501 1_555 AB MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc15 ZA O3B ATP . B ATP 501 1_555 AB MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? metalc ? metalc16 ZA O2A ATP . B ATP 501 1_555 AB MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? metalc ? metalc17 CB O1G ATP . D ATP 501 1_555 DB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc18 CB O2G ATP . D ATP 501 1_555 DB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc19 CB O1B ATP . D ATP 501 1_555 DB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc20 EB O2G ATP . E ATP 401 1_555 FB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc21 EB O3G ATP . E ATP 401 1_555 FB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc22 EB O1B ATP . E ATP 401 1_555 FB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc23 GB O3B ADP . F ADP 501 1_555 HB MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 6MSD _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 WA 34 ZN c 1 401 401 ZN ZN . XA 35 ATP A 1 501 434 ATP ATP . YA 36 MG A 1 502 435 MG MG . ZA 35 ATP B 1 501 441 ATP ATP . AB 36 MG B 1 502 442 MG MG . BB 37 ADP C 1 501 407 ADP ADP . CB 35 ATP D 1 501 419 ATP ATP . DB 36 MG D 1 502 420 MG MG . EB 35 ATP E 1 401 390 ATP ATP . FB 36 MG E 1 402 391 MG MG . GB 37 ADP F 1 501 440 ADP ADP . HB 36 MG F 1 502 441 MG MG . # 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 PG ATP . . . EB 35 245.318 237.399 217.838 1 108 ? PG ATP 401 E 1 HETATM 2 O O1G ATP . . . EB 35 244.233 237.462 216.8 1 108 ? O1G ATP 401 E 1 HETATM 3 O O2G ATP . . . EB 35 245.667 236.005 218.285 1 108 ? O2G ATP 401 E 1 HETATM 4 O O3G ATP . . . EB 35 246.491 238.293 217.535 1 108 ? O3G ATP 401 E 1 HETATM 5 P PB ATP . . . EB 35 245.41 238.077 220.53 1 108 ? PB ATP 401 E 1 HETATM 6 O O1B ATP . . . EB 35 246.823 237.618 220.327 1 108 ? O1B ATP 401 E 1 HETATM 7 O O2B ATP . . . EB 35 244.53 237.376 221.525 1 108 ? O2B ATP 401 E 1 HETATM 8 O O3B ATP . . . EB 35 244.647 238.08 219.124 1 108 ? O3B ATP 401 E 1 HETATM 9 P PA ATP . . . EB 35 246.869 240.24 221.299 1 108 ? PA ATP 401 E 1 HETATM 10 O O1A ATP . . . EB 35 247.659 240.37 220.028 1 108 ? O1A ATP 401 E 1 HETATM 11 O O2A ATP . . . EB 35 247.448 239.467 222.45 1 108 ? O2A ATP 401 E 1 HETATM 12 O O3A ATP . . . EB 35 245.444 239.619 220.934 1 108 ? O3A ATP 401 E 1 HETATM 13 O O5' ATP . . . EB 35 246.483 241.701 221.815 1 108 ? O5' ATP 401 E 1 HETATM 14 C C5' ATP . . . EB 35 245.866 242.602 220.91 1 108 ? C5' ATP 401 E 1 HETATM 15 C C4' ATP . . . EB 35 245.666 243.937 221.609 1 108 ? C4' ATP 401 E 1 HETATM 16 O O4' ATP . . . EB 35 244.493 243.916 222.412 1 108 ? O4' ATP 401 E 1 HETATM 17 C C3' ATP . . . EB 35 246.824 244.27 222.521 1 108 ? C3' ATP 401 E 1 HETATM 18 O O3' ATP . . . EB 35 247.573 245.336 221.946 1 108 ? O3' ATP 401 E 1 HETATM 19 C C2' ATP . . . EB 35 246.204 244.767 223.798 1 108 ? C2' ATP 401 E 1 HETATM 20 O O2' ATP . . . EB 35 246.491 246.16 223.901 1 108 ? O2' ATP 401 E 1 HETATM 21 C C1' ATP . . . EB 35 244.713 244.57 223.652 1 108 ? C1' ATP 401 E 1 HETATM 22 N N9 ATP . . . EB 35 244.246 243.628 224.679 1 108 ? N9 ATP 401 E 1 HETATM 23 C C8 ATP . . . EB 35 243.837 242.382 224.412 1 108 ? C8 ATP 401 E 1 HETATM 24 N N7 ATP . . . EB 35 243.461 241.74 225.539 1 108 ? N7 ATP 401 E 1 HETATM 25 C C5 ATP . . . EB 35 243.634 242.594 226.553 1 108 ? C5 ATP 401 E 1 HETATM 26 C C6 ATP . . . EB 35 243.426 242.546 228.006 1 108 ? C6 ATP 401 E 1 HETATM 27 N N6 ATP . . . EB 35 242.953 241.427 228.595 1 108 ? N6 ATP 401 E 1 HETATM 28 N N1 ATP . . . EB 35 243.727 243.645 228.716 1 108 ? N1 ATP 401 E 1 HETATM 29 C C2 ATP . . . EB 35 244.196 244.754 228.126 1 108 ? C2 ATP 401 E 1 HETATM 30 N N3 ATP . . . EB 35 244.408 244.87 226.808 1 108 ? N3 ATP 401 E 1 HETATM 31 C C4 ATP . . . EB 35 244.148 243.839 225.984 1 108 ? C4 ATP 401 E 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 133 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #