data_7PME # _model_server_result.job_id 8RY90yQkslbBxy5NbcXAiw _model_server_result.datetime_utc '2024-11-12 21:09:19' _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 7pme # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":401}' # _entry.id 7PME # _exptl.entry_id 7PME _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 3 _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 7PME _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7PME _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 decameric _pdbx_struct_assembly.oligomeric_count 10 _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 _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 ? 7 N N N ? 7 S N N ? 7 U 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 covale ? covale1 C C GLU 74 C GLU 72 1_555 C N HIC 75 C HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 C C HIC 75 C HIC 73 1_555 C N GLY 76 C GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale3 D C TRP 1 H TRP 1 1_555 D N EEP 2 H EEP 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale4 D CD1 TRP 1 H TRP 1 1_555 D SG CYS 5 H CYS 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.731 ? covale ? covale5 D N TRP 1 H TRP 1 1_555 D C ALA 7 H ALA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.313 ? covale ? covale6 D C EEP 2 H EEP 2 1_555 D N ALA 3 H ALA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? covale ? covale7 D C ALA 3 H ALA 3 1_555 D N DTH 4 H DTH 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale8 D C DTH 4 H DTH 4 1_555 D N CYS 5 H CYS 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale9 D C CYS 5 H CYS 5 1_555 D N HYP 6 H HYP 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale10 D C HYP 6 H HYP 6 1_555 D N ALA 7 H ALA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.376 ? covale ? covale11 G C GLU 74 F GLU 72 1_555 G N HIC 75 F HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale12 G C HIC 75 F HIC 73 1_555 G N GLY 76 F GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale13 H C TRP 1 I TRP 1 1_555 H N EEP 2 I EEP 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.316 ? covale ? covale14 H CD1 TRP 1 I TRP 1 1_555 H SG CYS 5 I CYS 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.732 ? covale ? covale15 H N TRP 1 I TRP 1 1_555 H C ALA 7 I ALA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.313 ? covale ? covale16 H C EEP 2 I EEP 2 1_555 H N ALA 3 I ALA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.314 ? covale ? covale17 H C ALA 3 I ALA 3 1_555 H N DTH 4 I DTH 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale18 H C DTH 4 I DTH 4 1_555 H N CYS 5 I CYS 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale19 H C CYS 5 I CYS 5 1_555 H N HYP 6 I HYP 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale20 H C HYP 6 I HYP 6 1_555 H N ALA 7 I ALA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.375 ? covale ? covale21 I C GLU 74 G GLU 72 1_555 I N HIC 75 G HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale22 I C HIC 75 G HIC 73 1_555 I N GLY 76 G GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale23 J C TRP 1 J TRP 1 1_555 J N EEP 2 J EEP 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.317 ? covale ? covale24 J CD1 TRP 1 J TRP 1 1_555 J SG CYS 5 J CYS 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.733 ? covale ? covale25 J N TRP 1 J TRP 1 1_555 J C ALA 7 J ALA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.313 ? covale ? covale26 J C EEP 2 J EEP 2 1_555 J N ALA 3 J ALA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.313 ? covale ? covale27 J C ALA 3 J ALA 3 1_555 J N DTH 4 J DTH 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale28 J C DTH 4 J DTH 4 1_555 J N CYS 5 J CYS 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale29 J C CYS 5 J CYS 5 1_555 J N HYP 6 J HYP 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale30 J C HYP 6 J HYP 6 1_555 J N ALA 7 J ALA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? metalc ? metalc1 K O2G ANP . A ANP 1901 1_555 L MG MG . A MG 1902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.809 ? metalc ? metalc2 K O3G ANP . A ANP 1901 1_555 L MG MG . A MG 1902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc3 K O1B ANP . A ANP 1901 1_555 M MG MG . A MG 1903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc4 K O1A ANP . A ANP 1901 1_555 M MG MG . A MG 1903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.743 ? metalc ? metalc5 N O3B ADP . C ADP 401 1_555 O MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? metalc ? metalc6 P O3G ANP . D ANP 1901 1_555 Q MG MG . D MG 1902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.224 ? metalc ? metalc7 P O1B ANP . D ANP 1901 1_555 R MG MG . D MG 1903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc8 P O1A ANP . D ANP 1901 1_555 R MG MG . D MG 1903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.773 ? metalc ? metalc9 S O3B ADP . F ADP 401 1_555 T MG MG . F MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? metalc ? metalc10 U O3B ADP . G ADP 401 1_555 V MG MG . G MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? # _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 7PME _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 K 5 ANP A 1 1901 793 ANP ANP . L 6 MG A 1 1902 794 MG MG . M 6 MG A 1 1903 795 MG MG . N 7 ADP C 1 401 376 ADP ADP . O 6 MG C 1 402 377 MG MG . P 5 ANP D 1 1901 793 ANP ANP . Q 6 MG D 1 1902 794 MG MG . R 6 MG D 1 1903 795 MG MG . S 7 ADP F 1 401 376 ADP ADP . T 6 MG F 1 402 377 MG MG . U 7 ADP G 1 401 376 ADP ADP . V 6 MG G 1 402 377 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 PB ADP . . . N 7 190.023 165.789 172.915 1 61.77 ? PB ADP 401 C 1 HETATM 2 O O1B ADP . . . N 7 190.879 164.685 172.341 1 61.77 ? O1B ADP 401 C 1 HETATM 3 O O2B ADP . . . N 7 188.547 165.631 172.654 1 61.77 ? O2B ADP 401 C 1 HETATM 4 O O3B ADP . . . N 7 190.369 166.172 174.334 1 61.77 ? O3B ADP 401 C 1 HETATM 5 P PA ADP . . . N 7 191.909 167.652 171.981 1 61.77 ? PA ADP 401 C 1 HETATM 6 O O1A ADP . . . N 7 192.703 166.832 170.996 1 61.77 ? O1A ADP 401 C 1 HETATM 7 O O2A ADP . . . N 7 192.412 167.835 173.391 1 61.77 ? O2A ADP 401 C 1 HETATM 8 O O3A ADP . . . N 7 190.409 167.074 172.029 1 61.77 ? O3A ADP 401 C 1 HETATM 9 O O5' ADP . . . N 7 191.641 169.097 171.337 1 61.77 ? O5' ADP 401 C 1 HETATM 10 C C5' ADP . . . N 7 191.3 169.176 169.957 1 61.77 ? C5' ADP 401 C 1 HETATM 11 C C4' ADP . . . N 7 190.475 170.425 169.703 1 61.77 ? C4' ADP 401 C 1 HETATM 12 O O4' ADP . . . N 7 191.277 171.573 169.997 1 61.77 ? O4' ADP 401 C 1 HETATM 13 C C3' ADP . . . N 7 190.083 170.563 168.248 1 61.77 ? C3' ADP 401 C 1 HETATM 14 O O3' ADP . . . N 7 188.854 171.284 168.133 1 61.77 ? O3' ADP 401 C 1 HETATM 15 C C2' ADP . . . N 7 191.214 171.364 167.657 1 61.77 ? C2' ADP 401 C 1 HETATM 16 O O2' ADP . . . N 7 190.743 172.139 166.554 1 61.77 ? O2' ADP 401 C 1 HETATM 17 C C1' ADP . . . N 7 191.611 172.28 168.797 1 61.77 ? C1' ADP 401 C 1 HETATM 18 N N9 ADP . . . N 7 193.065 172.563 168.744 1 61.77 ? N9 ADP 401 C 1 HETATM 19 C C8 ADP . . . N 7 194.058 171.665 168.632 1 61.77 ? C8 ADP 401 C 1 HETATM 20 N N7 ADP . . . N 7 195.268 172.281 168.609 1 61.77 ? N7 ADP 401 C 1 HETATM 21 C C5 ADP . . . N 7 195.054 173.604 168.705 1 61.77 ? C5 ADP 401 C 1 HETATM 22 C C6 ADP . . . N 7 195.885 174.828 168.741 1 61.77 ? C6 ADP 401 C 1 HETATM 23 N N6 ADP . . . N 7 197.236 174.765 168.667 1 61.77 ? N6 ADP 401 C 1 HETATM 24 N N1 ADP . . . N 7 195.251 176.015 168.851 1 61.77 ? N1 ADP 401 C 1 HETATM 25 C C2 ADP . . . N 7 193.911 176.1 168.927 1 61.77 ? C2 ADP 401 C 1 HETATM 26 N N3 ADP . . . N 7 193.097 175.033 168.9 1 61.77 ? N3 ADP 401 C 1 HETATM 27 C C4 ADP . . . N 7 193.599 173.782 168.794 1 61.77 ? C4 ADP 401 C 1 # _model_server_stats.io_time_ms 62 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 334 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #