data_4EWV # _model_server_result.job_id rxwY5_dMkRtR3FkM_a3lzQ _model_server_result.datetime_utc '2024-11-07 22:41:55' _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 4ewv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 4EWV # _exptl.entry_id 4EWV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' _entity.pdbx_number_of_molecules 2 _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 4EWV _cell.length_a 116.348 _cell.length_b 116.348 _cell.length_c 94.663 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4EWV _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D 1 1 B,E 2 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 x,y,z _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 ? 2 C N N ? 2 E N N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id C _struct_conn.ptnr1_label_atom_id O2B _struct_conn.ptnr1_label_comp_id APC _struct_conn.ptnr1_label_seq_id . _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id APC _struct_conn.ptnr1_auth_seq_id 601 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id D _struct_conn.ptnr2_label_atom_id MN _struct_conn.ptnr2_label_comp_id MN _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id MN _struct_conn.ptnr2_auth_seq_id 602 _struct_conn.ptnr2_symmetry 1_555 _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 2.22 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id APC _chem_comp.mon_nstd_flag . _chem_comp.name 'DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE" # 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 PG O1G APC doub 13 n n PG O2G APC sing 14 n n PG O3G APC sing 15 n n PG O3B APC sing 16 n n O2G HOG2 APC sing 17 n n O3G HOG3 APC sing 18 n n PB O1B APC doub 19 n n PB O2B APC sing 20 n n PB O3B APC sing 21 n n PB C3A APC sing 22 n n O2B HOB2 APC sing 23 n n PA O1A APC doub 24 n n PA O2A APC sing 25 n n PA C3A APC sing 26 n n PA O5' APC sing 27 n n O2A HOA2 APC sing 28 n n C3A H3A1 APC sing 29 n n C3A H3A2 APC sing 30 n n O5' C5' APC sing 31 n n C5' C4' APC sing 32 n n C5' "H5'1" APC sing 33 n n C5' "H5'2" APC sing 34 n n C4' O4' APC sing 35 n n C4' C3' APC sing 36 n n C4' H4' APC sing 37 n n O4' C1' APC sing 38 n n C3' O3' APC sing 39 n n C3' C2' APC sing 40 n n C3' H3' APC sing 41 n n O3' HO3' APC sing 42 n n C2' O2' APC sing 43 n n C2' C1' APC sing 44 n n C2' H2' APC sing 45 n n O2' HO2' APC sing 46 n n C1' N9 APC sing 47 n n C1' H1' APC sing 48 n n N9 C8 APC sing 49 n y N9 C4 APC sing 50 n y C8 N7 APC doub 51 n y C8 H8 APC sing 52 n n N7 C5 APC sing 53 n y C5 C6 APC sing 54 n y C5 C4 APC doub 55 n y C6 N6 APC sing 56 n n C6 N1 APC doub 57 n y N6 HN61 APC sing 58 n n N6 HN62 APC sing 59 n n N1 C2 APC sing 60 n y C2 N3 APC doub 61 n y C2 H2 APC sing 62 n n N3 C4 APC sing 63 n y # _atom_sites.entry_id 4EWV _atom_sites.fract_transf_matrix[1][1] 0.008595 _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] 0.008595 _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] 0.010564 _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 C 2 APC A 1 601 601 APC APC . D 3 MN A 1 602 1 MN MN . E 2 APC B 1 601 601 APC APC . # 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 APC . . . C 2 26.421 -46.216 -10.469 1 121.11 ? PG APC 601 A 1 HETATM 2 O O1G APC . . . C 2 27.418 -47.173 -9.861 1 128.65 ? O1G APC 601 A 1 HETATM 3 O O2G APC . . . C 2 25.002 -46.732 -10.502 1 115.23 ? O2G APC 601 A 1 HETATM 4 O O3G APC . . . C 2 26.88 -45.571 -11.755 1 121.38 ? O3G APC 601 A 1 HETATM 5 P PB APC . . . C 2 25.506 -45.121 -8.064 1 49.12 ? PB APC 601 A 1 HETATM 6 O O1B APC . . . C 2 24.308 -45.952 -8.315 1 223.25 ? O1B APC 601 A 1 HETATM 7 O O2B APC . . . C 2 26.407 -45.809 -6.921 1 58.72 ? O2B APC 601 A 1 HETATM 8 O O3B APC . . . C 2 26.365 -44.995 -9.42 1 217.82 ? O3B APC 601 A 1 HETATM 9 P PA APC . . . C 2 26.458 -42.426 -7.297 1 180.4 ? PA APC 601 A 1 HETATM 10 O O1A APC . . . C 2 27.418 -43.106 -6.399 1 39.68 ? O1A APC 601 A 1 HETATM 11 O O2A APC . . . C 2 27.152 -42.163 -8.726 1 181.46 ? O2A APC 601 A 1 HETATM 12 C C3A APC . . . C 2 24.994 -43.471 -7.519 1 119.35 ? C3A APC 601 A 1 HETATM 13 O O5' APC . . . C 2 26.019 -41.019 -6.647 1 112.12 ? O5' APC 601 A 1 HETATM 14 C C5' APC . . . C 2 25.396 -40.978 -5.365 1 101.14 ? C5' APC 601 A 1 HETATM 15 C C4' APC . . . C 2 25.264 -42.393 -4.818 1 87.44 ? C4' APC 601 A 1 HETATM 16 O O4' APC . . . C 2 26.274 -42.626 -3.832 1 78.9 ? O4' APC 601 A 1 HETATM 17 C C3' APC . . . C 2 23.912 -42.607 -4.159 1 71.17 ? C3' APC 601 A 1 HETATM 18 O O3' APC . . . C 2 23.207 -43.664 -4.816 1 66.89 ? O3' APC 601 A 1 HETATM 19 C C2' APC . . . C 2 24.196 -42.988 -2.72 1 55.41 ? C2' APC 601 A 1 HETATM 20 O O2' APC . . . C 2 23.675 -44.292 -2.446 1 51.43 ? O2' APC 601 A 1 HETATM 21 C C1' APC . . . C 2 25.709 -42.99 -2.57 1 56.84 ? C1' APC 601 A 1 HETATM 22 N N9 APC . . . C 2 26.111 -42.002 -1.537 1 56.13 ? N9 APC 601 A 1 HETATM 23 C C8 APC . . . C 2 25.836 -40.684 -1.56 1 60.75 ? C8 APC 601 A 1 HETATM 24 N N7 APC . . . C 2 26.344 -40.059 -0.467 1 58.02 ? N7 APC 601 A 1 HETATM 25 C C5 APC . . . C 2 26.962 -40.992 0.281 1 66.24 ? C5 APC 601 A 1 HETATM 26 C C6 APC . . . C 2 27.708 -41.013 1.562 1 79.63 ? C6 APC 601 A 1 HETATM 27 N N6 APC . . . C 2 27.898 -39.879 2.28 1 72.7 ? N6 APC 601 A 1 HETATM 28 N N1 APC . . . C 2 28.191 -42.2 1.989 1 86.37 ? N1 APC 601 A 1 HETATM 29 C C2 APC . . . C 2 28.008 -43.333 1.285 1 88.31 ? C2 APC 601 A 1 HETATM 30 N N3 APC . . . C 2 27.343 -43.388 0.117 1 80.37 ? N3 APC 601 A 1 HETATM 31 C C4 APC . . . C 2 26.805 -42.271 -0.429 1 64.16 ? C4 APC 601 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 31 #