data_5C93 # _model_server_result.job_id YQiyFSMiDME_U58z4pfgOw _model_server_result.datetime_utc '2024-12-01 01:23:12' _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 5c93 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":701}' # _entry.id 5C93 # _exptl.entry_id 5C93 _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 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE 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 5C93 _cell.length_a 54.645 _cell.length_b 97.757 _cell.length_c 117.342 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5C93 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 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 G N N # _chem_comp.formula 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id ACP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]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 ACP doub 1 n n PG O2G ACP sing 2 n n PG O3G ACP sing 3 n n PG C3B ACP sing 4 n n O2G HOG2 ACP sing 5 n n O3G HOG3 ACP sing 6 n n PB O1B ACP doub 7 n n PB O2B ACP sing 8 n n PB C3B ACP sing 9 n n PB O3A ACP sing 10 n n O2B HOB2 ACP sing 11 n n C3B H3B1 ACP sing 12 n n C3B H3B2 ACP sing 13 n n PA O1A ACP doub 14 n n PA O2A ACP sing 15 n n PA O3A ACP sing 16 n n PA O5' ACP sing 17 n n O2A HOA2 ACP sing 18 n n O5' C5' ACP sing 19 n n C5' C4' ACP sing 20 n n C5' "H5'1" ACP sing 21 n n C5' "H5'2" ACP sing 22 n n C4' O4' ACP sing 23 n n C4' C3' ACP sing 24 n n C4' H4' ACP sing 25 n n O4' C1' ACP sing 26 n n C3' O3' ACP sing 27 n n C3' C2' ACP sing 28 n n C3' H3' ACP sing 29 n n O3' HO3' ACP sing 30 n n C2' O2' ACP sing 31 n n C2' C1' ACP sing 32 n n C2' H2' ACP sing 33 n n O2' HO2' ACP sing 34 n n C1' N9 ACP sing 35 n n C1' H1' ACP sing 36 n n N9 C8 ACP sing 37 n y N9 C4 ACP sing 38 n y C8 N7 ACP doub 39 n y C8 H8 ACP sing 40 n n N7 C5 ACP sing 41 n y C5 C6 ACP sing 42 n y C5 C4 ACP doub 43 n y C6 N6 ACP sing 44 n n C6 N1 ACP doub 45 n y N6 HN61 ACP sing 46 n n N6 HN62 ACP sing 47 n n N1 C2 ACP sing 48 n y C2 N3 ACP doub 49 n y C2 H2 ACP sing 50 n n N3 C4 ACP sing 51 n y # _atom_sites.entry_id 5C93 _atom_sites.fract_transf_matrix[1][1] 0.0183 _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] 0.010229 _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] 0.008522 _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 ACP A 1 701 3 ACP ACP . D 3 SO4 A 1 702 2 SO4 SO4 . E 3 SO4 A 1 703 3 SO4 SO4 . F 3 SO4 A 1 704 4 SO4 SO4 . G 2 ACP B 1 701 2 ACP ACP . H 3 SO4 B 1 702 1 SO4 SO4 . I 4 HOH A 1 801 4 HOH HOH . I 4 HOH A 2 802 1 HOH HOH . J 4 HOH B 1 801 2 HOH HOH . J 4 HOH B 2 802 3 HOH HOH . J 4 HOH B 3 803 6 HOH HOH . J 4 HOH B 4 804 5 HOH HOH . # 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 ACP . . . C 2 2.513 -14.402 -28.062 1 154.63 ? PG ACP 701 A 1 HETATM 2 O O1G ACP . . . C 2 3.066 -13.871 -29.477 1 106.09 ? O1G ACP 701 A 1 HETATM 3 O O2G ACP . . . C 2 2.093 -13.251 -27.232 1 155.44 ? O2G ACP 701 A 1 HETATM 4 O O3G ACP . . . C 2 1.253 -15.374 -28.308 1 119.7 ? O3G ACP 701 A 1 HETATM 5 P PB ACP . . . C 2 5.436 -14.619 -27.65 1 101.28 ? PB ACP 701 A 1 HETATM 6 O O1B ACP . . . C 2 5.385 -13.016 -27.508 1 77.2 ? O1B ACP 701 A 1 HETATM 7 O O2B ACP . . . C 2 6.473 -15.162 -26.745 1 108.2 ? O2B ACP 701 A 1 HETATM 8 C C3B ACP . . . C 2 3.823 -15.316 -27.206 1 79.82 ? C3B ACP 701 A 1 HETATM 9 P PA ACP . . . C 2 5.965 -16.555 -29.596 1 60.9 ? PA ACP 701 A 1 HETATM 10 O O1A ACP . . . C 2 4.718 -17.302 -29.187 1 64.55 ? O1A ACP 701 A 1 HETATM 11 O O2A ACP . . . C 2 7.317 -17.027 -29.116 1 55.24 ? O2A ACP 701 A 1 HETATM 12 O O3A ACP . . . C 2 5.791 -15.012 -29.17 1 75.69 ? O3A ACP 701 A 1 HETATM 13 O O5' ACP . . . C 2 6.001 -16.475 -31.203 1 62.72 ? O5' ACP 701 A 1 HETATM 14 C C5' ACP . . . C 2 7.223 -16.207 -31.888 1 58.11 ? C5' ACP 701 A 1 HETATM 15 C C4' ACP . . . C 2 6.937 -15.376 -33.132 1 68.46 ? C4' ACP 701 A 1 HETATM 16 O O4' ACP . . . C 2 6.499 -16.229 -34.193 1 69.09 ? O4' ACP 701 A 1 HETATM 17 C C3' ACP . . . C 2 5.841 -14.354 -32.874 1 73.95 ? C3' ACP 701 A 1 HETATM 18 O O3' ACP . . . C 2 6.342 -13.032 -33.091 1 79.13 ? O3' ACP 701 A 1 HETATM 19 C C2' ACP . . . C 2 4.734 -14.659 -33.863 1 72.67 ? C2' ACP 701 A 1 HETATM 20 O O2' ACP . . . C 2 4.519 -13.534 -34.72 1 71.65 ? O2' ACP 701 A 1 HETATM 21 C C1' ACP . . . C 2 5.207 -15.852 -34.678 1 70.5 ? C1' ACP 701 A 1 HETATM 22 N N9 ACP . . . C 2 4.259 -16.981 -34.509 1 67.32 ? N9 ACP 701 A 1 HETATM 23 C C8 ACP . . . C 2 4.194 -17.802 -33.443 1 67.3 ? C8 ACP 701 A 1 HETATM 24 N N7 ACP . . . C 2 3.217 -18.732 -33.6 1 67.26 ? N7 ACP 701 A 1 HETATM 25 C C5 ACP . . . C 2 2.636 -18.51 -34.793 1 66.56 ? C5 ACP 701 A 1 HETATM 26 C C6 ACP . . . C 2 1.539 -19.125 -35.577 1 60.82 ? C6 ACP 701 A 1 HETATM 27 N N6 ACP . . . C 2 0.851 -20.192 -35.103 1 52.88 ? N6 ACP 701 A 1 HETATM 28 N N1 ACP . . . C 2 1.248 -18.585 -36.782 1 57.54 ? N1 ACP 701 A 1 HETATM 29 C C2 ACP . . . C 2 1.923 -17.525 -37.264 1 66.38 ? C2 ACP 701 A 1 HETATM 30 N N3 ACP . . . C 2 2.928 -16.918 -36.607 1 67.57 ? N3 ACP 701 A 1 HETATM 31 C C4 ACP . . . C 2 3.326 -17.355 -35.388 1 65.73 ? C4 ACP 701 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 460 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #