data_4EKG # _model_server_result.job_id gFO4tOD-PTprKImex4gzmQ _model_server_result.datetime_utc '2024-11-05 21:12:11' _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 4ekg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 4EKG # _exptl.entry_id 4EKG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 512.605 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-[(3-{[(4-tert-butylphenyl)carbamoyl]amino}propyl)(methyl)amino]-5'-deoxyadenosine" _entity.pdbx_number_of_molecules 1 _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 120 _cell.entry_id 4EKG _cell.length_a 157.6 _cell.length_b 157.6 _cell.length_c 49.15 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4EKG _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C25 H36 N8 O4' _chem_comp.formula_weight 512.605 _chem_comp.id 0QJ _chem_comp.mon_nstd_flag . _chem_comp.name "5'-[(3-{[(4-tert-butylphenyl)carbamoyl]amino}propyl)(methyl)amino]-5'-deoxyadenosine" _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 CBB CAZ 0QJ sing 1 n n CBC CAZ 0QJ sing 2 n n CAZ CBA 0QJ sing 3 n n CAZ CAY 0QJ sing 4 n n CAY CAX 0QJ doub 5 n y CAY CBD 0QJ sing 6 n y CAX CAW 0QJ sing 7 n y CBD CBE 0QJ doub 8 n y CAW CAV 0QJ doub 9 n y CBE CAV 0QJ sing 10 n y CAV NAU 0QJ sing 11 n n NAU CAT 0QJ sing 12 n n CAT OBF 0QJ doub 13 n n CAT NAS 0QJ sing 14 n n NAS CAR 0QJ sing 15 n n CAR CAQ 0QJ sing 16 n n CAQ CAP 0QJ sing 17 n n CAO NAN 0QJ sing 18 n n CAP NAN 0QJ sing 19 n n NAN CAM 0QJ sing 20 n n CAM CAL 0QJ sing 21 n n CAL OBG 0QJ sing 22 n n CAL CAJ 0QJ sing 23 n n OBG CAG 0QJ sing 24 n n CAJ OAK 0QJ sing 25 n n CAJ CAH 0QJ sing 26 n n CAG N9 0QJ sing 27 n n CAG CAH 0QJ sing 28 n n N9 C4 0QJ sing 29 n y N9 C8 0QJ sing 30 n y N3 C4 0QJ doub 31 n y N3 C2 0QJ sing 32 n y C4 C5 0QJ sing 33 n y C8 N7 0QJ doub 34 n y C2 N1 0QJ doub 35 n y N7 C5 0QJ sing 36 n y C5 C6 0QJ doub 37 n y N1 C6 0QJ sing 38 n y C6 N6 0QJ sing 39 n n CAH OAI 0QJ sing 40 n n C2 H1 0QJ sing 41 n n C8 H2 0QJ sing 42 n n CBA H3 0QJ sing 43 n n CBA H4 0QJ sing 44 n n CBA H5 0QJ sing 45 n n CBB H6 0QJ sing 46 n n CBB H7 0QJ sing 47 n n CBB H8 0QJ sing 48 n n CBC H9 0QJ sing 49 n n CBC H10 0QJ sing 50 n n CBC H11 0QJ sing 51 n n CBD H12 0QJ sing 52 n n CBE H13 0QJ sing 53 n n CAX H14 0QJ sing 54 n n CAW H15 0QJ sing 55 n n NAU H16 0QJ sing 56 n n NAS H17 0QJ sing 57 n n CAR H18 0QJ sing 58 n n CAR H19 0QJ sing 59 n n CAQ H20 0QJ sing 60 n n CAQ H21 0QJ sing 61 n n CAP H22 0QJ sing 62 n n CAP H23 0QJ sing 63 n n CAO H25 0QJ sing 64 n n CAO H26 0QJ sing 65 n n CAO H27 0QJ sing 66 n n CAM H28 0QJ sing 67 n n CAM H29 0QJ sing 68 n n CAL H30 0QJ sing 69 n n CAJ H31 0QJ sing 70 n n OAK H32 0QJ sing 71 n n CAH H33 0QJ sing 72 n n OAI H34 0QJ sing 73 n n CAG H35 0QJ sing 74 n n N6 H36 0QJ sing 75 n n N6 H37 0QJ sing 76 n n # _atom_sites.entry_id 4EKG _atom_sites.fract_transf_matrix[1][1] 0.006345 _atom_sites.fract_transf_matrix[1][2] 0.003663 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007327 _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] 0.020346 _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 B 2 0QJ A 1 500 500 0QJ 0QJ . C 3 HOH A 1 601 1 HOH HOH . C 3 HOH A 2 602 2 HOH HOH . C 3 HOH A 3 603 3 HOH HOH . C 3 HOH A 4 604 4 HOH HOH . C 3 HOH A 5 605 5 HOH HOH . C 3 HOH A 6 606 6 HOH HOH . C 3 HOH A 7 607 7 HOH HOH . C 3 HOH A 8 608 8 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 C C2 0QJ . . . B 2 44.057 46.053 13.243 1 68.97 ? C2 0QJ 500 A 1 HETATM 2 C C4 0QJ . . . B 2 45.474 47.978 13.191 1 70.41 ? C4 0QJ 500 A 1 HETATM 3 C C5 0QJ . . . B 2 46.549 47.217 13.395 1 69.36 ? C5 0QJ 500 A 1 HETATM 4 C C6 0QJ . . . B 2 46.404 45.892 13.531 1 70.48 ? C6 0QJ 500 A 1 HETATM 5 C C8 0QJ . . . B 2 47.209 49.274 13.239 1 64.66 ? C8 0QJ 500 A 1 HETATM 6 C CBA 0QJ . . . B 2 48.174 52.837 -0.535 1 56.54 ? CBA 0QJ 500 A 1 HETATM 7 C CAZ 0QJ . . . B 2 46.808 53.489 -0.696 1 54.35 ? CAZ 0QJ 500 A 1 HETATM 8 C CBB 0QJ . . . B 2 46.088 52.826 -1.869 1 54.62 ? CBB 0QJ 500 A 1 HETATM 9 C CBC 0QJ . . . B 2 47.014 54.955 -1.057 1 55.57 ? CBC 0QJ 500 A 1 HETATM 10 C CAY 0QJ . . . B 2 46.002 53.337 0.464 1 54.96 ? CAY 0QJ 500 A 1 HETATM 11 C CBD 0QJ . . . B 2 45.385 54.445 1.084 1 51.11 ? CBD 0QJ 500 A 1 HETATM 12 C CBE 0QJ . . . B 2 44.58 54.275 2.217 1 49.58 ? CBE 0QJ 500 A 1 HETATM 13 C CAX 0QJ . . . B 2 45.769 52.052 0.991 1 52.03 ? CAX 0QJ 500 A 1 HETATM 14 C CAW 0QJ . . . B 2 44.958 51.882 2.117 1 53.21 ? CAW 0QJ 500 A 1 HETATM 15 C CAV 0QJ . . . B 2 44.362 52.986 2.748 1 54 ? CAV 0QJ 500 A 1 HETATM 16 N NAU 0QJ . . . B 2 43.564 52.754 3.816 1 51.89 ? NAU 0QJ 500 A 1 HETATM 17 C CAT 0QJ . . . B 2 43.443 53.653 4.807 1 56.29 ? CAT 0QJ 500 A 1 HETATM 18 O OBF 0QJ . . . B 2 44.097 54.704 4.831 1 57.4 ? OBF 0QJ 500 A 1 HETATM 19 N NAS 0QJ . . . B 2 42.57 53.337 5.781 1 57.81 ? NAS 0QJ 500 A 1 HETATM 20 C CAR 0QJ . . . B 2 42.363 54.156 6.988 1 55.36 ? CAR 0QJ 500 A 1 HETATM 21 C CAQ 0QJ . . . B 2 43.756 54.39 7.589 1 60.74 ? CAQ 0QJ 500 A 1 HETATM 22 C CAP 0QJ . . . B 2 43.882 53.792 8.985 1 63.24 ? CAP 0QJ 500 A 1 HETATM 23 N NAN 0QJ . . . B 2 44.926 52.735 9.108 1 65.84 ? NAN 0QJ 500 A 1 HETATM 24 C CAO 0QJ . . . B 2 45.98 52.702 8.089 1 64.08 ? CAO 0QJ 500 A 1 HETATM 25 C CAM 0QJ . . . B 2 45.526 52.8 10.443 1 65.08 ? CAM 0QJ 500 A 1 HETATM 26 C CAL 0QJ . . . B 2 44.628 52.001 11.401 1 67.1 ? CAL 0QJ 500 A 1 HETATM 27 O OBG 0QJ . . . B 2 45.267 50.745 11.574 1 70.41 ? OBG 0QJ 500 A 1 HETATM 28 C CAJ 0QJ . . . B 2 44.564 52.629 12.781 1 66.34 ? CAJ 0QJ 500 A 1 HETATM 29 O OAK 0QJ . . . B 2 43.183 52.861 13.085 1 62.46 ? OAK 0QJ 500 A 1 HETATM 30 C CAH 0QJ . . . B 2 45.149 51.54 13.695 1 65.62 ? CAH 0QJ 500 A 1 HETATM 31 O OAI 0QJ . . . B 2 44.418 51.445 14.939 1 66.26 ? OAI 0QJ 500 A 1 HETATM 32 C CAG 0QJ . . . B 2 44.915 50.32 12.873 1 65.59 ? CAG 0QJ 500 A 1 HETATM 33 N N9 0QJ . . . B 2 45.887 49.243 13.11 1 67.55 ? N9 0QJ 500 A 1 HETATM 34 N N7 0QJ . . . B 2 47.616 48.023 13.421 1 66.25 ? N7 0QJ 500 A 1 HETATM 35 N N3 0QJ . . . B 2 44.234 47.436 13.112 1 70.46 ? N3 0QJ 500 A 1 HETATM 36 N N1 0QJ . . . B 2 45.206 45.288 13.462 1 70.28 ? N1 0QJ 500 A 1 HETATM 37 N N6 0QJ . . . B 2 47.512 45.181 13.726 1 71.52 ? N6 0QJ 500 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 37 #