data_7EFL # _model_server_result.job_id vuUprHPQZOowz6UwEt0DAA _model_server_result.datetime_utc '2024-11-17 18:22:41' _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 7efl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":1105}' # _entry.id 7EFL # _exptl.entry_id 7EFL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 309.362 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (7R,8R,9S)-2,3-dimethyl-9-phenyl-7,8,9,10-tetrahydroimidazo[1,2-h][1,7]naphthyridine-7,8-diol _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 7EFL _cell.length_a 104.97 _cell.length_b 104.97 _cell.length_c 369.94 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7EFL _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 2 1' # _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,K _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 5 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 B SG CYS 96 B CYS 131 1_555 B SG CYS 117 B CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf2 B SG CYS 127 B CYS 162 1_555 B SG CYS 143 B CYS 178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf3 B SG CYS 166 B CYS 201 1_555 B SG CYS 227 B CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? covale ? covale1 A C SER 338 A SER 384 1_555 A N BFD 339 A BFD 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale2 A C BFD 339 A BFD 385 1_555 A N LYS 340 A LYS 386 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale3 B ND2 ASN 64 B ASN 99 1_555 H C1 NAG . B NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale4 B ND2 ASN 126 B ASN 161 1_555 I C1 NAG . B NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? metalc ? metalc1 A O ASP 137 A ASP 183 1_555 F RB RB . A RB 1104 6_455 ? ? ? ? ? ? ? ? ? ? ? ? 3.126 ? metalc ? metalc2 A OD2 ASP 139 A ASP 185 1_555 F RB RB . A RB 1104 6_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.503 ? metalc ? metalc3 A O ALA 293 A ALA 339 1_555 D RB RB . A RB 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.755 ? metalc ? metalc4 A O VAL 295 A VAL 341 1_555 D RB RB . A RB 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.623 ? metalc ? metalc5 A OE1 GLU 297 A GLU 343 1_555 D RB RB . A RB 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.935 ? metalc ? metalc6 A OD2 BFD 339 A BFD 385 1_555 C MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.774 ? metalc ? metalc7 A O THR 341 A THR 387 1_555 C MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.922 ? metalc ? metalc8 A O SER 362 A SER 408 1_555 F RB RB . A RB 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.568 ? metalc ? metalc9 A OD1 ASP 680 A ASP 726 1_555 C MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc10 A O LEU 688 A LEU 734 1_555 E RB RB . A RB 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.067 ? metalc ? metalc11 A O LYS 689 A LYS 735 1_555 E RB RB . A RB 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? metalc ? metalc12 A O ALA 691 A ALA 737 1_555 E RB RB . A RB 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.921 ? metalc ? metalc13 A OD1 ASP 710 A ASP 756 1_555 E RB RB . A RB 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.614 ? # _chem_comp.formula 'C18 H19 N3 O2' _chem_comp.formula_weight 309.362 _chem_comp.id J3C _chem_comp.mon_nstd_flag . _chem_comp.name (7R,8R,9S)-2,3-dimethyl-9-phenyl-7,8,9,10-tetrahydroimidazo[1,2-h][1,7]naphthyridine-7,8-diol _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 O1 C6 J3C sing 191 n n O2 C11 J3C sing 192 n n C6 C3 J3C sing 193 n n C6 C11 J3C sing 194 n n C2 C3 J3C sing 195 n y C2 C1 J3C doub 196 n y C3 C4 J3C doub 197 n y C11 C12 J3C sing 198 n n C1 N1 J3C sing 199 n y C4 N3 J3C sing 200 n n C4 C5 J3C sing 201 n y N1 C5 J3C sing 202 n y N1 C8 J3C sing 203 n y C18 C17 J3C doub 204 n y C18 C13 J3C sing 205 n y C12 N3 J3C sing 206 n n C12 C13 J3C sing 207 n n C5 N2 J3C doub 208 n y C17 C16 J3C sing 209 n y C13 C14 J3C doub 210 n y C10 C8 J3C sing 211 n n C8 C7 J3C doub 212 n y N2 C7 J3C sing 213 n y C7 C9 J3C sing 214 n n C16 C15 J3C doub 215 n y C14 C15 J3C sing 216 n y C10 H1 J3C sing 217 n n C10 H2 J3C sing 218 n n C10 H3 J3C sing 219 n n C11 H4 J3C sing 220 n n C12 H5 J3C sing 221 n n C14 H6 J3C sing 222 n n C15 H7 J3C sing 223 n n C16 H8 J3C sing 224 n n C17 H9 J3C sing 225 n n C18 H10 J3C sing 226 n n C1 H11 J3C sing 227 n n C2 H12 J3C sing 228 n n C6 H13 J3C sing 229 n n C9 H14 J3C sing 230 n n C9 H15 J3C sing 231 n n C9 H16 J3C sing 232 n n N3 H17 J3C sing 233 n n O1 H18 J3C sing 234 n n O2 H19 J3C sing 235 n n # _atom_sites.entry_id 7EFL _atom_sites.fract_transf_matrix[1][1] 0.009527 _atom_sites.fract_transf_matrix[1][2] 0.0055 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011 _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] 0.002703 _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 3 MG A 1 1101 1 MG MG . D 4 RB A 1 1102 1 RB RB . E 4 RB A 1 1103 2 RB RB . F 4 RB A 1 1104 3 RB RB . G 5 J3C A 1 1105 1 J3C BYK . H 6 NAG B 1 301 301 NAG NAG . I 6 NAG B 1 302 401 NAG NAG . J 4 RB B 1 303 4 RB RB . K 7 HOH A 1 1201 3 HOH HOH . K 7 HOH A 2 1202 2 HOH HOH . K 7 HOH A 3 1203 1 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 C10 J3C . . . G 5 -51.718 11.124 -7.031 1 91.34 ? C10 J3C 1105 A 1 HETATM 2 C C11 J3C . . . G 5 -50.686 18.441 -9.124 1 87.88 ? C11 J3C 1105 A 1 HETATM 3 C C12 J3C . . . G 5 -50.235 18.187 -7.658 1 84.12 ? C12 J3C 1105 A 1 HETATM 4 C C13 J3C . . . G 5 -49.147 19.019 -7.057 1 85.02 ? C13 J3C 1105 A 1 HETATM 5 C C14 J3C . . . G 5 -49.228 19.354 -5.715 1 87.71 ? C14 J3C 1105 A 1 HETATM 6 C C15 J3C . . . G 5 -48.24 20.115 -5.07 1 86.22 ? C15 J3C 1105 A 1 HETATM 7 C C16 J3C . . . G 5 -47.12 20.544 -5.756 1 85.46 ? C16 J3C 1105 A 1 HETATM 8 C C17 J3C . . . G 5 -47.023 20.207 -7.099 1 91.37 ? C17 J3C 1105 A 1 HETATM 9 C C18 J3C . . . G 5 -48.014 19.447 -7.733 1 90.95 ? C18 J3C 1105 A 1 HETATM 10 C C1 J3C . . . G 5 -51.92 13.657 -8.945 1 86.46 ? C1 J3C 1105 A 1 HETATM 11 C C2 J3C . . . G 5 -51.902 14.855 -9.652 1 86.37 ? C2 J3C 1105 A 1 HETATM 12 C C3 J3C . . . G 5 -51.203 15.947 -9.154 1 85.41 ? C3 J3C 1105 A 1 HETATM 13 C C4 J3C . . . G 5 -50.535 15.801 -7.964 1 83.77 ? C4 J3C 1105 A 1 HETATM 14 C C5 J3C . . . G 5 -50.592 14.588 -7.296 1 84.61 ? C5 J3C 1105 A 1 HETATM 15 C C6 J3C . . . G 5 -51.198 17.22 -9.916 1 89.08 ? C6 J3C 1105 A 1 HETATM 16 C C7 J3C . . . G 5 -50.358 12.946 -5.847 1 88.85 ? C7 J3C 1105 A 1 HETATM 17 C C8 J3C . . . G 5 -51.143 12.517 -6.915 1 88.96 ? C8 J3C 1105 A 1 HETATM 18 C C9 J3C . . . G 5 -49.931 12.148 -4.629 1 83.7 ? C9 J3C 1105 A 1 HETATM 19 N N1 J3C . . . G 5 -51.271 13.543 -7.785 1 83.76 ? N1 J3C 1105 A 1 HETATM 20 N N2 J3C . . . G 5 -50.034 14.225 -6.121 1 91.22 ? N2 J3C 1105 A 1 HETATM 21 N N3 J3C . . . G 5 -49.832 16.817 -7.43 1 84.38 ? N3 J3C 1105 A 1 HETATM 22 O O1 J3C . . . G 5 -52.547 17.456 -10.353 1 88.4 ? O1 J3C 1105 A 1 HETATM 23 O O2 J3C . . . G 5 -49.689 19.039 -9.964 1 87.42 ? O2 J3C 1105 A 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 35 _model_server_stats.query_time_ms 371 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 23 #