data_3VR9 # _model_server_result.job_id Fo65l_jpuHKGhtdbUEHMfA _model_server_result.datetime_utc '2024-11-28 10:02:42' _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 3vr9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":702}' # _entry.id 3VR9 # _exptl.entry_id 3VR9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 785.55 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FLAVIN-ADENINE DINUCLEOTIDE' _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 3VR9 _cell.length_a 124.011 _cell.length_b 135.333 _cell.length_c 220.498 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VR9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # 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 tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 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,B,C,D,I,J,K,L,M,N,O,P 1 1 E,F,G,H,Q,R,S,T,U,V,W,X 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 ? 6 J N N ? 6 R 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 A NE2 HIS 79 A HIS 79 1_555 J C8M FAD . A FAD 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.668 ? covale ? covale2 E NE2 HIS 79 E HIS 79 1_555 R C8M FAD . E FAD 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.925 ? metalc ? metalc1 B SG CYS 89 B CYS 89 1_555 K FE2 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? metalc ? metalc2 B SG CYS 94 B CYS 94 1_555 K FE2 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc3 B SG CYS 97 B CYS 97 1_555 K FE1 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? metalc ? metalc4 B SG CYS 109 B CYS 109 1_555 K FE1 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc5 B SG CYS 182 B CYS 182 1_555 L FE3 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc6 B SG CYS 185 B CYS 185 1_555 L FE1 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? metalc ? metalc7 B SG CYS 188 B CYS 188 1_555 L FE4 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc8 B SG CYS 192 B CYS 192 1_555 M FE4 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.215 ? metalc ? metalc9 B SG CYS 239 B CYS 239 1_555 M FE1 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc10 B SG CYS 245 B CYS 245 1_555 M FE3 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.123 ? metalc ? metalc11 B SG CYS 249 B CYS 249 1_555 L FE2 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc12 C NE2 HIS 131 C HIS 131 1_555 N FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? metalc ? metalc13 N FE HEM . C HEM 201 1_555 D NE2 HIS 95 D HIS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc14 F SG CYS 89 F CYS 89 1_555 S FE2 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? metalc ? metalc15 F SG CYS 94 F CYS 94 1_555 S FE2 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc16 F SG CYS 97 F CYS 97 1_555 S FE1 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc17 F SG CYS 109 F CYS 109 1_555 S FE1 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? metalc ? metalc18 F SG CYS 182 F CYS 182 1_555 T FE3 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.475 ? metalc ? metalc19 F SG CYS 185 F CYS 185 1_555 T FE1 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? metalc ? metalc20 F SG CYS 188 F CYS 188 1_555 T FE4 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc21 F SG CYS 192 F CYS 192 1_555 U FE4 F3S . F F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc22 F SG CYS 239 F CYS 239 1_555 U FE1 F3S . F F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? metalc ? metalc23 F SG CYS 245 F CYS 245 1_555 U FE3 F3S . F F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? metalc ? metalc24 F SG CYS 249 F CYS 249 1_555 T FE2 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc25 G NE2 HIS 131 G HIS 131 1_555 W FE HEM . G HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.245 ? metalc ? metalc26 W FE HEM . G HEM 201 1_555 H NE2 HIS 95 H HIS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? # _chem_comp.formula 'C27 H33 N9 O15 P2' _chem_comp.formula_weight 785.55 _chem_comp.id FAD _chem_comp.mon_nstd_flag . _chem_comp.name 'FLAVIN-ADENINE DINUCLEOTIDE' _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 PA O1A FAD doub 208 n n PA O2A FAD sing 209 n n PA O5B FAD sing 210 n n PA O3P FAD sing 211 n n O2A HOA2 FAD sing 212 n n O5B C5B FAD sing 213 n n C5B C4B FAD sing 214 n n C5B H51A FAD sing 215 n n C5B H52A FAD sing 216 n n C4B O4B FAD sing 217 n n C4B C3B FAD sing 218 n n C4B H4B FAD sing 219 n n O4B C1B FAD sing 220 n n C3B O3B FAD sing 221 n n C3B C2B FAD sing 222 n n C3B H3B FAD sing 223 n n O3B HO3A FAD sing 224 n n C2B O2B FAD sing 225 n n C2B C1B FAD sing 226 n n C2B H2B FAD sing 227 n n O2B HO2A FAD sing 228 n n C1B N9A FAD sing 229 n n C1B H1B FAD sing 230 n n N9A C8A FAD sing 231 n y N9A C4A FAD sing 232 n y C8A N7A FAD doub 233 n y C8A H8A FAD sing 234 n n N7A C5A FAD sing 235 n y C5A C6A FAD sing 236 n y C5A C4A FAD doub 237 n y C6A N6A FAD sing 238 n n C6A N1A FAD doub 239 n y N6A H61A FAD sing 240 n n N6A H62A FAD sing 241 n n N1A C2A FAD sing 242 n y C2A N3A FAD doub 243 n y C2A H2A FAD sing 244 n n N3A C4A FAD sing 245 n y N1 C2 FAD sing 246 n n N1 C10 FAD doub 247 n n C2 O2 FAD doub 248 n n C2 N3 FAD sing 249 n n N3 C4 FAD sing 250 n n N3 HN3 FAD sing 251 n n C4 O4 FAD doub 252 n n C4 C4X FAD sing 253 n n C4X N5 FAD doub 254 n n C4X C10 FAD sing 255 n n N5 C5X FAD sing 256 n n C5X C6 FAD doub 257 n y C5X C9A FAD sing 258 n y C6 C7 FAD sing 259 n y C6 H6 FAD sing 260 n n C7 C7M FAD sing 261 n n C7 C8 FAD doub 262 n y C7M HM71 FAD sing 263 n n C7M HM72 FAD sing 264 n n C7M HM73 FAD sing 265 n n C8 C8M FAD sing 266 n n C8 C9 FAD sing 267 n y C8M HM81 FAD sing 268 n n C8M HM82 FAD sing 269 n n C8M HM83 FAD sing 270 n n C9 C9A FAD doub 271 n y C9 H9 FAD sing 272 n n C9A N10 FAD sing 273 n n N10 C10 FAD sing 274 n n N10 C1' FAD sing 275 n n C1' C2' FAD sing 276 n n C1' "H1'1" FAD sing 277 n n C1' "H1'2" FAD sing 278 n n C2' O2' FAD sing 279 n n C2' C3' FAD sing 280 n n C2' H2' FAD sing 281 n n O2' HO2' FAD sing 282 n n C3' O3' FAD sing 283 n n C3' C4' FAD sing 284 n n C3' H3' FAD sing 285 n n O3' HO3' FAD sing 286 n n C4' O4' FAD sing 287 n n C4' C5' FAD sing 288 n n C4' H4' FAD sing 289 n n O4' HO4' FAD sing 290 n n C5' O5' FAD sing 291 n n C5' "H5'1" FAD sing 292 n n C5' "H5'2" FAD sing 293 n n O5' P FAD sing 294 n n P O1P FAD doub 295 n n P O2P FAD sing 296 n n P O3P FAD sing 297 n n O2P HOP2 FAD sing 298 n n # _atom_sites.entry_id 3VR9 _atom_sites.fract_transf_matrix[1][1] 0.008064 _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] 0.007389 _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] 0.004535 _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 I 5 MLI A 1 701 300 MLI MLI . J 6 FAD A 1 702 301 FAD FAD . K 7 FES B 1 301 302 FES FES . L 8 SF4 B 1 302 303 SF4 FS4 . M 9 F3S B 1 303 304 F3S F3S . N 10 HEM C 1 201 305 HEM HEM . O 11 FTN C 1 202 810 FTN FTN . P 12 EPH D 1 201 306 EPH EPH . Q 5 MLI E 1 701 300 MLI MLI . R 6 FAD E 1 702 301 FAD FAD . S 7 FES F 1 301 302 FES FES . T 8 SF4 F 1 302 303 SF4 FS4 . U 9 F3S F 1 303 304 F3S F3S . V 11 FTN F 1 304 810 FTN FTN . W 10 HEM G 1 201 305 HEM HEM . X 12 EPH H 1 201 306 EPH EPH . # 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 PA FAD . . . J 6 -41.926 -7.183 18.054 1 66.9 ? PA FAD 702 A 1 HETATM 2 O O1A FAD . . . J 6 -41.466 -7.437 16.648 1 68.98 ? O1A FAD 702 A 1 HETATM 3 O O2A FAD . . . J 6 -41.042 -6.243 18.809 1 68.15 ? O2A FAD 702 A 1 HETATM 4 O O5B FAD . . . J 6 -42.025 -8.647 18.693 1 67.7 ? O5B FAD 702 A 1 HETATM 5 C C5B FAD . . . J 6 -41.502 -9.731 17.953 1 67.47 ? C5B FAD 702 A 1 HETATM 6 C C4B FAD . . . J 6 -41.465 -11.005 18.784 1 66.65 ? C4B FAD 702 A 1 HETATM 7 O O4B FAD . . . J 6 -42.492 -11.872 18.347 1 68.77 ? O4B FAD 702 A 1 HETATM 8 C C3B FAD . . . J 6 -40.157 -11.715 18.529 1 67.11 ? C3B FAD 702 A 1 HETATM 9 O O3B FAD . . . J 6 -39.644 -12.198 19.739 1 64.84 ? O3B FAD 702 A 1 HETATM 10 C C2B FAD . . . J 6 -40.531 -12.868 17.63 1 69.57 ? C2B FAD 702 A 1 HETATM 11 O O2B FAD . . . J 6 -39.738 -14.016 17.835 1 71.84 ? O2B FAD 702 A 1 HETATM 12 C C1B FAD . . . J 6 -41.936 -13.148 18.109 1 70.72 ? C1B FAD 702 A 1 HETATM 13 N N9A FAD . . . J 6 -42.631 -14.078 17.185 1 72.08 ? N9A FAD 702 A 1 HETATM 14 C C8A FAD . . . J 6 -43.38 -13.807 16.077 1 72.23 ? C8A FAD 702 A 1 HETATM 15 N N7A FAD . . . J 6 -43.781 -14.992 15.556 1 72.35 ? N7A FAD 702 A 1 HETATM 16 C C5A FAD . . . J 6 -43.305 -16.016 16.309 1 72.63 ? C5A FAD 702 A 1 HETATM 17 C C6A FAD . . . J 6 -43.414 -17.416 16.243 1 73.43 ? C6A FAD 702 A 1 HETATM 18 N N6A FAD . . . J 6 -44.17 -18.027 15.323 1 74.24 ? N6A FAD 702 A 1 HETATM 19 N N1A FAD . . . J 6 -42.785 -18.2 17.187 1 72.91 ? N1A FAD 702 A 1 HETATM 20 C C2A FAD . . . J 6 -42.075 -17.598 18.196 1 73.39 ? C2A FAD 702 A 1 HETATM 21 N N3A FAD . . . J 6 -41.965 -16.22 18.253 1 72.08 ? N3A FAD 702 A 1 HETATM 22 C C4A FAD . . . J 6 -42.576 -15.442 17.331 1 72.15 ? C4A FAD 702 A 1 HETATM 23 N N1 FAD . . . J 6 -42.956 2.614 17.303 1 58.06 ? N1 FAD 702 A 1 HETATM 24 C C2 FAD . . . J 6 -42.835 3.698 18.129 1 59.26 ? C2 FAD 702 A 1 HETATM 25 O O2 FAD . . . J 6 -43.677 3.877 19.016 1 58.16 ? O2 FAD 702 A 1 HETATM 26 N N3 FAD . . . J 6 -41.777 4.575 17.945 1 61 ? N3 FAD 702 A 1 HETATM 27 C C4 FAD . . . J 6 -40.824 4.372 16.946 1 61.14 ? C4 FAD 702 A 1 HETATM 28 O O4 FAD . . . J 6 -39.856 5.148 16.762 1 60.85 ? O4 FAD 702 A 1 HETATM 29 C C4X FAD . . . J 6 -40.967 3.258 16.138 1 59.26 ? C4X FAD 702 A 1 HETATM 30 N N5 FAD . . . J 6 -40.045 3.036 15.144 1 58.86 ? N5 FAD 702 A 1 HETATM 31 C C5X FAD . . . J 6 -40.178 1.937 14.33 1 57.67 ? C5X FAD 702 A 1 HETATM 32 C C6 FAD . . . J 6 -39.217 1.735 13.348 1 56.14 ? C6 FAD 702 A 1 HETATM 33 C C7 FAD . . . J 6 -39.33 0.635 12.52 1 54.06 ? C7 FAD 702 A 1 HETATM 34 C C7M FAD . . . J 6 -38.273 0.475 11.477 1 52.37 ? C7M FAD 702 A 1 HETATM 35 C C8 FAD . . . J 6 -40.413 -0.253 12.682 1 53.83 ? C8 FAD 702 A 1 HETATM 36 C C8M FAD . . . J 6 -40.576 -1.449 11.805 1 52.85 ? C8M FAD 702 A 1 HETATM 37 C C9 FAD . . . J 6 -41.37 -0.059 13.667 1 53.68 ? C9 FAD 702 A 1 HETATM 38 C C9A FAD . . . J 6 -41.248 1.045 14.502 1 56.75 ? C9A FAD 702 A 1 HETATM 39 N N10 FAD . . . J 6 -42.177 1.286 15.507 1 58.74 ? N10 FAD 702 A 1 HETATM 40 C C10 FAD . . . J 6 -42.033 2.392 16.32 1 58.22 ? C10 FAD 702 A 1 HETATM 41 C C1' FAD . . . J 6 -43.317 0.331 15.771 1 59.82 ? C1' FAD 702 A 1 HETATM 42 C C2' FAD . . . J 6 -42.918 -0.558 16.983 1 59.54 ? C2' FAD 702 A 1 HETATM 43 O O2' FAD . . . J 6 -41.526 -0.704 17.103 1 58.71 ? O2' FAD 702 A 1 HETATM 44 C C3' FAD . . . J 6 -43.369 -1.99 16.923 1 61.51 ? C3' FAD 702 A 1 HETATM 45 O O3' FAD . . . J 6 -44.721 -2.029 16.605 1 62.98 ? O3' FAD 702 A 1 HETATM 46 C C4' FAD . . . J 6 -43.156 -2.621 18.292 1 65.15 ? C4' FAD 702 A 1 HETATM 47 O O4' FAD . . . J 6 -41.884 -3.228 18.338 1 68.19 ? O4' FAD 702 A 1 HETATM 48 C C5' FAD . . . J 6 -44.204 -3.669 18.658 1 66.2 ? C5' FAD 702 A 1 HETATM 49 O O5' FAD . . . J 6 -43.675 -4.516 19.644 1 66.79 ? O5' FAD 702 A 1 HETATM 50 P P FAD . . . J 6 -43.977 -6.076 19.543 1 68.14 ? P FAD 702 A 1 HETATM 51 O O1P FAD . . . J 6 -43.313 -6.776 20.712 1 67.83 ? O1P FAD 702 A 1 HETATM 52 O O2P FAD . . . J 6 -45.484 -6.291 19.526 1 69.02 ? O2P FAD 702 A 1 HETATM 53 O O3P FAD . . . J 6 -43.366 -6.524 18.127 1 66.99 ? O3P FAD 702 A 1 # _model_server_stats.io_time_ms 55 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 53 #