data_4YTM # _model_server_result.job_id wlqZbark2MXDzmaQYIR1SQ _model_server_result.datetime_utc '2024-11-28 12:02:12' _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 4ytm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":702}' # _entry.id 4YTM # _exptl.entry_id 4YTM _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 4YTM _cell.length_a 123.654 _cell.length_b 126.426 _cell.length_c 220.873 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YTM _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 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 metalc ? metalc1 B SG CYS 89 B CYS 89 1_555 K FE2 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? metalc ? metalc2 B SG CYS 94 B CYS 94 1_555 K FE2 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc3 B SG CYS 97 B CYS 97 1_555 K FE1 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc4 B SG CYS 109 B CYS 109 1_555 K FE1 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc5 B SG CYS 182 B CYS 182 1_555 L FE3 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? metalc ? metalc6 B SG CYS 185 B CYS 185 1_555 L FE1 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc7 B SG CYS 188 B CYS 188 1_555 L FE2 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? metalc ? metalc8 B SG CYS 192 B CYS 192 1_555 M FE4 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc9 B SG CYS 239 B CYS 239 1_555 M FE1 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? metalc ? metalc10 B SG CYS 245 B CYS 245 1_555 M FE3 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.242 ? metalc ? metalc11 B SG CYS 249 B CYS 249 1_555 L FE4 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc12 C NE2 HIS 131 C HIS 131 1_555 N FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc13 N FE HEM . C HEM 201 1_555 D NE2 HIS 95 D HIS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc14 F SG CYS 89 F CYS 89 1_555 S FE2 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc15 F SG CYS 94 F CYS 94 1_555 S FE2 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc16 F SG CYS 97 F CYS 97 1_555 S FE1 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.952 ? metalc ? metalc17 F SG CYS 109 F CYS 109 1_555 S FE1 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc18 F SG CYS 182 F CYS 182 1_555 T FE3 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc19 F SG CYS 185 F CYS 185 1_555 T FE1 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc20 F SG CYS 188 F CYS 188 1_555 T FE2 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc21 F SG CYS 192 F CYS 192 1_555 U FE4 F3S . F F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc22 F SG CYS 239 F CYS 239 1_555 U FE1 F3S . F F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? metalc ? metalc23 F SG CYS 245 F CYS 245 1_555 U FE3 F3S . F F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? metalc ? metalc24 F SG CYS 249 F CYS 249 1_555 T FE4 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? metalc ? metalc25 G NE2 HIS 131 G HIS 131 1_555 V FE HEM . G HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? metalc ? metalc26 V FE HEM . G HEM 201 1_555 H NE2 HIS 95 H HIS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? # _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 249 n n PA O2A FAD sing 250 n n PA O5B FAD sing 251 n n PA O3P FAD sing 252 n n O2A HOA2 FAD sing 253 n n O5B C5B FAD sing 254 n n C5B C4B FAD sing 255 n n C5B H51A FAD sing 256 n n C5B H52A FAD sing 257 n n C4B O4B FAD sing 258 n n C4B C3B FAD sing 259 n n C4B H4B FAD sing 260 n n O4B C1B FAD sing 261 n n C3B O3B FAD sing 262 n n C3B C2B FAD sing 263 n n C3B H3B FAD sing 264 n n O3B HO3A FAD sing 265 n n C2B O2B FAD sing 266 n n C2B C1B FAD sing 267 n n C2B H2B FAD sing 268 n n O2B HO2A FAD sing 269 n n C1B N9A FAD sing 270 n n C1B H1B FAD sing 271 n n N9A C8A FAD sing 272 n y N9A C4A FAD sing 273 n y C8A N7A FAD doub 274 n y C8A H8A FAD sing 275 n n N7A C5A FAD sing 276 n y C5A C6A FAD sing 277 n y C5A C4A FAD doub 278 n y C6A N6A FAD sing 279 n n C6A N1A FAD doub 280 n y N6A H61A FAD sing 281 n n N6A H62A FAD sing 282 n n N1A C2A FAD sing 283 n y C2A N3A FAD doub 284 n y C2A H2A FAD sing 285 n n N3A C4A FAD sing 286 n y N1 C2 FAD sing 287 n n N1 C10 FAD doub 288 n n C2 O2 FAD doub 289 n n C2 N3 FAD sing 290 n n N3 C4 FAD sing 291 n n N3 HN3 FAD sing 292 n n C4 O4 FAD doub 293 n n C4 C4X FAD sing 294 n n C4X N5 FAD doub 295 n n C4X C10 FAD sing 296 n n N5 C5X FAD sing 297 n n C5X C6 FAD doub 298 n y C5X C9A FAD sing 299 n y C6 C7 FAD sing 300 n y C6 H6 FAD sing 301 n n C7 C7M FAD sing 302 n n C7 C8 FAD doub 303 n y C7M HM71 FAD sing 304 n n C7M HM72 FAD sing 305 n n C7M HM73 FAD sing 306 n n C8 C8M FAD sing 307 n n C8 C9 FAD sing 308 n y C8M HM81 FAD sing 309 n n C8M HM82 FAD sing 310 n n C8M HM83 FAD sing 311 n n C9 C9A FAD doub 312 n y C9 H9 FAD sing 313 n n C9A N10 FAD sing 314 n n N10 C10 FAD sing 315 n n N10 C1' FAD sing 316 n n C1' C2' FAD sing 317 n n C1' "H1'1" FAD sing 318 n n C1' "H1'2" FAD sing 319 n n C2' O2' FAD sing 320 n n C2' C3' FAD sing 321 n n C2' H2' FAD sing 322 n n O2' HO2' FAD sing 323 n n C3' O3' FAD sing 324 n n C3' C4' FAD sing 325 n n C3' H3' FAD sing 326 n n O3' HO3' FAD sing 327 n n C4' O4' FAD sing 328 n n C4' C5' FAD sing 329 n n C4' H4' FAD sing 330 n n O4' HO4' FAD sing 331 n n C5' O5' FAD sing 332 n n C5' "H5'1" FAD sing 333 n n C5' "H5'2" FAD sing 334 n n O5' P FAD sing 335 n n P O1P FAD doub 336 n n P O2P FAD sing 337 n n P O3P FAD sing 338 n n O2P HOP2 FAD sing 339 n n # _atom_sites.entry_id 4YTM _atom_sites.fract_transf_matrix[1][1] 0.008087 _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] 0.00791 _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] 0.004527 _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 1 701 701 MLI MLI . J 6 FAD A 1 702 702 FAD FAD . K 7 FES B 1 301 301 FES FES . L 8 SF4 B 1 302 302 SF4 SF4 . M 9 F3S B 1 303 303 F3S F3S . N 10 HEM C 1 201 201 HEM HEM . O 11 F6A C 1 202 202 F6A F6A . P 12 EPH D 1 201 201 EPH EPH . Q 5 MLI E 1 701 701 MLI MLI . R 6 FAD E 1 702 702 FAD FAD . S 7 FES F 1 301 301 FES FES . T 8 SF4 F 1 302 302 SF4 SF4 . U 9 F3S F 1 303 303 F3S F3S . V 10 HEM G 1 201 201 HEM HEM . W 11 F6A G 1 202 202 F6A F6A . # 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 -9.409 -47.089 -40.25 1 43.54 ? PA FAD 702 A 1 HETATM 2 O O1A FAD . . . J 6 -9.364 -46.756 -38.775 1 45.35 ? O1A FAD 702 A 1 HETATM 3 O O2A FAD . . . J 6 -8.792 -48.334 -40.824 1 42.97 ? O2A FAD 702 A 1 HETATM 4 O O5B FAD . . . J 6 -8.815 -45.844 -41.066 1 44.63 ? O5B FAD 702 A 1 HETATM 5 C C5B FAD . . . J 6 -9.374 -44.544 -40.952 1 45.1 ? C5B FAD 702 A 1 HETATM 6 C C4B FAD . . . J 6 -8.999 -43.71 -42.167 1 45.89 ? C4B FAD 702 A 1 HETATM 7 O O4B FAD . . . J 6 -9.808 -42.539 -42.166 1 47.84 ? O4B FAD 702 A 1 HETATM 8 C C3B FAD . . . J 6 -7.569 -43.208 -42.136 1 46.65 ? C3B FAD 702 A 1 HETATM 9 O O3B FAD . . . J 6 -7.047 -43.147 -43.46 1 47.07 ? O3B FAD 702 A 1 HETATM 10 C C2B FAD . . . J 6 -7.69 -41.808 -41.615 1 47.4 ? C2B FAD 702 A 1 HETATM 11 O O2B FAD . . . J 6 -6.666 -40.947 -42.07 1 49.75 ? O2B FAD 702 A 1 HETATM 12 C C1B FAD . . . J 6 -8.979 -41.391 -42.252 1 48.55 ? C1B FAD 702 A 1 HETATM 13 N N9A FAD . . . J 6 -9.501 -40.209 -41.548 1 52 ? N9A FAD 702 A 1 HETATM 14 C C8A FAD . . . J 6 -9.946 -40.093 -40.279 1 53.11 ? C8A FAD 702 A 1 HETATM 15 N N7A FAD . . . J 6 -10.33 -38.809 -40.04 1 55.24 ? N7A FAD 702 A 1 HETATM 16 C C5A FAD . . . J 6 -10.119 -38.101 -41.174 1 56.14 ? C5A FAD 702 A 1 HETATM 17 C C6A FAD . . . J 6 -10.276 -36.705 -41.655 1 56.79 ? C6A FAD 702 A 1 HETATM 18 N N6A FAD . . . J 6 -10.761 -35.717 -40.87 1 57.65 ? N6A FAD 702 A 1 HETATM 19 N N1A FAD . . . J 6 -9.911 -36.432 -42.927 1 56.33 ? N1A FAD 702 A 1 HETATM 20 C C2A FAD . . . J 6 -9.412 -37.354 -43.764 1 55.64 ? C2A FAD 702 A 1 HETATM 21 N N3A FAD . . . J 6 -9.24 -38.628 -43.393 1 54.85 ? N3A FAD 702 A 1 HETATM 22 C C4A FAD . . . J 6 -9.565 -39.04 -42.151 1 54.24 ? C4A FAD 702 A 1 HETATM 23 N N1 FAD . . . J 6 -10.819 -56.093 -36.75 1 46.05 ? N1 FAD 702 A 1 HETATM 24 C C2 FAD . . . J 6 -10.774 -57.354 -37.208 1 46.78 ? C2 FAD 702 A 1 HETATM 25 O O2 FAD . . . J 6 -11.686 -57.719 -37.965 1 53.2 ? O2 FAD 702 A 1 HETATM 26 N N3 FAD . . . J 6 -9.808 -58.222 -36.906 1 45.85 ? N3 FAD 702 A 1 HETATM 27 C C4 FAD . . . J 6 -8.801 -57.897 -36.107 1 46.46 ? C4 FAD 702 A 1 HETATM 28 O O4 FAD . . . J 6 -7.915 -58.743 -35.853 1 49.7 ? O4 FAD 702 A 1 HETATM 29 C C4X FAD . . . J 6 -8.765 -56.527 -35.552 1 45.77 ? C4X FAD 702 A 1 HETATM 30 N N5 FAD . . . J 6 -7.779 -56.107 -34.744 1 44.06 ? N5 FAD 702 A 1 HETATM 31 C C5X FAD . . . J 6 -7.787 -54.851 -34.263 1 43.63 ? C5X FAD 702 A 1 HETATM 32 C C6 FAD . . . J 6 -6.75 -54.478 -33.434 1 45.69 ? C6 FAD 702 A 1 HETATM 33 C C7 FAD . . . J 6 -6.7 -53.201 -32.915 1 45.45 ? C7 FAD 702 A 1 HETATM 34 C C7M FAD . . . J 6 -5.585 -52.768 -31.998 1 46.33 ? C7M FAD 702 A 1 HETATM 35 C C8 FAD . . . J 6 -7.775 -52.265 -33.27 1 44.8 ? C8 FAD 702 A 1 HETATM 36 C C8M FAD . . . J 6 -7.749 -50.921 -32.677 1 44.19 ? C8M FAD 702 A 1 HETATM 37 C C9 FAD . . . J 6 -8.826 -52.61 -34.088 1 43.48 ? C9 FAD 702 A 1 HETATM 38 C C9A FAD . . . J 6 -8.866 -53.886 -34.602 1 43.65 ? C9A FAD 702 A 1 HETATM 39 N N10 FAD . . . J 6 -9.909 -54.299 -35.442 1 46.87 ? N10 FAD 702 A 1 HETATM 40 C C10 FAD . . . J 6 -9.869 -55.621 -35.934 1 46.65 ? C10 FAD 702 A 1 HETATM 41 C C1' FAD . . . J 6 -10.993 -53.398 -35.856 1 47.93 ? C1' FAD 702 A 1 HETATM 42 C C2' FAD . . . J 6 -10.636 -52.901 -37.265 1 48.19 ? C2' FAD 702 A 1 HETATM 43 O O2' FAD . . . J 6 -9.228 -52.976 -37.515 1 49.24 ? O2' FAD 702 A 1 HETATM 44 C C3' FAD . . . J 6 -10.969 -51.444 -37.531 1 48.88 ? C3' FAD 702 A 1 HETATM 45 O O3' FAD . . . J 6 -12.235 -51.098 -36.965 1 50.54 ? O3' FAD 702 A 1 HETATM 46 C C4' FAD . . . J 6 -10.908 -51.239 -39.04 1 48.48 ? C4' FAD 702 A 1 HETATM 47 O O4' FAD . . . J 6 -9.538 -51.365 -39.389 1 50.56 ? O4' FAD 702 A 1 HETATM 48 C C5' FAD . . . J 6 -11.388 -49.871 -39.489 1 48.76 ? C5' FAD 702 A 1 HETATM 49 O O5' FAD . . . J 6 -11.135 -49.643 -40.876 1 46.87 ? O5' FAD 702 A 1 HETATM 50 P P FAD . . . J 6 -11.626 -48.255 -41.544 1 48.59 ? P FAD 702 A 1 HETATM 51 O O1P FAD . . . J 6 -11.013 -48.17 -42.927 1 49.75 ? O1P FAD 702 A 1 HETATM 52 O O2P FAD . . . J 6 -13.119 -48.004 -41.358 1 46.17 ? O2P FAD 702 A 1 HETATM 53 O O3P FAD . . . J 6 -10.96 -47.117 -40.63 1 46.31 ? O3P FAD 702 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 389 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 53 #