data_6QPL # _model_server_result.job_id Vhvegd1SRgL1szgowRZD5g _model_server_result.datetime_utc '2024-11-16 03:54:07' _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 6qpl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":305}' # _entry.id 6QPL # _exptl.entry_id 6QPL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 341.447 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[3-(aminomethyl)-5-[3-(1,3-dihydroisoindol-2-yl)propoxy]-4-methoxy-phenyl]methanamine' _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 90 _cell.entry_id 6QPL _cell.length_a 115.3 _cell.length_b 115.3 _cell.length_c 43.59 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6QPL _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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,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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C20 H27 N3 O2' _chem_comp.formula_weight 341.447 _chem_comp.id JC5 _chem_comp.mon_nstd_flag . _chem_comp.name '[3-(aminomethyl)-5-[3-(1,3-dihydroisoindol-2-yl)propoxy]-4-methoxy-phenyl]methanamine' _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 N1 C6 JC5 sing 195 n n C6 C5 JC5 sing 196 n n C5 C7 JC5 doub 197 n y C5 C4 JC5 sing 198 n y C7 C8 JC5 sing 199 n y C4 C2 JC5 doub 200 n y C O JC5 sing 201 n n C8 O1 JC5 sing 202 n n C8 C1 JC5 doub 203 n y C2 C1 JC5 sing 204 n y C2 C3 JC5 sing 205 n n O1 C9 JC5 sing 206 n n C1 O JC5 sing 207 n n C9 C10 JC5 sing 208 n n C3 N JC5 sing 209 n n C10 C11 JC5 sing 210 n n C12 C13 JC5 sing 211 n n C12 N2 JC5 sing 212 n n C14 C13 JC5 doub 213 n y C14 C15 JC5 sing 214 n y C13 C18 JC5 sing 215 n y C15 C16 JC5 doub 216 n y N2 C11 JC5 sing 217 n n N2 C19 JC5 sing 218 n n C18 C19 JC5 sing 219 n n C18 C17 JC5 doub 220 n y C16 C17 JC5 sing 221 n y N1 H27 JC5 sing 222 n n N1 H11 JC5 sing 223 n n C4 H7 JC5 sing 224 n n C6 H9 JC5 sing 225 n n C6 H8 JC5 sing 226 n n C7 H12 JC5 sing 227 n n C10 H15 JC5 sing 228 n n C10 H16 JC5 sing 229 n n C15 H22 JC5 sing 230 n n C17 H24 JC5 sing 231 n n N H5 JC5 sing 232 n n N H6 JC5 sing 233 n n C H2 JC5 sing 234 n n C H1 JC5 sing 235 n n C H JC5 sing 236 n n C11 H17 JC5 sing 237 n n C11 H18 JC5 sing 238 n n C12 H20 JC5 sing 239 n n C12 H19 JC5 sing 240 n n C14 H21 JC5 sing 241 n n C16 H23 JC5 sing 242 n n C19 H25 JC5 sing 243 n n C19 H26 JC5 sing 244 n n C3 H3 JC5 sing 245 n n C3 H4 JC5 sing 246 n n C9 H13 JC5 sing 247 n n C9 H14 JC5 sing 248 n n # _atom_sites.entry_id 6QPL _atom_sites.fract_transf_matrix[1][1] 0.008673 _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] 0.008673 _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] 0.022941 _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 MPD B 1 301 2 MPD MPD . C 2 MPD B 1 302 3 MPD MPD . D 3 DMS B 1 303 1 DMS DMS . E 3 DMS B 1 304 2 DMS DMS . F 4 JC5 B 1 305 1 JC5 LIG . G 5 GLY B 1 306 2 GLY GLY . H 6 PO4 B 1 307 1 PO4 PO4 . I 7 GOL B 1 308 1 GOL GOL . J 8 HOH B 1 401 174 HOH HOH . J 8 HOH B 2 402 175 HOH HOH . J 8 HOH B 3 403 58 HOH HOH . J 8 HOH B 4 404 52 HOH HOH . J 8 HOH B 5 405 82 HOH HOH . J 8 HOH B 6 406 71 HOH HOH . J 8 HOH B 7 407 5 HOH HOH . J 8 HOH B 8 408 103 HOH HOH . J 8 HOH B 9 409 49 HOH HOH . J 8 HOH B 10 410 18 HOH HOH . J 8 HOH B 11 411 90 HOH HOH . J 8 HOH B 12 412 19 HOH HOH . J 8 HOH B 13 413 24 HOH HOH . J 8 HOH B 14 414 12 HOH HOH . J 8 HOH B 15 415 73 HOH HOH . J 8 HOH B 16 416 40 HOH HOH . J 8 HOH B 17 417 36 HOH HOH . J 8 HOH B 18 418 123 HOH HOH . J 8 HOH B 19 419 32 HOH HOH . J 8 HOH B 20 420 3 HOH HOH . J 8 HOH B 21 421 92 HOH HOH . J 8 HOH B 22 422 1 HOH HOH . J 8 HOH B 23 423 46 HOH HOH . J 8 HOH B 24 424 69 HOH HOH . J 8 HOH B 25 425 17 HOH HOH . J 8 HOH B 26 426 70 HOH HOH . J 8 HOH B 27 427 101 HOH HOH . J 8 HOH B 28 428 10 HOH HOH . J 8 HOH B 29 429 21 HOH HOH . J 8 HOH B 30 430 9 HOH HOH . J 8 HOH B 31 431 14 HOH HOH . J 8 HOH B 32 432 63 HOH HOH . J 8 HOH B 33 433 112 HOH HOH . J 8 HOH B 34 434 55 HOH HOH . J 8 HOH B 35 435 87 HOH HOH . J 8 HOH B 36 436 7 HOH HOH . J 8 HOH B 37 437 39 HOH HOH . J 8 HOH B 38 438 30 HOH HOH . J 8 HOH B 39 439 79 HOH HOH . J 8 HOH B 40 440 67 HOH HOH . J 8 HOH B 41 441 26 HOH HOH . J 8 HOH B 42 442 33 HOH HOH . J 8 HOH B 43 443 2 HOH HOH . J 8 HOH B 44 444 23 HOH HOH . J 8 HOH B 45 445 22 HOH HOH . J 8 HOH B 46 446 56 HOH HOH . J 8 HOH B 47 447 51 HOH HOH . J 8 HOH B 48 448 72 HOH HOH . J 8 HOH B 49 449 66 HOH HOH . J 8 HOH B 50 450 68 HOH HOH . J 8 HOH B 51 451 35 HOH HOH . J 8 HOH B 52 452 57 HOH HOH . J 8 HOH B 53 453 106 HOH HOH . J 8 HOH B 54 454 99 HOH HOH . J 8 HOH B 55 455 8 HOH HOH . J 8 HOH B 56 456 6 HOH HOH . J 8 HOH B 57 457 37 HOH HOH . J 8 HOH B 58 458 43 HOH HOH . J 8 HOH B 59 459 65 HOH HOH . J 8 HOH B 60 460 42 HOH HOH . J 8 HOH B 61 461 27 HOH HOH . J 8 HOH B 62 462 74 HOH HOH . J 8 HOH B 63 463 75 HOH HOH . J 8 HOH B 64 464 130 HOH HOH . J 8 HOH B 65 465 45 HOH HOH . J 8 HOH B 66 466 89 HOH HOH . J 8 HOH B 67 467 47 HOH HOH . J 8 HOH B 68 468 64 HOH HOH . J 8 HOH B 69 469 176 HOH HOH . J 8 HOH B 70 470 28 HOH HOH . J 8 HOH B 71 471 25 HOH HOH . J 8 HOH B 72 472 96 HOH HOH . J 8 HOH B 73 473 53 HOH HOH . J 8 HOH B 74 474 77 HOH HOH . J 8 HOH B 75 475 13 HOH HOH . J 8 HOH B 76 476 41 HOH HOH . J 8 HOH B 77 477 76 HOH HOH . J 8 HOH B 78 478 118 HOH HOH . J 8 HOH B 79 479 16 HOH HOH . J 8 HOH B 80 480 50 HOH HOH . J 8 HOH B 81 481 11 HOH HOH . J 8 HOH B 82 482 116 HOH HOH . J 8 HOH B 83 483 61 HOH HOH . J 8 HOH B 84 484 120 HOH HOH . J 8 HOH B 85 485 81 HOH HOH . J 8 HOH B 86 486 169 HOH HOH . J 8 HOH B 87 487 60 HOH HOH . J 8 HOH B 88 488 98 HOH HOH . J 8 HOH B 89 489 115 HOH HOH . J 8 HOH B 90 490 177 HOH HOH . J 8 HOH B 91 491 171 HOH HOH . J 8 HOH B 92 492 84 HOH HOH . J 8 HOH B 93 493 4 HOH HOH . J 8 HOH B 94 494 29 HOH HOH . J 8 HOH B 95 495 172 HOH HOH . J 8 HOH B 96 496 44 HOH HOH . J 8 HOH B 97 497 38 HOH HOH . J 8 HOH B 98 498 34 HOH HOH . J 8 HOH B 99 499 20 HOH HOH . J 8 HOH B 100 500 54 HOH HOH . J 8 HOH B 101 501 31 HOH HOH . J 8 HOH B 102 502 170 HOH HOH . J 8 HOH B 103 503 62 HOH HOH . J 8 HOH B 104 504 117 HOH HOH . J 8 HOH B 105 505 59 HOH HOH . J 8 HOH B 106 506 48 HOH HOH . J 8 HOH B 107 507 78 HOH HOH . J 8 HOH B 108 508 83 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 N N1 JC5 . . . F 4 -5.519 -36.326 -8.902 1 25.63 ? N1 JC5 305 B 1 HETATM 2 C C4 JC5 . . . F 4 -7.357 -38.172 -6.821 1 25.03 ? C4 JC5 305 B 1 HETATM 3 C C5 JC5 . . . F 4 -7.15 -36.831 -7.125 1 24.63 ? C5 JC5 305 B 1 HETATM 4 C C6 JC5 . . . F 4 -5.755 -36.317 -7.448 1 26.13 ? C6 JC5 305 B 1 HETATM 5 C C7 JC5 . . . F 4 -8.215 -35.942 -7.009 1 21.58 ? C7 JC5 305 B 1 HETATM 6 C C8 JC5 . . . F 4 -9.442 -36.382 -6.548 1 18.53 ? C8 JC5 305 B 1 HETATM 7 C C10 JC5 . . . F 4 -11.575 -33.6 -5.573 1 21.35 ? C10 JC5 305 B 1 HETATM 8 C C13 JC5 . . . F 4 -14.433 -36.95 -4.728 1 24.79 ? C13 JC5 305 B 1 HETATM 9 C C15 JC5 . . . F 4 -15.993 -38.77 -4.53 1 29.4 ? C15 JC5 305 B 1 HETATM 10 C C17 JC5 . . . F 4 -14.485 -38.286 -2.728 1 32.93 ? C17 JC5 305 B 1 HETATM 11 N N JC5 . . . F 4 -7.891 -40.449 -4.866 1 29.47 ? N JC5 305 B 1 HETATM 12 C C JC5 . . . F 4 -11.792 -38.577 -6.606 1 29.44 ? C JC5 305 B 1 HETATM 13 O O JC5 . . . F 4 -10.814 -38.141 -5.663 1 25.5 ? O JC5 305 B 1 HETATM 14 C C1 JC5 . . . F 4 -9.619 -37.723 -6.207 1 23.05 ? C1 JC5 305 B 1 HETATM 15 C C11 JC5 . . . F 4 -12.044 -34.254 -4.282 1 22.16 ? C11 JC5 305 B 1 HETATM 16 C C12 JC5 . . . F 4 -13.713 -35.775 -5.317 1 21.93 ? C12 JC5 305 B 1 HETATM 17 C C14 JC5 . . . F 4 -15.458 -37.724 -5.263 1 28.4 ? C14 JC5 305 B 1 HETATM 18 C C16 JC5 . . . F 4 -15.506 -39.054 -3.268 1 32.1 ? C16 JC5 305 B 1 HETATM 19 C C18 JC5 . . . F 4 -13.948 -37.234 -3.457 1 27.4 ? C18 JC5 305 B 1 HETATM 20 C C19 JC5 . . . F 4 -12.838 -36.291 -3.085 1 24.22 ? C19 JC5 305 B 1 HETATM 21 C C2 JC5 . . . F 4 -8.581 -38.642 -6.356 1 22.31 ? C2 JC5 305 B 1 HETATM 22 C C3 JC5 . . . F 4 -8.749 -40.1 -5.993 1 27.67 ? C3 JC5 305 B 1 HETATM 23 C C9 JC5 . . . F 4 -10.296 -34.186 -6.11 1 21.02 ? C9 JC5 305 B 1 HETATM 24 N N2 JC5 . . . F 4 -12.492 -35.647 -4.417 1 23.13 ? N2 JC5 305 B 1 HETATM 25 O O1 JC5 . . . F 4 -10.531 -35.581 -6.346 1 20.36 ? O1 JC5 305 B 1 HETATM 26 H H27 JC5 . . . F 4 -6.075 -35.639 -9.4 1 30.76 ? H27 JC5 305 B 1 HETATM 27 H H11 JC5 . . . F 4 -5.649 -37.244 -9.316 1 30.76 ? H11 JC5 305 B 1 HETATM 28 H H7 JC5 . . . F 4 -6.534 -38.872 -6.954 1 30.04 ? H7 JC5 305 B 1 HETATM 29 H H9 JC5 . . . F 4 -5.667 -35.294 -7.085 1 31.36 ? H9 JC5 305 B 1 HETATM 30 H H8 JC5 . . . F 4 -5.005 -36.865 -6.878 1 31.36 ? H8 JC5 305 B 1 HETATM 31 H H12 JC5 . . . F 4 -8.074 -34.898 -7.286 1 25.89 ? H12 JC5 305 B 1 HETATM 32 H H15 JC5 . . . F 4 -12.355 -33.673 -6.329 1 25.63 ? H15 JC5 305 B 1 HETATM 33 H H16 JC5 . . . F 4 -11.433 -32.529 -5.436 1 25.63 ? H16 JC5 305 B 1 HETATM 34 H H22 JC5 . . . F 4 -16.799 -39.368 -4.953 1 35.27 ? H22 JC5 305 B 1 HETATM 35 H H24 JC5 . . . F 4 -14.102 -38.504 -1.733 1 39.51 ? H24 JC5 305 B 1 HETATM 36 H H5 JC5 . . . F 4 -8.328 -41.02 -4.149 1 35.36 ? H5 JC5 305 B 1 HETATM 37 H H6 JC5 . . . F 4 -6.964 -40.777 -5.118 1 35.36 ? H6 JC5 305 B 1 HETATM 38 H H2 JC5 . . . F 4 -12.756 -38.753 -6.132 1 35.33 ? H2 JC5 305 B 1 HETATM 39 H H1 JC5 . . . F 4 -11.382 -39.518 -6.97 1 35.33 ? H1 JC5 305 B 1 HETATM 40 H H JC5 . . . F 4 -11.93 -37.884 -7.435 1 35.33 ? H JC5 305 B 1 HETATM 41 H H17 JC5 . . . F 4 -12.792 -33.613 -3.817 1 26.59 ? H17 JC5 305 B 1 HETATM 42 H H18 JC5 . . . F 4 -11.219 -34.247 -3.571 1 26.59 ? H18 JC5 305 B 1 HETATM 43 H H20 JC5 . . . F 4 -14.356 -34.896 -5.351 1 26.31 ? H20 JC5 305 B 1 HETATM 44 H H19 JC5 . . . F 4 -13.361 -35.951 -6.332 1 26.31 ? H19 JC5 305 B 1 HETATM 45 H H21 JC5 . . . F 4 -15.83 -37.494 -6.26 1 34.08 ? H21 JC5 305 B 1 HETATM 46 H H23 JC5 . . . F 4 -15.922 -39.88 -2.694 1 38.52 ? H23 JC5 305 B 1 HETATM 47 H H25 JC5 . . . F 4 -13.164 -35.607 -2.303 1 29.07 ? H25 JC5 305 B 1 HETATM 48 H H26 JC5 . . . F 4 -11.949 -36.798 -2.715 1 29.07 ? H26 JC5 305 B 1 HETATM 49 H H3 JC5 . . . F 4 -8.477 -40.707 -6.855 1 33.21 ? H3 JC5 305 B 1 HETATM 50 H H4 JC5 . . . F 4 -9.796 -40.339 -5.815 1 33.21 ? H4 JC5 305 B 1 HETATM 51 H H13 JC5 . . . F 4 -9.98 -33.684 -7.023 1 25.22 ? H13 JC5 305 B 1 HETATM 52 H H14 JC5 . . . F 4 -9.478 -34.075 -5.399 1 25.22 ? H14 JC5 305 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 35 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 52 #