data_3L38 # _model_server_result.job_id rCl9L8IGonVX4FYTZu_xzA _model_server_result.datetime_utc '2025-03-21 07:53:25' _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 3l38 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1}' # _entry.id 3L38 # _exptl.entry_id 3L38 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 453.923 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 6-({2-(2-chlorophenyl)-5-[4-(pyrimidin-5-yloxy)phenyl]-1H-pyrrol-1-yl}methyl)pyridin-2-amine _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 95.04 _cell.angle_gamma 90 _cell.entry_id 3L38 _cell.length_a 72.253 _cell.length_b 103.687 _cell.length_c 49.983 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3L38 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 # 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 A SG CYS 171 A CYS 217 1_555 A SG CYS 375 A CYS 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 233 A CYS 279 1_555 A SG CYS 398 A CYS 444 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 A SG CYS 285 A CYS 331 1_555 A SG CYS 335 A CYS 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? # _chem_comp.formula 'C26 H20 Cl N5 O' _chem_comp.formula_weight 453.923 _chem_comp.id 879 _chem_comp.mon_nstd_flag . _chem_comp.name 6-({2-(2-chlorophenyl)-5-[4-(pyrimidin-5-yloxy)phenyl]-1H-pyrrol-1-yl}methyl)pyridin-2-amine _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 C1 C2 879 doub 1 n y C1 C4 879 sing 2 n y N1 C14 879 doub 3 n y N1 C16 879 sing 4 n y O1 C19 879 sing 5 n n O1 C20 879 sing 6 n n CL1 C21 879 sing 7 n n C2 C9 879 sing 8 n y N2 C15 879 sing 9 n y N2 C16 879 doub 10 n y C3 C12 879 doub 11 n y C3 C13 879 sing 12 n y N3 C24 879 doub 13 n y N3 C25 879 sing 14 n y C4 C18 879 doub 15 n y N4 C22 879 sing 16 n y N4 C23 879 sing 17 n y N4 C26 879 sing 18 n n C5 C7 879 doub 19 n y C5 C17 879 sing 20 n y N5 C25 879 sing 21 n n C6 C8 879 sing 22 n y C6 C17 879 doub 23 n y C7 C19 879 sing 24 n y C8 C19 879 doub 25 n y C9 C21 879 doub 26 n y C10 C11 879 sing 27 n y C10 C22 879 doub 28 n y C11 C23 879 doub 29 n y C12 C24 879 sing 30 n y C13 C25 879 doub 31 n y C14 C20 879 sing 32 n y C15 C20 879 doub 33 n y C17 C22 879 sing 34 n y C18 C21 879 sing 35 n y C18 C23 879 sing 36 n y C24 C26 879 sing 37 n n C1 H1 879 sing 38 n n C2 H2 879 sing 39 n n C3 H3 879 sing 40 n n C4 H4 879 sing 41 n n C5 H5 879 sing 42 n n N5 HN5 879 sing 43 n n N5 HN5A 879 sing 44 n n C6 H6 879 sing 45 n n C7 H7 879 sing 46 n n C8 H8 879 sing 47 n n C9 H9 879 sing 48 n n C10 H10 879 sing 49 n n C11 H11 879 sing 50 n n C12 H12 879 sing 51 n n C13 H13 879 sing 52 n n C14 H14 879 sing 53 n n C15 H15 879 sing 54 n n C16 H16 879 sing 55 n n C26 H26 879 sing 56 n n C26 H26A 879 sing 57 n n # _atom_sites.entry_id 3L38 _atom_sites.fract_transf_matrix[1][1] 0.01384 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001221 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009644 _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] 0.020084 _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 2 879 A 1 1 1 879 878 . C 3 HOH A 1 2 2 HOH HOH . C 3 HOH A 2 3 3 HOH HOH . C 3 HOH A 3 4 4 HOH HOH . C 3 HOH A 4 5 5 HOH HOH . C 3 HOH A 5 6 6 HOH HOH . C 3 HOH A 6 7 7 HOH HOH . C 3 HOH A 7 8 8 HOH HOH . C 3 HOH A 8 9 9 HOH HOH . C 3 HOH A 9 10 10 HOH HOH . C 3 HOH A 10 11 11 HOH HOH . C 3 HOH A 11 12 12 HOH HOH . C 3 HOH A 12 13 13 HOH HOH . C 3 HOH A 13 14 14 HOH HOH . C 3 HOH A 14 15 15 HOH HOH . C 3 HOH A 15 16 16 HOH HOH . C 3 HOH A 16 17 17 HOH HOH . C 3 HOH A 17 18 18 HOH HOH . C 3 HOH A 18 19 19 HOH HOH . C 3 HOH A 19 20 20 HOH HOH . C 3 HOH A 20 21 21 HOH HOH . C 3 HOH A 21 22 22 HOH HOH . C 3 HOH A 22 23 23 HOH HOH . C 3 HOH A 23 24 24 HOH HOH . C 3 HOH A 24 25 25 HOH HOH . C 3 HOH A 25 26 26 HOH HOH . C 3 HOH A 26 27 27 HOH HOH . C 3 HOH A 27 28 28 HOH HOH . C 3 HOH A 28 29 29 HOH HOH . C 3 HOH A 29 30 30 HOH HOH . C 3 HOH A 30 31 31 HOH HOH . C 3 HOH A 31 32 32 HOH HOH . C 3 HOH A 32 33 33 HOH HOH . C 3 HOH A 33 35 35 HOH HOH . C 3 HOH A 34 36 36 HOH HOH . C 3 HOH A 35 37 37 HOH HOH . C 3 HOH A 36 38 38 HOH HOH . C 3 HOH A 37 39 39 HOH HOH . C 3 HOH A 38 41 41 HOH HOH . C 3 HOH A 39 42 42 HOH HOH . C 3 HOH A 40 43 43 HOH HOH . C 3 HOH A 41 44 44 HOH HOH . C 3 HOH A 42 45 45 HOH HOH . C 3 HOH A 43 46 46 HOH HOH . C 3 HOH A 44 462 1 HOH HOH . C 3 HOH A 45 463 47 HOH HOH . C 3 HOH A 46 464 48 HOH HOH . C 3 HOH A 47 465 49 HOH HOH . C 3 HOH A 48 466 50 HOH HOH . C 3 HOH A 49 467 52 HOH HOH . C 3 HOH A 50 468 53 HOH HOH . C 3 HOH A 51 469 54 HOH HOH . C 3 HOH A 52 470 55 HOH HOH . C 3 HOH A 53 471 56 HOH HOH . C 3 HOH A 54 472 57 HOH HOH . C 3 HOH A 55 473 58 HOH HOH . C 3 HOH A 56 474 59 HOH HOH . C 3 HOH A 57 475 60 HOH HOH . C 3 HOH A 58 476 61 HOH HOH . C 3 HOH A 59 477 62 HOH HOH . C 3 HOH A 60 478 63 HOH HOH . C 3 HOH A 61 479 64 HOH HOH . C 3 HOH A 62 480 65 HOH HOH . C 3 HOH A 63 481 66 HOH HOH . C 3 HOH A 64 482 67 HOH HOH . C 3 HOH A 65 483 68 HOH HOH . C 3 HOH A 66 484 69 HOH HOH . C 3 HOH A 67 485 70 HOH HOH . C 3 HOH A 68 486 74 HOH HOH . C 3 HOH A 69 487 75 HOH HOH . C 3 HOH A 70 488 76 HOH HOH . C 3 HOH A 71 489 77 HOH HOH . C 3 HOH A 72 490 78 HOH HOH . C 3 HOH A 73 491 79 HOH HOH . C 3 HOH A 74 492 80 HOH HOH . C 3 HOH A 75 493 81 HOH HOH . C 3 HOH A 76 494 82 HOH HOH . C 3 HOH A 77 495 83 HOH HOH . C 3 HOH A 78 496 84 HOH HOH . C 3 HOH A 79 497 85 HOH HOH . C 3 HOH A 80 498 86 HOH HOH . C 3 HOH A 81 499 87 HOH HOH . C 3 HOH A 82 500 88 HOH HOH . C 3 HOH A 83 501 89 HOH HOH . C 3 HOH A 84 502 90 HOH HOH . C 3 HOH A 85 503 91 HOH HOH . C 3 HOH A 86 504 92 HOH HOH . C 3 HOH A 87 505 93 HOH HOH . C 3 HOH A 88 506 94 HOH HOH . C 3 HOH A 89 507 95 HOH HOH . C 3 HOH A 90 508 96 HOH HOH . C 3 HOH A 91 509 97 HOH HOH . C 3 HOH A 92 510 98 HOH HOH . C 3 HOH A 93 511 99 HOH HOH . C 3 HOH A 94 512 100 HOH HOH . C 3 HOH A 95 513 101 HOH HOH . C 3 HOH A 96 514 102 HOH HOH . C 3 HOH A 97 515 103 HOH HOH . C 3 HOH A 98 516 104 HOH HOH . C 3 HOH A 99 517 105 HOH HOH . C 3 HOH A 100 518 106 HOH HOH . C 3 HOH A 101 519 107 HOH HOH . C 3 HOH A 102 520 108 HOH HOH . C 3 HOH A 103 521 109 HOH HOH . C 3 HOH A 104 522 110 HOH HOH . C 3 HOH A 105 523 111 HOH HOH . C 3 HOH A 106 524 112 HOH HOH . C 3 HOH A 107 525 113 HOH HOH . C 3 HOH A 108 526 114 HOH HOH . C 3 HOH A 109 527 117 HOH HOH . C 3 HOH A 110 528 118 HOH HOH . C 3 HOH A 111 529 119 HOH HOH . C 3 HOH A 112 530 120 HOH HOH . C 3 HOH A 113 531 122 HOH HOH . C 3 HOH A 114 532 123 HOH HOH . C 3 HOH A 115 533 124 HOH HOH . C 3 HOH A 116 534 125 HOH HOH . C 3 HOH A 117 535 126 HOH HOH . C 3 HOH A 118 536 127 HOH HOH . C 3 HOH A 119 537 128 HOH HOH . C 3 HOH A 120 538 129 HOH HOH . C 3 HOH A 121 539 130 HOH HOH . C 3 HOH A 122 540 131 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 C1 879 . . . B 2 17.967 -11.55 18.884 1 23.52 ? C1 879 1 A 1 HETATM 2 N N1 879 . . . B 2 9.55 -2.617 13.626 1 15.17 ? N1 879 1 A 1 HETATM 3 O O1 879 . . . B 2 8.901 -5.838 15.277 1 21.46 ? O1 879 1 A 1 HETATM 4 CL CL1 879 . . . B 2 14.933 -12.163 15.605 1 39.52 ? CL1 879 1 A 1 HETATM 5 C C2 879 . . . B 2 18.299 -12.261 17.733 1 18.05 ? C2 879 1 A 1 HETATM 6 N N2 879 . . . B 2 9.151 -2.287 15.981 1 14.32 ? N2 879 1 A 1 HETATM 7 C C3 879 . . . B 2 15.765 -6.206 18.234 1 19.14 ? C3 879 1 A 1 HETATM 8 N N3 879 . . . B 2 15.444 -6.937 15.577 1 12.73 ? N3 879 1 A 1 HETATM 9 C C4 879 . . . B 2 16.689 -11.015 19.04 1 20.53 ? C4 879 1 A 1 HETATM 10 N N4 879 . . . B 2 13.838 -9.686 17.348 1 19.21 ? N4 879 1 A 1 HETATM 11 C C5 879 . . . B 2 12.091 -7.141 16.649 1 14.26 ? C5 879 1 A 1 HETATM 12 N N5 879 . . . B 2 16.306 -4.858 14.863 1 8.18 ? N5 879 1 A 1 HETATM 13 C C6 879 . . . B 2 10.313 -8.74 16.951 1 15.66 ? C6 879 1 A 1 HETATM 14 C C7 879 . . . B 2 11.201 -6.255 16.028 1 11.61 ? C7 879 1 A 1 HETATM 15 C C8 879 . . . B 2 9.421 -7.864 16.334 1 13.95 ? C8 879 1 A 1 HETATM 16 C C9 879 . . . B 2 17.352 -12.444 16.727 1 22.64 ? C9 879 1 A 1 HETATM 17 C C10 879 . . . B 2 12.3 -10.112 18.9 1 20.82 ? C10 879 1 A 1 HETATM 18 C C11 879 . . . B 2 13.437 -10.905 19.17 1 18.99 ? C11 879 1 A 1 HETATM 19 C C12 879 . . . B 2 15.244 -7.454 17.917 1 14.56 ? C12 879 1 A 1 HETATM 20 C C13 879 . . . B 2 16.127 -5.326 17.219 1 11.71 ? C13 879 1 A 1 HETATM 21 C C14 879 . . . B 2 9.38 -3.942 13.819 1 15.05 ? C14 879 1 A 1 HETATM 22 C C15 879 . . . B 2 8.993 -3.62 16.107 1 16.46 ? C15 879 1 A 1 HETATM 23 C C16 879 . . . B 2 9.426 -1.86 14.734 1 13.98 ? C16 879 1 A 1 HETATM 24 C C17 879 . . . B 2 11.655 -8.393 17.119 1 17.06 ? C17 879 1 A 1 HETATM 25 C C18 879 . . . B 2 15.726 -11.192 18.036 1 17.47 ? C18 879 1 A 1 HETATM 26 C C19 879 . . . B 2 9.862 -6.626 15.873 1 14.46 ? C19 879 1 A 1 HETATM 27 C C20 879 . . . B 2 9.095 -4.503 15.05 1 16.75 ? C20 879 1 A 1 HETATM 28 C C21 879 . . . B 2 16.071 -11.909 16.88 1 20.79 ? C21 879 1 A 1 HETATM 29 C C22 879 . . . B 2 12.553 -9.355 17.767 1 19.03 ? C22 879 1 A 1 HETATM 30 C C23 879 . . . B 2 14.385 -10.63 18.199 1 20.8 ? C23 879 1 A 1 HETATM 31 C C24 879 . . . B 2 15.096 -7.783 16.576 1 13.92 ? C24 879 1 A 1 HETATM 32 C C25 879 . . . B 2 15.951 -5.722 15.894 1 13.21 ? C25 879 1 A 1 HETATM 33 C C26 879 . . . B 2 14.535 -9.124 16.193 1 13.29 ? C26 879 1 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 33 #