data_4L3L
#
_model_server_result.job_id            6X1RS0QWtIGBda_dwK9HCg 
_model_server_result.datetime_utc      '2024-11-04 20:50:39' 
_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          4l3l 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":401}' 
#
_entry.id    4L3L 
#
_exptl.entry_id    4L3L 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              390.405 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            2-{[4-(5-ethylpyrimidin-4-yl)piperazin-1-yl]methyl}-5-(trifluoromethyl)-1H-benzimidazole 
_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            4L3L 
_cell.length_a            69.408 
_cell.length_b            69.408 
_cell.length_c            143.378 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4L3L 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 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 
_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
metalc ? metalc1 A SG CYS 169 A CYS 217 1_555 C ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.583 ? 
metalc ? metalc2 A ND1 HIS 174 A HIS 222 1_555 C ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? 
metalc ? metalc3 A ND1 HIS 180 A HIS 228 1_555 C ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.479 ? 
metalc ? metalc4 A SG CYS 183 A CYS 231 1_555 C ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.579 ? 
#
_chem_comp.formula           'C19 H21 F3 N6' 
_chem_comp.formula_weight    390.405 
_chem_comp.id                5FI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              2-{[4-(5-ethylpyrimidin-4-yl)piperazin-1-yl]methyl}-5-(trifluoromethyl)-1H-benzimidazole 
_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
FAB CBB 5FI sing 1 n n 
FAD CBB 5FI sing 2 n n 
CBB FAC 5FI sing 3 n n 
CBB CAU 5FI sing 4 n n 
CAU CAI 5FI doub 5 n y 
CAU CAE 5FI sing 6 n y 
CAI CAX 5FI sing 7 n y 
CAE CAF 5FI doub 8 n y 
CAX NAR 5FI sing 9 n y 
CAX CAY 5FI doub 10 n y 
NAR CAV 5FI doub 11 n y 
CAA CAJ 5FI sing 12 n n 
CAJ C5 5FI sing 13 n n 
CAF CAY 5FI sing 14 n y 
CAY NAS 5FI sing 15 n y 
CAV NAS 5FI sing 16 n y 
CAV CAO 5FI sing 17 n n 
CAM CAK 5FI sing 18 n n 
CAM NBA 5FI sing 19 n n 
C5 C6 5FI doub 20 n y 
C5 C4 5FI sing 21 n y 
CAO NAZ 5FI sing 22 n n 
CAK NAZ 5FI sing 23 n n 
C6 N1 5FI sing 24 n y 
NAZ CAL 5FI sing 25 n n 
NBA C4 5FI sing 26 n n 
NBA CAN 5FI sing 27 n n 
C4 N3 5FI doub 28 n y 
N1 C2 5FI doub 29 n y 
CAN CAL 5FI sing 30 n n 
N3 C2 5FI sing 31 n y 
C6 H1 5FI sing 32 n n 
CAE H2 5FI sing 33 n n 
CAF H3 5FI sing 34 n n 
CAI H4 5FI sing 35 n n 
CAO H7 5FI sing 36 n n 
CAO H8 5FI sing 37 n n 
CAL H10 5FI sing 38 n n 
CAL H11 5FI sing 39 n n 
CAN H12 5FI sing 40 n n 
CAN H13 5FI sing 41 n n 
CAK H14 5FI sing 42 n n 
CAK H15 5FI sing 43 n n 
CAM H16 5FI sing 44 n n 
CAM H17 5FI sing 45 n n 
CAJ H18 5FI sing 46 n n 
CAJ H19 5FI sing 47 n n 
CAA H20 5FI sing 48 n n 
CAA H21 5FI sing 49 n n 
CAA H22 5FI sing 50 n n 
C2 H23 5FI sing 51 n n 
NAS H5 5FI sing 52 n n 
#
_atom_sites.entry_id                     4L3L 
_atom_sites.fract_transf_matrix[1][1]    0.014408 
_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]    0.014408 
_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]    0.006975 
_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 5FI A 1 401 1 5FI DRG . 
C 3 ZN A 1 402 1 ZN ZN . 
D 4 HOH A 1 501 1 HOH HOH . 
D 4 HOH A 2 502 2 HOH HOH . 
D 4 HOH A 3 503 3 HOH HOH . 
D 4 HOH A 4 504 4 HOH HOH . 
D 4 HOH A 5 505 5 HOH HOH . 
D 4 HOH A 6 506 6 HOH HOH . 
D 4 HOH A 7 507 7 HOH HOH . 
D 4 HOH A 8 508 8 HOH HOH . 
D 4 HOH A 9 509 9 HOH HOH . 
D 4 HOH A 10 510 10 HOH HOH . 
D 4 HOH A 11 511 11 HOH HOH . 
D 4 HOH A 12 512 12 HOH HOH . 
D 4 HOH A 13 513 13 HOH HOH . 
D 4 HOH A 14 514 14 HOH HOH . 
D 4 HOH A 15 515 15 HOH HOH . 
D 4 HOH A 16 516 16 HOH HOH . 
D 4 HOH A 17 517 17 HOH HOH . 
D 4 HOH A 18 518 18 HOH HOH . 
D 4 HOH A 19 519 19 HOH HOH . 
D 4 HOH A 20 520 20 HOH HOH . 
D 4 HOH A 21 521 21 HOH HOH . 
D 4 HOH A 22 522 22 HOH HOH . 
D 4 HOH A 23 523 23 HOH HOH . 
D 4 HOH A 24 524 24 HOH HOH . 
D 4 HOH A 25 525 26 HOH HOH . 
D 4 HOH A 26 526 28 HOH HOH . 
D 4 HOH A 27 527 29 HOH HOH . 
D 4 HOH A 28 528 30 HOH HOH . 
D 4 HOH A 29 529 31 HOH HOH . 
D 4 HOH A 30 530 32 HOH HOH . 
D 4 HOH A 31 531 34 HOH HOH . 
D 4 HOH A 32 532 35 HOH HOH . 
D 4 HOH A 33 533 39 HOH HOH . 
D 4 HOH A 34 534 42 HOH HOH . 
D 4 HOH A 35 535 43 HOH HOH . 
D 4 HOH A 36 536 45 HOH HOH . 
D 4 HOH A 37 537 46 HOH HOH . 
D 4 HOH A 38 538 48 HOH HOH . 
D 4 HOH A 39 539 50 HOH HOH . 
D 4 HOH A 40 540 51 HOH HOH . 
D 4 HOH A 41 541 53 HOH HOH . 
D 4 HOH A 42 542 56 HOH HOH . 
D 4 HOH A 43 543 59 HOH HOH . 
D 4 HOH A 44 544 60 HOH HOH . 
D 4 HOH A 45 545 61 HOH HOH . 
D 4 HOH A 46 546 62 HOH HOH . 
D 4 HOH A 47 547 63 HOH HOH . 
D 4 HOH A 48 548 64 HOH HOH . 
D 4 HOH A 49 549 65 HOH HOH . 
D 4 HOH A 50 550 68 HOH HOH . 
D 4 HOH A 51 551 70 HOH HOH . 
D 4 HOH A 52 552 76 HOH HOH . 
D 4 HOH A 53 553 82 HOH HOH . 
D 4 HOH A 54 554 83 HOH HOH . 
D 4 HOH A 55 555 84 HOH HOH . 
D 4 HOH A 56 556 87 HOH HOH . 
D 4 HOH A 57 557 88 HOH HOH . 
D 4 HOH A 58 558 92 HOH HOH . 
D 4 HOH A 59 559 95 HOH HOH . 
D 4 HOH A 60 560 96 HOH HOH . 
D 4 HOH A 61 561 97 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 C4 5FI . . . B 2 -9.627 12.763 13.295 1 41.12 ? C4 5FI 401 A 1 
HETATM 2 C C5 5FI . . . B 2 -8.404 12.65 12.597 1 39.99 ? C5 5FI 401 A 1 
HETATM 3 C C6 5FI . . . B 2 -7.237 12.925 13.314 1 41.96 ? C6 5FI 401 A 1 
HETATM 4 N N1 5FI . . . B 2 -7.315 13.283 14.604 1 41.53 ? N1 5FI 401 A 1 
HETATM 5 N N3 5FI . . . B 2 -9.621 13.14 14.58 1 43.58 ? N3 5FI 401 A 1 
HETATM 6 F FAB 5FI . . . B 2 -14.944 4.884 8.716 1 72.42 ? FAB 5FI 401 A 1 
HETATM 7 C CBB 5FI . . . B 2 -15.592 5.879 8.106 1 71.13 ? CBB 5FI 401 A 1 
HETATM 8 F FAC 5FI . . . B 2 -16.833 5.486 7.819 1 72.79 ? FAC 5FI 401 A 1 
HETATM 9 F FAD 5FI . . . B 2 -14.979 6.245 6.98 1 72.88 ? FAD 5FI 401 A 1 
HETATM 10 C CAU 5FI . . . B 2 -15.671 7.044 9.037 1 53.88 ? CAU 5FI 401 A 1 
HETATM 11 C CAE 5FI . . . B 2 -16.409 6.901 10.204 1 52.82 ? CAE 5FI 401 A 1 
HETATM 12 C CAF 5FI . . . B 2 -16.555 7.97 11.085 1 47.75 ? CAF 5FI 401 A 1 
HETATM 13 C CAI 5FI . . . B 2 -15.055 8.263 8.732 1 46.35 ? CAI 5FI 401 A 1 
HETATM 14 C CAX 5FI . . . B 2 -15.199 9.363 9.639 1 51.88 ? CAX 5FI 401 A 1 
HETATM 15 C CAY 5FI . . . B 2 -15.933 9.212 10.786 1 48.44 ? CAY 5FI 401 A 1 
HETATM 16 N NAS 5FI . . . B 2 -15.911 10.424 11.47 1 45.77 ? NAS 5FI 401 A 1 
HETATM 17 N NAR 5FI . . . B 2 -14.725 10.673 9.637 1 45.1 ? NAR 5FI 401 A 1 
HETATM 18 C CAV 5FI . . . B 2 -15.174 11.3 10.756 1 45.94 ? CAV 5FI 401 A 1 
HETATM 19 C CAO 5FI . . . B 2 -14.921 12.751 11.167 1 56.08 ? CAO 5FI 401 A 1 
HETATM 20 N NAZ 5FI . . . B 2 -13.635 12.817 11.866 1 47.93 ? NAZ 5FI 401 A 1 
HETATM 21 C CAL 5FI . . . B 2 -13.326 12.136 13.098 1 45.04 ? CAL 5FI 401 A 1 
HETATM 22 C CAN 5FI . . . B 2 -12.037 12.597 13.684 1 47.28 ? CAN 5FI 401 A 1 
HETATM 23 C CAK 5FI . . . B 2 -12.536 12.821 10.939 1 43.85 ? CAK 5FI 401 A 1 
HETATM 24 C CAM 5FI . . . B 2 -11.32 13.371 11.618 1 51.36 ? CAM 5FI 401 A 1 
HETATM 25 N NBA 5FI . . . B 2 -10.959 12.573 12.745 1 45.85 ? NBA 5FI 401 A 1 
HETATM 26 C CAJ 5FI . . . B 2 -8.262 12.205 11.179 1 40.15 ? CAJ 5FI 401 A 1 
HETATM 27 C CAA 5FI . . . B 2 -8.844 10.854 10.856 1 48.85 ? CAA 5FI 401 A 1 
HETATM 28 C C2 5FI . . . B 2 -8.482 13.39 15.221 1 44.86 ? C2 5FI 401 A 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           274 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           28 
#