data_7KXT
#
_model_server_result.job_id            NloD5uRt_Yx0cDFP0t5VQg 
_model_server_result.datetime_utc      '2024-12-23 09:51:01' 
_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          7kxt 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"EA","auth_seq_id":501}' 
#
_entry.id    7KXT 
#
_exptl.entry_id    7KXT 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              458.57 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1-[(4-fluorophenyl)methyl]-N-{1-[2-(4-methoxyphenyl)ethyl]piperidin-4-yl}-1H-benzimidazol-2-amine 
_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          105.11 
_cell.angle_gamma         90 
_cell.entry_id            7KXT 
_cell.length_a            81.47 
_cell.length_b            49.94 
_cell.length_c            105.32 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7KXT 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 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,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EB 1 1 
B,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,FB 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
? 2 C N N 
? 2 EA N N 
#
_chem_comp.formula           'C28 H31 F N4 O' 
_chem_comp.formula_weight    458.57 
_chem_comp.id                XB7 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1-[(4-fluorophenyl)methyl]-N-{1-[2-(4-methoxyphenyl)ethyl]piperidin-4-yl}-1H-benzimidazol-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 O1 XB7 sing 376 n n 
O1 C2 XB7 sing 377 n n 
C3 C2 XB7 doub 378 n y 
C3 C4 XB7 sing 379 n y 
C2 C28 XB7 sing 380 n y 
C4 C5 XB7 doub 381 n y 
C28 C27 XB7 doub 382 n y 
C5 C27 XB7 sing 383 n y 
C5 C6 XB7 sing 384 n n 
C7 C6 XB7 sing 385 n n 
C7 N1 XB7 sing 386 n n 
C12 N1 XB7 sing 387 n n 
C12 C11 XB7 sing 388 n n 
N1 C8 XB7 sing 389 n n 
C11 C10 XB7 sing 390 n n 
C8 C9 XB7 sing 391 n n 
F1 C24 XB7 sing 392 n n 
C10 C9 XB7 sing 393 n n 
C10 N2 XB7 sing 394 n n 
C24 C23 XB7 doub 395 n y 
C24 C25 XB7 sing 396 n y 
C23 C22 XB7 sing 397 n y 
N3 C13 XB7 doub 398 n y 
N3 C14 XB7 sing 399 n y 
C25 C26 XB7 doub 400 n y 
N2 C13 XB7 sing 401 n n 
C13 N4 XB7 sing 402 n y 
C15 C14 XB7 doub 403 n y 
C15 C16 XB7 sing 404 n y 
C22 C21 XB7 doub 405 n y 
C14 C19 XB7 sing 406 n y 
C26 C21 XB7 sing 407 n y 
C21 C20 XB7 sing 408 n n 
C16 C17 XB7 doub 409 n y 
N4 C19 XB7 sing 410 n y 
N4 C20 XB7 sing 411 n n 
C19 C18 XB7 doub 412 n y 
C17 C18 XB7 sing 413 n y 
C1 H1 XB7 sing 414 n n 
C1 H2 XB7 sing 415 n n 
C1 H3 XB7 sing 416 n n 
C10 H4 XB7 sing 417 n n 
C11 H5 XB7 sing 418 n n 
C11 H6 XB7 sing 419 n n 
C12 H7 XB7 sing 420 n n 
C12 H8 XB7 sing 421 n n 
C15 H9 XB7 sing 422 n n 
C16 H10 XB7 sing 423 n n 
C17 H11 XB7 sing 424 n n 
C18 H12 XB7 sing 425 n n 
C20 H13 XB7 sing 426 n n 
C20 H14 XB7 sing 427 n n 
C22 H15 XB7 sing 428 n n 
C23 H16 XB7 sing 429 n n 
C25 H17 XB7 sing 430 n n 
C26 H18 XB7 sing 431 n n 
C27 H19 XB7 sing 432 n n 
C28 H20 XB7 sing 433 n n 
C3 H21 XB7 sing 434 n n 
C4 H22 XB7 sing 435 n n 
C6 H23 XB7 sing 436 n n 
C6 H24 XB7 sing 437 n n 
C7 H25 XB7 sing 438 n n 
C7 H26 XB7 sing 439 n n 
C8 H27 XB7 sing 440 n n 
C8 H28 XB7 sing 441 n n 
C9 H29 XB7 sing 442 n n 
C9 H30 XB7 sing 443 n n 
N2 H32 XB7 sing 444 n n 
#
_atom_sites.entry_id                     7KXT 
_atom_sites.fract_transf_matrix[1][1]    0.012274 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003314 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.020024 
_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]    0.009835 
_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
C 2 XB7 A 1 501 501 XB7 UNL . 
D 3 UNX A 1 502 8 UNX UNX . 
E 3 UNX A 1 503 9 UNX UNX . 
F 3 UNX A 1 504 10 UNX UNX . 
G 3 UNX A 1 505 12 UNX UNX . 
H 3 UNX A 1 506 13 UNX UNX . 
I 3 UNX A 1 507 14 UNX UNX . 
J 3 UNX A 1 508 16 UNX UNX . 
K 3 UNX A 1 509 17 UNX UNX . 
L 3 UNX A 1 510 18 UNX UNX . 
M 3 UNX A 1 511 19 UNX UNX . 
N 3 UNX A 1 512 20 UNX UNX . 
O 3 UNX A 1 513 21 UNX UNX . 
P 3 UNX A 1 514 22 UNX UNX . 
Q 3 UNX A 1 515 23 UNX UNX . 
R 3 UNX A 1 516 35 UNX UNX . 
S 3 UNX A 1 517 37 UNX UNX . 
T 3 UNX A 1 518 39 UNX UNX . 
U 3 UNX A 1 519 44 UNX UNX . 
V 3 UNX A 1 520 46 UNX UNX . 
W 3 UNX A 1 521 47 UNX UNX . 
X 3 UNX A 1 522 48 UNX UNX . 
Y 3 UNX A 1 523 49 UNX UNX . 
Z 3 UNX A 1 524 50 UNX UNX . 
AA 3 UNX A 1 525 51 UNX UNX . 
BA 3 UNX A 1 526 52 UNX UNX . 
CA 3 UNX A 1 527 54 UNX UNX . 
DA 3 UNX A 1 528 55 UNX UNX . 
EA 2 XB7 B 1 501 501 XB7 UNL . 
FA 3 UNX B 1 502 1 UNX UNX . 
GA 3 UNX B 1 503 2 UNX UNX . 
HA 3 UNX B 1 504 3 UNX UNX . 
IA 3 UNX B 1 505 4 UNX UNX . 
JA 3 UNX B 1 506 5 UNX UNX . 
KA 3 UNX B 1 507 6 UNX UNX . 
LA 3 UNX B 1 508 7 UNX UNX . 
MA 3 UNX B 1 509 24 UNX UNX . 
NA 3 UNX B 1 510 26 UNX UNX . 
OA 3 UNX B 1 511 27 UNX UNX . 
PA 3 UNX B 1 512 28 UNX UNX . 
QA 3 UNX B 1 513 29 UNX UNX . 
RA 3 UNX B 1 514 30 UNX UNX . 
SA 3 UNX B 1 515 31 UNX UNX . 
TA 3 UNX B 1 516 32 UNX UNX . 
UA 3 UNX B 1 517 33 UNX UNX . 
VA 3 UNX B 1 518 34 UNX UNX . 
WA 3 UNX B 1 519 36 UNX UNX . 
XA 3 UNX B 1 520 38 UNX UNX . 
YA 3 UNX B 1 521 40 UNX UNX . 
ZA 3 UNX B 1 522 41 UNX UNX . 
AB 3 UNX B 1 523 42 UNX UNX . 
BB 3 UNX B 1 524 43 UNX UNX . 
CB 3 UNX B 1 525 45 UNX UNX . 
DB 3 UNX B 1 526 53 UNX UNX . 
EB 4 HOH A 1 601 67 HOH HOH . 
EB 4 HOH A 2 602 74 HOH HOH . 
EB 4 HOH A 3 603 153 HOH HOH . 
EB 4 HOH A 4 604 16 HOH HOH . 
EB 4 HOH A 5 605 45 HOH HOH . 
EB 4 HOH A 6 606 128 HOH HOH . 
EB 4 HOH A 7 607 86 HOH HOH . 
EB 4 HOH A 8 608 50 HOH HOH . 
EB 4 HOH A 9 609 9 HOH HOH . 
EB 4 HOH A 10 610 137 HOH HOH . 
EB 4 HOH A 11 611 11 HOH HOH . 
EB 4 HOH A 12 612 93 HOH HOH . 
EB 4 HOH A 13 613 120 HOH HOH . 
EB 4 HOH A 14 614 131 HOH HOH . 
EB 4 HOH A 15 615 76 HOH HOH . 
EB 4 HOH A 16 616 10 HOH HOH . 
EB 4 HOH A 17 617 61 HOH HOH . 
EB 4 HOH A 18 618 19 HOH HOH . 
EB 4 HOH A 19 619 20 HOH HOH . 
EB 4 HOH A 20 620 132 HOH HOH . 
EB 4 HOH A 21 621 88 HOH HOH . 
EB 4 HOH A 22 622 13 HOH HOH . 
EB 4 HOH A 23 623 146 HOH HOH . 
EB 4 HOH A 24 624 123 HOH HOH . 
EB 4 HOH A 25 625 28 HOH HOH . 
EB 4 HOH A 26 626 125 HOH HOH . 
EB 4 HOH A 27 627 36 HOH HOH . 
EB 4 HOH A 28 628 97 HOH HOH . 
EB 4 HOH A 29 629 27 HOH HOH . 
EB 4 HOH A 30 630 129 HOH HOH . 
EB 4 HOH A 31 631 40 HOH HOH . 
EB 4 HOH A 32 632 127 HOH HOH . 
EB 4 HOH A 33 633 54 HOH HOH . 
EB 4 HOH A 34 634 8 HOH HOH . 
EB 4 HOH A 35 635 58 HOH HOH . 
EB 4 HOH A 36 636 135 HOH HOH . 
EB 4 HOH A 37 637 78 HOH HOH . 
EB 4 HOH A 38 638 130 HOH HOH . 
EB 4 HOH A 39 639 92 HOH HOH . 
EB 4 HOH A 40 640 147 HOH HOH . 
EB 4 HOH A 41 641 69 HOH HOH . 
EB 4 HOH A 42 642 94 HOH HOH . 
EB 4 HOH A 43 643 51 HOH HOH . 
EB 4 HOH A 44 644 150 HOH HOH . 
EB 4 HOH A 45 645 63 HOH HOH . 
EB 4 HOH A 46 646 34 HOH HOH . 
EB 4 HOH A 47 647 95 HOH HOH . 
EB 4 HOH A 48 648 122 HOH HOH . 
EB 4 HOH A 49 649 136 HOH HOH . 
EB 4 HOH A 50 650 81 HOH HOH . 
EB 4 HOH A 51 651 134 HOH HOH . 
FB 4 HOH B 1 601 115 HOH HOH . 
FB 4 HOH B 2 602 90 HOH HOH . 
FB 4 HOH B 3 603 142 HOH HOH . 
FB 4 HOH B 4 604 23 HOH HOH . 
FB 4 HOH B 5 605 3 HOH HOH . 
FB 4 HOH B 6 606 48 HOH HOH . 
FB 4 HOH B 7 607 151 HOH HOH . 
FB 4 HOH B 8 608 43 HOH HOH . 
FB 4 HOH B 9 609 21 HOH HOH . 
FB 4 HOH B 10 610 87 HOH HOH . 
FB 4 HOH B 11 611 77 HOH HOH . 
FB 4 HOH B 12 612 143 HOH HOH . 
FB 4 HOH B 13 613 91 HOH HOH . 
FB 4 HOH B 14 614 108 HOH HOH . 
FB 4 HOH B 15 615 148 HOH HOH . 
FB 4 HOH B 16 616 79 HOH HOH . 
FB 4 HOH B 17 617 114 HOH HOH . 
FB 4 HOH B 18 618 98 HOH HOH . 
FB 4 HOH B 19 619 105 HOH HOH . 
FB 4 HOH B 20 620 116 HOH HOH . 
FB 4 HOH B 21 621 29 HOH HOH . 
FB 4 HOH B 22 622 110 HOH HOH . 
FB 4 HOH B 23 623 56 HOH HOH . 
FB 4 HOH B 24 624 101 HOH HOH . 
FB 4 HOH B 25 625 112 HOH HOH . 
FB 4 HOH B 26 626 100 HOH HOH . 
FB 4 HOH B 27 627 26 HOH HOH . 
FB 4 HOH B 28 628 152 HOH HOH . 
FB 4 HOH B 29 629 113 HOH HOH . 
FB 4 HOH B 30 630 62 HOH HOH . 
FB 4 HOH B 31 631 145 HOH HOH . 
FB 4 HOH B 32 632 89 HOH HOH . 
FB 4 HOH B 33 633 71 HOH HOH . 
FB 4 HOH B 34 634 119 HOH HOH . 
FB 4 HOH B 35 635 59 HOH HOH . 
FB 4 HOH B 36 636 117 HOH HOH . 
FB 4 HOH B 37 637 32 HOH HOH . 
FB 4 HOH B 38 638 5 HOH HOH . 
FB 4 HOH B 39 639 109 HOH HOH . 
FB 4 HOH B 40 640 99 HOH HOH . 
FB 4 HOH B 41 641 60 HOH HOH . 
FB 4 HOH B 42 642 52 HOH HOH . 
FB 4 HOH B 43 643 102 HOH HOH . 
FB 4 HOH B 44 644 103 HOH HOH . 
FB 4 HOH B 45 645 118 HOH HOH . 
FB 4 HOH B 46 646 141 HOH HOH . 
FB 4 HOH B 47 647 80 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 XB7 . . . EA 2 -12.084 -5.906 -3.175 1 56.9 ? C1 XB7 501 B 1 
HETATM 2 C C10 XB7 . . . EA 2 -14.934 -9.055 -13.906 1 51.47 ? C10 XB7 501 B 1 
HETATM 3 C C11 XB7 . . . EA 2 -15.694 -9.747 -12.81 1 52.04 ? C11 XB7 501 B 1 
HETATM 4 C C12 XB7 . . . EA 2 -15.659 -8.931 -11.539 1 48.36 ? C12 XB7 501 B 1 
HETATM 5 C C13 XB7 . . . EA 2 -15.778 -9.661 -16.182 1 58.51 ? C13 XB7 501 B 1 
HETATM 6 C C14 XB7 . . . EA 2 -17.266 -8.876 -17.521 1 65.05 ? C14 XB7 501 B 1 
HETATM 7 C C15 XB7 . . . EA 2 -18.241 -8.125 -18.158 1 64.48 ? C15 XB7 501 B 1 
HETATM 8 C C16 XB7 . . . EA 2 -18.729 -8.598 -19.354 1 62.42 ? C16 XB7 501 B 1 
HETATM 9 C C17 XB7 . . . EA 2 -18.26 -9.784 -19.921 1 61.62 ? C17 XB7 501 B 1 
HETATM 10 C C18 XB7 . . . EA 2 -17.29 -10.544 -19.304 1 62.15 ? C18 XB7 501 B 1 
HETATM 11 C C19 XB7 . . . EA 2 -16.811 -10.065 -18.098 1 62.36 ? C19 XB7 501 B 1 
HETATM 12 C C2 XB7 . . . EA 2 -12.416 -5.842 -5.544 1 56.77 ? C2 XB7 501 B 1 
HETATM 13 C C20 XB7 . . . EA 2 -15.091 -11.797 -17.39 1 58.36 ? C20 XB7 501 B 1 
HETATM 14 C C21 XB7 . . . EA 2 -15.695 -12.93 -16.595 1 53.96 ? C21 XB7 501 B 1 
HETATM 15 C C22 XB7 . . . EA 2 -17.064 -13.046 -16.469 1 53.74 ? C22 XB7 501 B 1 
HETATM 16 C C23 XB7 . . . EA 2 -17.633 -14.079 -15.743 1 57.94 ? C23 XB7 501 B 1 
HETATM 17 C C24 XB7 . . . EA 2 -16.796 -14.969 -15.137 1 63.42 ? C24 XB7 501 B 1 
HETATM 18 C C25 XB7 . . . EA 2 -15.437 -14.885 -15.216 1 60.5 ? C25 XB7 501 B 1 
HETATM 19 C C26 XB7 . . . EA 2 -14.89 -13.851 -15.958 1 47.58 ? C26 XB7 501 B 1 
HETATM 20 C C27 XB7 . . . EA 2 -12.423 -5.853 -7.94 1 50.72 ? C27 XB7 501 B 1 
HETATM 21 C C28 XB7 . . . EA 2 -12.294 -5.161 -6.746 1 51.15 ? C28 XB7 501 B 1 
HETATM 22 C C3 XB7 . . . EA 2 -12.656 -7.209 -5.546 1 48.66 ? C3 XB7 501 B 1 
HETATM 23 C C4 XB7 . . . EA 2 -12.786 -7.878 -6.752 1 51.25 ? C4 XB7 501 B 1 
HETATM 24 C C5 XB7 . . . EA 2 -12.679 -7.214 -7.964 1 50.14 ? C5 XB7 501 B 1 
HETATM 25 C C6 XB7 . . . EA 2 -12.805 -7.954 -9.271 1 44.91 ? C6 XB7 501 B 1 
HETATM 26 C C7 XB7 . . . EA 2 -14.225 -8.044 -9.802 1 39 ? C7 XB7 501 B 1 
HETATM 27 C C8 XB7 . . . EA 2 -13.56 -7.957 -12.133 1 44.17 ? C8 XB7 501 B 1 
HETATM 28 C C9 XB7 . . . EA 2 -13.541 -8.702 -13.458 1 42.42 ? C9 XB7 501 B 1 
HETATM 29 F F1 XB7 . . . EA 2 -17.339 -15.985 -14.415 1 60.04 ? F1 XB7 501 B 1 
HETATM 30 N N1 XB7 . . . EA 2 -14.282 -8.715 -11.107 1 47.34 ? N1 XB7 501 B 1 
HETATM 31 N N2 XB7 . . . EA 2 -14.931 -9.86 -15.123 1 51.17 ? N2 XB7 501 B 1 
HETATM 32 N N3 XB7 . . . EA 2 -16.606 -8.642 -16.314 1 65.27 ? N3 XB7 501 B 1 
HETATM 33 N N4 XB7 . . . EA 2 -15.849 -10.559 -17.23 1 59.58 ? N4 XB7 501 B 1 
HETATM 34 O O1 XB7 . . . EA 2 -12.269 -5.153 -4.369 1 58.68 ? O1 XB7 501 B 1 
#
_model_server_stats.io_time_ms              23 
_model_server_stats.parse_time_ms           23 
_model_server_stats.create_model_time_ms    41 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           34 
#