data_7LLF
#
_model_server_result.job_id            gKbi4a7XF-SJo6XPCfl_qw 
_model_server_result.datetime_utc      '2024-11-08 16:59:33' 
_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          7llf 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"N","auth_seq_id":404}' 
#
_entry.id    7LLF 
#
_exptl.entry_id    7LLF 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              504.687 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            5-[(azetidin-3-yl)amino]-N-[(1R)-1-{3-[5-({[(1R,3S)-3-hydroxycyclopentyl]amino}methyl)thiophen-2-yl]phenyl}ethyl]-2-methylbenzamide 
_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          99.72 
_cell.angle_gamma         90 
_cell.entry_id            7LLF 
_cell.length_a            46.713 
_cell.length_b            147.365 
_cell.length_c            60.277 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7LLF 
_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,P 1 1 
B,K,L,M,N,O,Q 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
? 5 I N N 
? 5 N 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 A SG CYS 190 A CYS 189 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? 
metalc ? metalc2 A SG CYS 193 A CYS 192 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? 
metalc ? metalc3 A SG CYS 225 A CYS 224 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.274 ? 
metalc ? metalc4 A SG CYS 227 A CYS 226 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? 
metalc ? metalc5 B SG CYS 190 B CYS 189 1_555 K ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? 
metalc ? metalc6 B SG CYS 193 B CYS 192 1_555 K ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? 
metalc ? metalc7 B SG CYS 225 B CYS 224 1_555 K ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? 
metalc ? metalc8 B SG CYS 227 B CYS 226 1_555 K ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? 
#
_chem_comp.formula           'C29 H36 N4 O2 S' 
_chem_comp.formula_weight    504.687 
_chem_comp.id                Y54 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              5-[(azetidin-3-yl)amino]-N-[(1R)-1-{3-[5-({[(1R,3S)-3-hydroxycyclopentyl]amino}methyl)thiophen-2-yl]phenyl}ethyl]-2-methylbenzamide 
_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
C01 C02 Y54 sing 399 n n 
C02 N03 Y54 sing 400 n n 
C02 C18 Y54 sing 401 n n 
N03 C04 Y54 sing 402 n n 
C19 C18 Y54 doub 403 n y 
C19 C20 Y54 sing 404 n y 
C18 C36 Y54 sing 405 n y 
C32 O33 Y54 sing 406 n n 
C32 C31 Y54 sing 407 n n 
C32 C34 Y54 sing 408 n n 
C07 C06 Y54 sing 409 n n 
C31 C30 Y54 sing 410 n n 
C04 C05 Y54 sing 411 n n 
C04 O17 Y54 doub 412 n n 
C20 C21 Y54 doub 413 n y 
C36 C22 Y54 doub 414 n y 
N14 C15 Y54 sing 415 n n 
N14 C13 Y54 sing 416 n n 
C06 C05 Y54 doub 417 n y 
C06 C08 Y54 sing 418 n y 
C05 C16 Y54 sing 419 n y 
C30 C29 Y54 sing 420 n n 
C08 C09 Y54 doub 421 n y 
C15 C12 Y54 sing 422 n n 
C16 C10 Y54 doub 423 n y 
C21 C22 Y54 sing 424 n y 
C34 C29 Y54 sing 425 n n 
C22 C23 Y54 sing 426 n n 
C09 C10 Y54 sing 427 n y 
C10 N11 Y54 sing 428 n n 
C29 N28 Y54 sing 429 n n 
C13 C12 Y54 sing 430 n n 
N11 C12 Y54 sing 431 n n 
C23 S35 Y54 sing 432 n y 
C23 C24 Y54 doub 433 n y 
S35 C26 Y54 sing 434 n y 
C24 C25 Y54 sing 435 n y 
N28 C27 Y54 sing 436 n n 
C26 C27 Y54 sing 437 n n 
C26 C25 Y54 doub 438 n y 
C01 H1 Y54 sing 439 n n 
C01 H2 Y54 sing 440 n n 
C01 H3 Y54 sing 441 n n 
C02 H4 Y54 sing 442 n n 
N03 H5 Y54 sing 443 n n 
C07 H6 Y54 sing 444 n n 
C07 H7 Y54 sing 445 n n 
C07 H8 Y54 sing 446 n n 
C08 H9 Y54 sing 447 n n 
C09 H10 Y54 sing 448 n n 
N11 H11 Y54 sing 449 n n 
C12 H12 Y54 sing 450 n n 
C13 H13 Y54 sing 451 n n 
C13 H14 Y54 sing 452 n n 
N14 H15 Y54 sing 453 n n 
C15 H17 Y54 sing 454 n n 
C15 H18 Y54 sing 455 n n 
C16 H19 Y54 sing 456 n n 
C19 H20 Y54 sing 457 n n 
C20 H21 Y54 sing 458 n n 
C21 H22 Y54 sing 459 n n 
C24 H23 Y54 sing 460 n n 
C25 H24 Y54 sing 461 n n 
C27 H25 Y54 sing 462 n n 
C27 H26 Y54 sing 463 n n 
C29 H27 Y54 sing 464 n n 
C30 H28 Y54 sing 465 n n 
C30 H29 Y54 sing 466 n n 
C32 H30 Y54 sing 467 n n 
C34 H31 Y54 sing 468 n n 
C34 H32 Y54 sing 469 n n 
N28 H33 Y54 sing 470 n n 
C31 H35 Y54 sing 471 n n 
C31 H36 Y54 sing 472 n n 
O33 H37 Y54 sing 473 n n 
C36 H38 Y54 sing 474 n n 
#
_atom_sites.entry_id                     7LLF 
_atom_sites.fract_transf_matrix[1][1]    0.021407 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003665 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006786 
_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]    0.016831 
_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 ZN A 1 401 402 ZN ZN . 
D 3 SO4 A 1 402 501 SO4 SO4 . 
E 4 BO3 A 1 403 601 BO3 BO3 . 
F 4 BO3 A 1 404 701 BO3 BO3 . 
G 3 SO4 A 1 405 1301 SO4 SO4 . 
H 3 SO4 A 1 406 1401 SO4 SO4 . 
I 5 Y54 A 1 407 1501 Y54 XR8 . 
J 3 SO4 A 1 408 1601 SO4 SO4 . 
K 2 ZN B 1 401 402 ZN ZN . 
L 3 SO4 B 1 402 404 SO4 SO4 . 
M 3 SO4 B 1 403 901 SO4 SO4 . 
N 5 Y54 B 1 404 1001 Y54 XR8 . 
O 6 GOL B 1 405 1101 GOL GOL . 
P 7 HOH A 1 501 16 HOH HOH . 
P 7 HOH A 2 502 1 HOH HOH . 
P 7 HOH A 3 503 12 HOH HOH . 
P 7 HOH A 4 504 25 HOH HOH . 
P 7 HOH A 5 505 9 HOH HOH . 
P 7 HOH A 6 506 3 HOH HOH . 
P 7 HOH A 7 507 29 HOH HOH . 
P 7 HOH A 8 508 22 HOH HOH . 
P 7 HOH A 9 509 24 HOH HOH . 
P 7 HOH A 10 510 2 HOH HOH . 
P 7 HOH A 11 511 18 HOH HOH . 
P 7 HOH A 12 512 27 HOH HOH . 
P 7 HOH A 13 513 17 HOH HOH . 
P 7 HOH A 14 514 28 HOH HOH . 
P 7 HOH A 15 515 10 HOH HOH . 
P 7 HOH A 16 516 4 HOH HOH . 
P 7 HOH A 17 517 7 HOH HOH . 
P 7 HOH A 18 518 20 HOH HOH . 
P 7 HOH A 19 519 5 HOH HOH . 
P 7 HOH A 20 520 6 HOH HOH . 
P 7 HOH A 21 521 19 HOH HOH . 
Q 7 HOH B 1 501 33 HOH HOH . 
Q 7 HOH B 2 502 32 HOH HOH . 
Q 7 HOH B 3 503 13 HOH HOH . 
Q 7 HOH B 4 504 15 HOH HOH . 
Q 7 HOH B 5 505 14 HOH HOH . 
Q 7 HOH B 6 506 30 HOH HOH . 
Q 7 HOH B 7 507 8 HOH HOH . 
Q 7 HOH B 8 508 11 HOH HOH . 
Q 7 HOH B 9 509 23 HOH HOH . 
Q 7 HOH B 10 510 21 HOH HOH . 
Q 7 HOH B 11 511 26 HOH HOH . 
Q 7 HOH B 12 512 31 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 C01 Y54 . . . N 5 6.95 -68.753 -0.113 1 46.82 ? C01 Y54 404 B 1 
HETATM 2 C C02 Y54 . . . N 5 7.144 -68.649 -1.619 1 48.14 ? C02 Y54 404 B 1 
HETATM 3 N N03 Y54 . . . N 5 7.541 -67.279 -1.872 1 46.68 ? N03 Y54 404 B 1 
HETATM 4 C C04 Y54 . . . N 5 7.777 -66.663 -3.075 1 44.35 ? C04 Y54 404 B 1 
HETATM 5 C C05 Y54 . . . N 5 8.174 -65.253 -3.338 1 45.77 ? C05 Y54 404 B 1 
HETATM 6 C C06 Y54 . . . N 5 7.216 -64.295 -3.537 1 46.15 ? C06 Y54 404 B 1 
HETATM 7 C C07 Y54 . . . N 5 5.757 -64.549 -3.513 1 47.01 ? C07 Y54 404 B 1 
HETATM 8 C C08 Y54 . . . N 5 7.618 -63.022 -3.77 1 50.93 ? C08 Y54 404 B 1 
HETATM 9 C C09 Y54 . . . N 5 8.922 -62.632 -3.82 1 51.56 ? C09 Y54 404 B 1 
HETATM 10 C C10 Y54 . . . N 5 9.938 -63.516 -3.629 1 51.81 ? C10 Y54 404 B 1 
HETATM 11 N N11 Y54 . . . N 5 11.293 -63.056 -3.711 1 56.48 ? N11 Y54 404 B 1 
HETATM 12 C C12 Y54 . . . N 5 12.542 -63.51 -3.204 1 61.66 ? C12 Y54 404 B 1 
HETATM 13 C C13 Y54 . . . N 5 12.664 -64.093 -1.766 1 64.08 ? C13 Y54 404 B 1 
HETATM 14 N N14 Y54 . . . N 5 13.681 -63.083 -1.394 1 64.64 ? N14 Y54 404 B 1 
HETATM 15 C C15 Y54 . . . N 5 13.483 -62.366 -2.671 1 62 ? C15 Y54 404 B 1 
HETATM 16 C C16 Y54 . . . N 5 9.531 -64.854 -3.383 1 48.54 ? C16 Y54 404 B 1 
HETATM 17 O O17 Y54 . . . N 5 7.552 -67.377 -4.06 1 40.26 ? O17 Y54 404 B 1 
HETATM 18 C C18 Y54 . . . N 5 8.162 -69.69 -2.085 1 47.22 ? C18 Y54 404 B 1 
HETATM 19 C C19 Y54 . . . N 5 9.417 -69.684 -1.551 1 47.88 ? C19 Y54 404 B 1 
HETATM 20 C C20 Y54 . . . N 5 10.346 -70.594 -1.97 1 49.84 ? C20 Y54 404 B 1 
HETATM 21 C C21 Y54 . . . N 5 10.062 -71.529 -2.937 1 48.88 ? C21 Y54 404 B 1 
HETATM 22 C C22 Y54 . . . N 5 8.826 -71.585 -3.548 1 50.55 ? C22 Y54 404 B 1 
HETATM 23 C C23 Y54 . . . N 5 8.534 -72.584 -4.569 1 58.72 ? C23 Y54 404 B 1 
HETATM 24 C C24 Y54 . . . N 5 9.24 -73.402 -5.367 1 63.6 ? C24 Y54 404 B 1 
HETATM 25 C C25 Y54 . . . N 5 8.485 -74.256 -6.258 1 71.62 ? C25 Y54 404 B 1 
HETATM 26 C C27 Y54 . . . N 5 5.984 -74.772 -6.866 1 86.54 ? C27 Y54 404 B 1 
HETATM 27 C C29 Y54 . . . N 5 5.215 -76.096 -4.781 1 106.64 ? C29 Y54 404 B 1 
HETATM 28 C C30 Y54 . . . N 5 6.112 -77.257 -5.252 1 107.34 ? C30 Y54 404 B 1 
HETATM 29 C C32 Y54 . . . N 5 4.328 -78.312 -3.904 1 107.63 ? C32 Y54 404 B 1 
HETATM 30 C C34 Y54 . . . N 5 4.003 -76.824 -4.085 1 107.85 ? C34 Y54 404 B 1 
HETATM 31 C C26 Y54 . . . N 5 7.152 -74.12 -6.18 1 77.05 ? C26 Y54 404 B 1 
HETATM 32 N N28 Y54 . . . N 5 4.872 -75.225 -5.97 1 98.35 ? N28 Y54 404 B 1 
HETATM 33 C C31 Y54 . . . N 5 5.338 -78.558 -5.025 1 105.87 ? C31 Y54 404 B 1 
HETATM 34 O O33 Y54 . . . N 5 3.168 -79.063 -4.091 1 103.63 ? O33 Y54 404 B 1 
HETATM 35 S S35 Y54 . . . N 5 6.885 -72.911 -4.985 1 66.39 ? S35 Y54 404 B 1 
HETATM 36 C C36 Y54 . . . N 5 7.934 -70.643 -3.066 1 46.28 ? C36 Y54 404 B 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           229 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           36 
#