data_8SZF # _model_server_result.job_id J0e6WVzv_dFd_puHN_KupQ _model_server_result.datetime_utc '2024-11-07 20:59:36' _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 8szf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"S","auth_seq_id":1006}' # _entry.id 8SZF # _exptl.entry_id 8SZF _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 357.412 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-[(1R)-1-(naphthalen-1-yl)ethyl]-3-[3-(trifluoromethyl)phenyl]propan-1-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 90 _cell.angle_gamma 90 _cell.entry_id 8SZF _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SZF _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 8 M N N ? 8 S N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 C 1 NAG A 904 NAG 3 n C NAG 2 C 2 NAG A 905 NAG 3 n D NAG 1 D 1 NAG A 906 NAG 3 n D NAG 2 D 2 NAG A 907 NAG 3 n E NAG 1 E 1 NAG B 905 NAG 3 n E NAG 2 E 2 NAG B 906 NAG # 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 52 A CYS 60 1_555 A SG CYS 93 A CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 228 A CYS 236 1_555 A SG CYS 553 A CYS 561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 350 A CYS 358 1_555 A SG CYS 387 A CYS 395 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf4 A SG CYS 429 A CYS 437 1_555 A SG CYS 441 A CYS 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 A SG CYS 534 A CYS 542 1_555 A SG CYS 554 A CYS 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 A SG CYS 538 A CYS 546 1_555 A SG CYS 557 A CYS 565 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf7 A SG CYS 560 A CYS 568 1_555 A SG CYS 574 A CYS 582 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 A SG CYS 577 A CYS 585 1_555 A SG CYS 590 A CYS 598 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf9 A SG CYS 669 A CYS 677 1_555 A SG CYS 757 A CYS 765 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf10 B SG CYS 74 B CYS 60 1_555 B SG CYS 115 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf11 B SG CYS 250 B CYS 236 1_555 B SG CYS 575 B CYS 561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf12 B SG CYS 372 B CYS 358 1_555 B SG CYS 409 B CYS 395 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf13 B SG CYS 451 B CYS 437 1_555 B SG CYS 463 B CYS 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf14 B SG CYS 556 B CYS 542 1_555 B SG CYS 576 B CYS 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf15 B SG CYS 560 B CYS 546 1_555 B SG CYS 579 B CYS 565 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf16 B SG CYS 582 B CYS 568 1_555 B SG CYS 596 B CYS 582 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf17 B SG CYS 599 B CYS 585 1_555 B SG CYS 612 B CYS 598 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf18 B SG CYS 691 B CYS 677 1_555 B SG CYS 779 B CYS 765 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 253 A ASN 261 1_555 F C1 NAG . A NAG 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale2 A ND2 ASN 460 A ASN 468 1_555 G C1 NAG . A NAG 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 A ND2 ASN 480 A ASN 488 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale4 A ND2 ASN 533 A ASN 541 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale5 B ND2 ASN 275 B ASN 261 1_555 T C1 NAG . B NAG 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale6 B ND2 ASN 482 B ASN 468 1_555 O C1 NAG . B NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 B ND2 ASN 502 B ASN 488 1_555 N C1 NAG . B NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale8 B ND2 ASN 555 B ASN 541 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale9 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale10 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale11 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? metalc ? metalc1 A O SER 76 A SER 84 1_555 I CA CA . A CA 1204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.918 ? metalc ? metalc2 A O LEU 79 A LEU 87 1_555 I CA CA . A CA 1204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.438 ? metalc ? metalc3 A O LEU 80 A LEU 88 1_555 I CA CA . A CA 1204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.741 ? metalc ? metalc4 A OD1 ASP 226 A ASP 234 1_555 K CA CA . A CA 1206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? metalc ? metalc5 A O GLY 549 A GLY 557 1_555 J CA CA . A CA 1205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? metalc ? metalc6 K CA CA . A CA 1206 1_555 B O GLY 571 B GLY 557 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.078 ? metalc ? metalc7 B O SER 98 B SER 84 1_555 Q CA CA . B CA 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? metalc ? metalc8 B O LEU 102 B LEU 88 1_555 Q CA CA . B CA 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.992 ? # _chem_comp.formula 'C22 H22 F3 N' _chem_comp.formula_weight 357.412 _chem_comp.id YP4 _chem_comp.mon_nstd_flag . _chem_comp.name N-[(1R)-1-(naphthalen-1-yl)ethyl]-3-[3-(trifluoromethyl)phenyl]propan-1-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 C3 N YP4 sing 447 n n C3 C4 YP4 sing 448 n n N CA YP4 sing 449 n n C5 C4 YP4 sing 450 n n C5 C6 YP4 sing 451 n n C11 C6 YP4 doub 452 n y C11 C10 YP4 sing 453 n y C1 CA YP4 sing 454 n n CA CB YP4 sing 455 n n C6 C7 YP4 sing 456 n y C10 C9 YP4 doub 457 n y C14 CB YP4 doub 458 n y C14 C15 YP4 sing 459 n y CB CG YP4 sing 460 n y C7 C8 YP4 doub 461 n y C15 C16 YP4 doub 462 n y C9 C8 YP4 sing 463 n y C8 C12 YP4 sing 464 n n CG CD2 YP4 doub 465 n y CG CD1 YP4 sing 466 n y CD2 CE2 YP4 sing 467 n y C16 CD1 YP4 sing 468 n y CD1 CE1 YP4 doub 469 n y F2 C12 YP4 sing 470 n n C12 F3 YP4 sing 471 n n C12 F1 YP4 sing 472 n n CE2 CZ YP4 doub 473 n y CE1 CZ YP4 sing 474 n y C1 H1 YP4 sing 475 n n C1 H2 YP4 sing 476 n n C1 H3 YP4 sing 477 n n C3 H4 YP4 sing 478 n n C3 H5 YP4 sing 479 n n C4 H6 YP4 sing 480 n n C4 H7 YP4 sing 481 n n C5 H8 YP4 sing 482 n n C5 H9 YP4 sing 483 n n N H10 YP4 sing 484 n n CA H12 YP4 sing 485 n n CD2 H13 YP4 sing 486 n n CE1 H14 YP4 sing 487 n n CE2 H15 YP4 sing 488 n n CZ H16 YP4 sing 489 n n C7 H17 YP4 sing 490 n n C9 H18 YP4 sing 491 n n C10 H19 YP4 sing 492 n n C11 H20 YP4 sing 493 n n C14 H21 YP4 sing 494 n n C15 H22 YP4 sing 495 n n C16 H23 YP4 sing 496 n n # _atom_sites.entry_id 8SZF _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 F 4 NAG A 1 1201 901 NAG NAG . G 4 NAG A 1 1202 903 NAG NAG . H 5 TRP A 1 1203 910 TRP TRP . I 6 CA A 1 1204 911 CA CA . J 6 CA A 1 1205 912 CA CA . K 6 CA A 1 1206 913 CA CA . L 7 PO4 A 1 1207 914 PO4 PO4 . M 8 YP4 A 1 1208 1001 YP4 YP4 . N 4 NAG B 1 1001 903 NAG NAG . O 4 NAG B 1 1002 904 NAG NAG . P 5 TRP B 1 1003 910 TRP TRP . Q 6 CA B 1 1004 911 CA CA . R 7 PO4 B 1 1005 912 PO4 PO4 . S 8 YP4 B 1 1006 1002 YP4 YP4 . T 4 NAG B 1 1007 1003 NAG NAG . U 9 SPM B 1 1008 1101 SPM SPM . # 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 YP4 . . . S 8 214.101 223.074 242.057 1 51.71 ? C1 YP4 1006 B 1 HETATM 2 C C3 YP4 . . . S 8 216.029 220.544 240.404 1 54.25 ? C3 YP4 1006 B 1 HETATM 3 C C4 YP4 . . . S 8 216.801 220.418 239.077 1 53.81 ? C4 YP4 1006 B 1 HETATM 4 C C5 YP4 . . . S 8 217.074 218.946 238.706 1 54.75 ? C5 YP4 1006 B 1 HETATM 5 C C6 YP4 . . . S 8 218.163 218.793 237.619 1 57.53 ? C6 YP4 1006 B 1 HETATM 6 N N YP4 . . . S 8 215.808 221.948 240.717 1 56.79 ? N YP4 1006 B 1 HETATM 7 C CA YP4 . . . S 8 215.273 222.099 242.08 1 53.69 ? CA YP4 1006 B 1 HETATM 8 C CB YP4 . . . S 8 216.435 222.649 242.925 1 50.96 ? CB YP4 1006 B 1 HETATM 9 C CG YP4 . . . S 8 216.92 221.929 244.05 1 51.88 ? CG YP4 1006 B 1 HETATM 10 C CD1 YP4 . . . S 8 217.949 222.427 244.781 1 54.7 ? CD1 YP4 1006 B 1 HETATM 11 C CD2 YP4 . . . S 8 216.335 220.694 244.417 1 52.16 ? CD2 YP4 1006 B 1 HETATM 12 C CE1 YP4 . . . S 8 218.434 221.702 245.914 1 55.56 ? CE1 YP4 1006 B 1 HETATM 13 C CE2 YP4 . . . S 8 216.807 219.993 245.525 1 52.74 ? CE2 YP4 1006 B 1 HETATM 14 C CZ YP4 . . . S 8 217.859 220.498 246.275 1 54.43 ? CZ YP4 1006 B 1 HETATM 15 C C7 YP4 . . . S 8 219.46 218.424 237.974 1 57.23 ? C7 YP4 1006 B 1 HETATM 16 C C8 YP4 . . . S 8 220.441 218.287 236.997 1 59.01 ? C8 YP4 1006 B 1 HETATM 17 C C9 YP4 . . . S 8 220.132 218.517 235.664 1 56.05 ? C9 YP4 1006 B 1 HETATM 18 C C10 YP4 . . . S 8 218.837 218.884 235.312 1 56.18 ? C10 YP4 1006 B 1 HETATM 19 C C11 YP4 . . . S 8 217.854 219.022 236.286 1 56.32 ? C11 YP4 1006 B 1 HETATM 20 C C12 YP4 . . . S 8 221.859 217.886 237.385 1 60.85 ? C12 YP4 1006 B 1 HETATM 21 C C14 YP4 . . . S 8 217.019 223.855 242.568 1 52.88 ? C14 YP4 1006 B 1 HETATM 22 C C15 YP4 . . . S 8 218.08 224.36 243.315 1 53.66 ? C15 YP4 1006 B 1 HETATM 23 C C16 YP4 . . . S 8 218.551 223.666 244.417 1 54.3 ? C16 YP4 1006 B 1 HETATM 24 F F1 YP4 . . . S 8 222.413 217.156 236.375 1 61.1 ? F1 YP4 1006 B 1 HETATM 25 F F2 YP4 . . . S 8 221.838 217.146 238.526 1 59.71 ? F2 YP4 1006 B 1 HETATM 26 F F3 YP4 . . . S 8 222.606 219.007 237.596 1 58.32 ? F3 YP4 1006 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 83 _model_server_stats.query_time_ms 505 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 26 #