data_9NB4 # _model_server_result.job_id M9U6e-bLDpgQ3B05L2vHVw _model_server_result.datetime_utc '2025-06-28 16:14:50' _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 9nb4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 9NB4 # _exptl.entry_id 9NB4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 371.472 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(3S)-4-({(1S)-2-[(8-aminooctyl)amino]-1-cyclobutyl-2-oxoethyl}amino)-3-hydroxy-4-oxobutanoic acid' _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 9NB4 _cell.length_a 42.5 _cell.length_b 48.9 _cell.length_c 101.5 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9NB4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 22 A CYS 22 1_555 A SG CYS 63 A CYS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf2 A SG CYS 56 A CYS 56 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf3 A SG CYS 153 A CYS 153 1_555 A SG CYS 200 A CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A SG CYS 25 A CYS 25 1_555 B C2 A1AXI . A A1AXI 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.788 ? # _chem_comp.formula 'C18 H33 N3 O5' _chem_comp.formula_weight 371.472 _chem_comp.id A1AXI _chem_comp.mon_nstd_flag . _chem_comp.name '(3S)-4-({(1S)-2-[(8-aminooctyl)amino]-1-cyclobutyl-2-oxoethyl}amino)-3-hydroxy-4-oxobutanoic acid' _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 O2 C1 A1AXI doub 1 n n C1 O1 A1AXI sing 2 n n C1 C2 A1AXI sing 3 n n C2 C3 A1AXI sing 4 n n C3 O3 A1AXI sing 5 n n C3 C4 A1AXI sing 6 n n O4 C4 A1AXI doub 7 n n C4 N1 A1AXI sing 8 n n N1 C5 A1AXI sing 9 n n C5 C10 A1AXI sing 10 n n C5 C6 A1AXI sing 11 n n C8 C7 A1AXI sing 12 n n C8 C9 A1AXI sing 13 n n C7 C6 A1AXI sing 14 n n C16 C17 A1AXI sing 15 n n C16 C15 A1AXI sing 16 n n N2 C10 A1AXI sing 17 n n N2 C11 A1AXI sing 18 n n C12 C11 A1AXI sing 19 n n C12 C13 A1AXI sing 20 n n C14 C13 A1AXI sing 21 n n C14 C15 A1AXI sing 22 n n C10 O5 A1AXI doub 23 n n C6 C9 A1AXI sing 24 n n C17 C18 A1AXI sing 25 n n C18 N3 A1AXI sing 26 n n N1 H1 A1AXI sing 27 n n N3 H2 A1AXI sing 28 n n N3 H3 A1AXI sing 29 n n C5 H5 A1AXI sing 30 n n C6 H6 A1AXI sing 31 n n C7 H7 A1AXI sing 32 n n C7 H8 A1AXI sing 33 n n C8 H9 A1AXI sing 34 n n C8 H10 A1AXI sing 35 n n C13 H11 A1AXI sing 36 n n C13 H12 A1AXI sing 37 n n C15 H13 A1AXI sing 38 n n C15 H14 A1AXI sing 39 n n C17 H15 A1AXI sing 40 n n C17 H16 A1AXI sing 41 n n C11 H17 A1AXI sing 42 n n C11 H18 A1AXI sing 43 n n C12 H19 A1AXI sing 44 n n C12 H20 A1AXI sing 45 n n C14 H21 A1AXI sing 46 n n C14 H22 A1AXI sing 47 n n C16 H23 A1AXI sing 48 n n C16 H24 A1AXI sing 49 n n C18 H25 A1AXI sing 50 n n C18 H26 A1AXI sing 51 n n C2 H27 A1AXI sing 52 n n C2 H28 A1AXI sing 53 n n C3 H29 A1AXI sing 54 n n C9 H30 A1AXI sing 55 n n C9 H31 A1AXI sing 56 n n N2 H32 A1AXI sing 57 n n O1 H33 A1AXI sing 58 n n O3 H34 A1AXI sing 59 n n # _atom_sites.entry_id 9NB4 _atom_sites.fract_transf_matrix[1][1] 0.023529 _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] 0.02045 _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] 0.009852 _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 A1AXI A 1 301 301 A1AXI A65 . C 3 HOH A 1 401 34 HOH HOH . C 3 HOH A 2 402 40 HOH HOH . C 3 HOH A 3 403 72 HOH HOH . C 3 HOH A 4 404 98 HOH HOH . C 3 HOH A 5 405 15 HOH HOH . C 3 HOH A 6 406 44 HOH HOH . C 3 HOH A 7 407 14 HOH HOH . C 3 HOH A 8 408 80 HOH HOH . C 3 HOH A 9 409 32 HOH HOH . C 3 HOH A 10 410 25 HOH HOH . C 3 HOH A 11 411 48 HOH HOH . C 3 HOH A 12 412 71 HOH HOH . C 3 HOH A 13 413 27 HOH HOH . C 3 HOH A 14 414 64 HOH HOH . C 3 HOH A 15 415 79 HOH HOH . C 3 HOH A 16 416 43 HOH HOH . C 3 HOH A 17 417 5 HOH HOH . C 3 HOH A 18 418 16 HOH HOH . C 3 HOH A 19 419 9 HOH HOH . C 3 HOH A 20 420 18 HOH HOH . C 3 HOH A 21 421 88 HOH HOH . C 3 HOH A 22 422 13 HOH HOH . C 3 HOH A 23 423 50 HOH HOH . C 3 HOH A 24 424 77 HOH HOH . C 3 HOH A 25 425 6 HOH HOH . C 3 HOH A 26 426 35 HOH HOH . C 3 HOH A 27 427 21 HOH HOH . C 3 HOH A 28 428 2 HOH HOH . C 3 HOH A 29 429 4 HOH HOH . C 3 HOH A 30 430 46 HOH HOH . C 3 HOH A 31 431 30 HOH HOH . C 3 HOH A 32 432 31 HOH HOH . C 3 HOH A 33 433 1 HOH HOH . C 3 HOH A 34 434 89 HOH HOH . C 3 HOH A 35 435 61 HOH HOH . C 3 HOH A 36 436 33 HOH HOH . C 3 HOH A 37 437 45 HOH HOH . C 3 HOH A 38 438 69 HOH HOH . C 3 HOH A 39 439 37 HOH HOH . C 3 HOH A 40 440 63 HOH HOH . C 3 HOH A 41 441 57 HOH HOH . C 3 HOH A 42 442 96 HOH HOH . C 3 HOH A 43 443 74 HOH HOH . C 3 HOH A 44 444 29 HOH HOH . C 3 HOH A 45 445 7 HOH HOH . C 3 HOH A 46 446 22 HOH HOH . C 3 HOH A 47 447 67 HOH HOH . C 3 HOH A 48 448 91 HOH HOH . C 3 HOH A 49 449 3 HOH HOH . C 3 HOH A 50 450 38 HOH HOH . C 3 HOH A 51 451 28 HOH HOH . C 3 HOH A 52 452 58 HOH HOH . C 3 HOH A 53 453 85 HOH HOH . C 3 HOH A 54 454 70 HOH HOH . C 3 HOH A 55 455 55 HOH HOH . C 3 HOH A 56 456 83 HOH HOH . C 3 HOH A 57 457 36 HOH HOH . C 3 HOH A 58 458 93 HOH HOH . C 3 HOH A 59 459 60 HOH HOH . C 3 HOH A 60 460 26 HOH HOH . C 3 HOH A 61 461 78 HOH HOH . C 3 HOH A 62 462 49 HOH HOH . C 3 HOH A 63 463 62 HOH HOH . C 3 HOH A 64 464 59 HOH HOH . C 3 HOH A 65 465 12 HOH HOH . C 3 HOH A 66 466 92 HOH HOH . C 3 HOH A 67 467 17 HOH HOH . C 3 HOH A 68 468 65 HOH HOH . C 3 HOH A 69 469 41 HOH HOH . C 3 HOH A 70 470 76 HOH HOH . C 3 HOH A 71 471 56 HOH HOH . C 3 HOH A 72 472 54 HOH HOH . C 3 HOH A 73 473 8 HOH HOH . C 3 HOH A 74 474 23 HOH HOH . C 3 HOH A 75 475 66 HOH HOH . C 3 HOH A 76 476 42 HOH HOH . C 3 HOH A 77 477 84 HOH HOH . C 3 HOH A 78 478 24 HOH HOH . C 3 HOH A 79 479 51 HOH HOH . C 3 HOH A 80 480 53 HOH HOH . C 3 HOH A 81 481 90 HOH HOH . C 3 HOH A 82 482 97 HOH HOH . C 3 HOH A 83 483 87 HOH HOH . C 3 HOH A 84 484 95 HOH HOH . C 3 HOH A 85 485 39 HOH HOH . C 3 HOH A 86 486 73 HOH HOH . C 3 HOH A 87 487 86 HOH HOH . C 3 HOH A 88 488 94 HOH HOH . C 3 HOH A 89 489 81 HOH HOH . C 3 HOH A 90 490 82 HOH HOH . C 3 HOH A 91 491 68 HOH HOH . C 3 HOH A 92 492 52 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 N N1 A1AXI . . . B 2 1.001 -11.955 -19.642 0.68 34.88 ? N1 A1AXI 301 A 1 HETATM 2 N N3 A1AXI . . . B 2 -11.323 -15.342 -23.102 0.68 63.11 ? N3 A1AXI 301 A 1 HETATM 3 C C4 A1AXI . . . B 2 0.684 -11.993 -18.335 0.68 32.36 ? C4 A1AXI 301 A 1 HETATM 4 C C5 A1AXI . . . B 2 0.385 -10.909 -20.454 0.68 40.65 ? C5 A1AXI 301 A 1 HETATM 5 C C6 A1AXI . . . B 2 1.208 -10.004 -21.359 0.68 39.85 ? C6 A1AXI 301 A 1 HETATM 6 C C7 A1AXI . . . B 2 1.967 -8.871 -20.656 0.68 36.66 ? C7 A1AXI 301 A 1 HETATM 7 C C8 A1AXI . . . B 2 3.146 -9.84 -20.561 0.68 33.97 ? C8 A1AXI 301 A 1 HETATM 8 C C10 A1AXI . . . B 2 -0.797 -11.462 -21.245 0.68 39.98 ? C10 A1AXI 301 A 1 HETATM 9 C C13 A1AXI . . . B 2 -5.158 -12.482 -21.914 0.68 50.23 ? C13 A1AXI 301 A 1 HETATM 10 C C15 A1AXI . . . B 2 -7.416 -13.644 -21.759 0.68 57.65 ? C15 A1AXI 301 A 1 HETATM 11 C C17 A1AXI . . . B 2 -9.893 -14.172 -21.397 0.68 59.53 ? C17 A1AXI 301 A 1 HETATM 12 C C1 A1AXI . . . B 2 3.076 -13.961 -16.048 0.68 30.35 ? C1 A1AXI 301 A 1 HETATM 13 C C11 A1AXI . . . B 2 -3.104 -11.004 -21.988 0.68 43.52 ? C11 A1AXI 301 A 1 HETATM 14 C C12 A1AXI . . . B 2 -3.889 -12.039 -21.193 0.68 40.57 ? C12 A1AXI 301 A 1 HETATM 15 C C14 A1AXI . . . B 2 -6.052 -13.424 -21.116 0.68 51.26 ? C14 A1AXI 301 A 1 HETATM 16 C C16 A1AXI . . . B 2 -8.5 -14.08 -20.781 0.68 57 ? C16 A1AXI 301 A 1 HETATM 17 C C18 A1AXI . . . B 2 -9.992 -15.203 -22.501 0.68 67.74 ? C18 A1AXI 301 A 1 HETATM 18 C C2 A1AXI . . . B 2 2.64 -13.089 -17.194 0.68 34.06 ? C2 A1AXI 301 A 1 HETATM 19 C C3 A1AXI . . . B 2 1.154 -13.197 -17.513 0.68 29.07 ? C3 A1AXI 301 A 1 HETATM 20 C C9 A1AXI . . . B 2 2.576 -10.507 -21.82 0.68 44.71 ? C9 A1AXI 301 A 1 HETATM 21 N N2 A1AXI . . . B 2 -1.851 -10.644 -21.342 0.68 34.24 ? N2 A1AXI 301 A 1 HETATM 22 O O1 A1AXI . . . B 2 2.379 -13.945 -15.014 0.68 30.37 ? O1 A1AXI 301 A 1 HETATM 23 O O2 A1AXI . . . B 2 4.109 -14.658 -16.177 0.68 34.5 ? O2 A1AXI 301 A 1 HETATM 24 O O3 A1AXI . . . B 2 0.969 -14.407 -18.227 0.68 31.06 ? O3 A1AXI 301 A 1 HETATM 25 O O4 A1AXI . . . B 2 0.032 -11.112 -17.793 0.68 32.06 ? O4 A1AXI 301 A 1 HETATM 26 O O5 A1AXI . . . B 2 -0.734 -12.575 -21.78 0.68 35.97 ? O5 A1AXI 301 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 49 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 341 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 26 #