data_4X1Y # _model_server_result.job_id fhh5Omm-QicjvS949jikug _model_server_result.datetime_utc '2024-11-23 06:09:21' _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 4x1y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":503}' # _entry.id 4X1Y # _exptl.entry_id 4X1Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 717.936 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N,2-dimethyl-L-alanyl-N-[(3R,4S,5S)-1-{(2S)-2-[(1R,2R)-3-{[(1S)-1-carboxy-2-phenylethyl]amino}-1-methoxy-2-methyl-3-oxopropyl]pyrrolidin-1-yl}-3-methoxy-5-methyl-1-oxoheptan-4-yl]-N-methyl-L-valinamide _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 4X1Y _cell.length_a 66.61 _cell.length_b 127.86 _cell.length_c 255.04 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4X1Y _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 pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,E,F,G,H,I,J,K,L,M,N,O _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 J N N ? 8 O 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 OG1 THR 145 A THR 145 1_555 G MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.638 ? metalc ? metalc2 F O2G GTP . A GTP 600 1_555 G MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? metalc ? metalc3 F O2B GTP . A GTP 600 1_555 G MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.943 ? metalc ? metalc4 K O2G GTP . C GTP 600 1_555 L MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.504 ? metalc ? metalc5 K O2B GTP . C GTP 600 1_555 L MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.946 ? # _chem_comp.formula 'C38 H63 N5 O8' _chem_comp.formula_weight 717.936 _chem_comp.id 3WV _chem_comp.mon_nstd_flag . _chem_comp.name N,2-dimethyl-L-alanyl-N-[(3R,4S,5S)-1-{(2S)-2-[(1R,2R)-3-{[(1S)-1-carboxy-2-phenylethyl]amino}-1-methoxy-2-methyl-3-oxopropyl]pyrrolidin-1-yl}-3-methoxy-5-methyl-1-oxoheptan-4-yl]-N-methyl-L-valinamide _chem_comp.type peptide-like _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 C12 C13 3WV sing 1 n n C12 C10 3WV sing 2 n n O4 C11 3WV doub 3 n n C14 C13 3WV doub 4 n y C14 C15 3WV sing 5 n y O3 C11 3WV sing 6 n n C13 C18 3WV sing 7 n y C11 C10 3WV sing 8 n n C15 C16 3WV doub 9 n y C10 N2 3WV sing 10 n n C18 C17 3WV doub 11 n y C16 C17 3WV sing 12 n y N2 C8 3WV sing 13 n n C8 O2 3WV doub 14 n n C8 C6 3WV sing 15 n n C3 C4 3WV sing 16 n n C3 C2 3WV sing 17 n n C6 C7 3WV sing 18 n n C6 C5 3WV sing 19 n n C4 C1 3WV sing 20 n n C9 O1 3WV sing 21 n n C2 C5 3WV sing 22 n n C2 N1 3WV sing 23 n n C5 O1 3WV sing 24 n n C1 N1 3WV sing 25 n n N1 C27 3WV sing 26 n n O6 C27 3WV doub 27 n n C27 C26 3WV sing 28 n n C26 C20 3WV sing 29 n n C20 O5 3WV sing 30 n n C20 C19 3WV sing 31 n n C28 O5 3WV sing 32 n n C22 C21 3WV sing 33 n n C19 C21 3WV sing 34 n n C19 N3 3WV sing 35 n n C21 C23 3WV sing 36 n n C23 C24 3WV sing 37 n n C32 C31 3WV sing 38 n n N3 C25 3WV sing 39 n n N3 C29 3WV sing 40 n n C31 C30 3WV sing 41 n n C31 C33 3WV sing 42 n n C30 C29 3WV sing 43 n n C30 N4 3WV sing 44 n n C29 O7 3WV doub 45 n n O8 C35 3WV doub 46 n n N4 C35 3WV sing 47 n n C35 C34 3WV sing 48 n n N5 C34 3WV sing 49 n n N5 C38 3WV sing 50 n n C34 C36 3WV sing 51 n n C34 C37 3WV sing 52 n n C36 H1 3WV sing 53 n n C36 H2 3WV sing 54 n n C36 H3 3WV sing 55 n n C33 H4 3WV sing 56 n n C33 H5 3WV sing 57 n n C33 H6 3WV sing 58 n n C37 H7 3WV sing 59 n n C37 H8 3WV sing 60 n n C37 H9 3WV sing 61 n n C32 H10 3WV sing 62 n n C32 H11 3WV sing 63 n n C32 H12 3WV sing 64 n n C4 H13 3WV sing 65 n n C4 H14 3WV sing 66 n n N2 H15 3WV sing 67 n n C7 H16 3WV sing 68 n n C7 H17 3WV sing 69 n n C7 H18 3WV sing 70 n n C6 H19 3WV sing 71 n n C9 H20 3WV sing 72 n n C9 H21 3WV sing 73 n n C9 H22 3WV sing 74 n n C20 H23 3WV sing 75 n n C21 H24 3WV sing 76 n n N5 H25 3WV sing 77 n n C18 H27 3WV sing 78 n n C16 H28 3WV sing 79 n n C19 H29 3WV sing 80 n n C26 H30 3WV sing 81 n n C26 H31 3WV sing 82 n n C2 H32 3WV sing 83 n n C3 H33 3WV sing 84 n n C3 H34 3WV sing 85 n n C1 H35 3WV sing 86 n n C1 H36 3WV sing 87 n n C5 H37 3WV sing 88 n n C30 H38 3WV sing 89 n n N4 H39 3WV sing 90 n n C23 H40 3WV sing 91 n n C23 H41 3WV sing 92 n n C24 H42 3WV sing 93 n n C24 H43 3WV sing 94 n n C24 H44 3WV sing 95 n n C22 H45 3WV sing 96 n n C22 H46 3WV sing 97 n n C22 H47 3WV sing 98 n n C31 H48 3WV sing 99 n n C25 H49 3WV sing 100 n n C25 H50 3WV sing 101 n n C25 H51 3WV sing 102 n n C28 H52 3WV sing 103 n n C28 H53 3WV sing 104 n n C28 H54 3WV sing 105 n n C38 H55 3WV sing 106 n n C38 H56 3WV sing 107 n n C38 H57 3WV sing 108 n n C10 H58 3WV sing 109 n n C12 H59 3WV sing 110 n n C12 H60 3WV sing 111 n n C14 H61 3WV sing 112 n n C15 H62 3WV sing 113 n n C17 H63 3WV sing 114 n n O3 H64 3WV sing 115 n n # _atom_sites.entry_id 4X1Y _atom_sites.fract_transf_matrix[1][1] 0.015013 _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] 0.007822 _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] 0.003922 _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 GTP A 1 600 600 GTP GTP . G 5 MG A 1 601 601 MG MG . H 6 GDP B 1 501 600 GDP GDP . I 7 LOC B 1 502 601 LOC 618 . J 8 3WV B 1 503 1 3WV PFE . K 4 GTP C 1 600 600 GTP GTP . L 5 MG C 1 601 601 MG MG . M 6 GDP D 1 501 600 GDP GDP . N 7 LOC D 1 502 601 LOC 618 . O 8 3WV D 1 503 1 3WV PFE . # 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 C36 3WV . . . J 8 7.635 87.508 108.892 1 111.61 ? C36 3WV 503 B 1 HETATM 2 C C35 3WV . . . J 8 6.845 88.852 106.944 1 115.5 ? C35 3WV 503 B 1 HETATM 3 C C37 3WV . . . J 8 6.033 89.406 109.233 1 111.34 ? C37 3WV 503 B 1 HETATM 4 C C34 3WV . . . J 8 6.435 88.256 108.308 1 111.49 ? C34 3WV 503 B 1 HETATM 5 N N5 3WV . . . J 8 5.256 87.343 108.034 1 109.7 ? N5 3WV 503 B 1 HETATM 6 O O8 3WV . . . J 8 6.127 88.713 105.962 1 117.89 ? O8 3WV 503 B 1 HETATM 7 C C38 3WV . . . J 8 4.638 86.589 109.166 1 112.01 ? C38 3WV 503 B 1 HETATM 8 N N4 3WV . . . J 8 8.006 89.518 106.911 1 116.7 ? N4 3WV 503 B 1 HETATM 9 C C30 3WV . . . J 8 8.68 89.852 105.667 1 118.54 ? C30 3WV 503 B 1 HETATM 10 C C29 3WV . . . J 8 10.024 89.116 105.72 1 128 ? C29 3WV 503 B 1 HETATM 11 O O7 3WV . . . J 8 10.862 89.545 106.494 1 132.04 ? O7 3WV 503 B 1 HETATM 12 C C31 3WV . . . J 8 8.807 91.384 105.471 1 111.91 ? C31 3WV 503 B 1 HETATM 13 C C33 3WV . . . J 8 9.338 92.15 106.683 1 105.62 ? C33 3WV 503 B 1 HETATM 14 C C32 3WV . . . J 8 9.56 91.758 104.208 1 112.86 ? C32 3WV 503 B 1 HETATM 15 N N3 3WV . . . J 8 10.295 88.035 104.942 1 130.36 ? N3 3WV 503 B 1 HETATM 16 C C20 3WV . . . J 8 10.493 88.056 102.363 1 121.54 ? C20 3WV 503 B 1 HETATM 17 C C21 3WV . . . J 8 8.144 87.07 103.722 1 124.9 ? C21 3WV 503 B 1 HETATM 18 C C19 3WV . . . J 8 9.687 87.469 103.61 1 125.72 ? C19 3WV 503 B 1 HETATM 19 C C26 3WV . . . J 8 9.772 88.459 101.075 1 121.67 ? C26 3WV 503 B 1 HETATM 20 C C27 3WV . . . J 8 10.593 88.256 99.821 1 121.45 ? C27 3WV 503 B 1 HETATM 21 O O5 3WV . . . J 8 11.35 89.123 102.768 1 120.35 ? O5 3WV 503 B 1 HETATM 22 O O6 3WV . . . J 8 11.423 87.364 99.759 1 123.13 ? O6 3WV 503 B 1 HETATM 23 C C23 3WV . . . J 8 7.935 85.583 104.006 1 120.8 ? C23 3WV 503 B 1 HETATM 24 C C24 3WV . . . J 8 8.068 85.211 105.469 1 118.57 ? C24 3WV 503 B 1 HETATM 25 C C22 3WV . . . J 8 7.052 87.641 102.821 1 126.19 ? C22 3WV 503 B 1 HETATM 26 C C25 3WV . . . J 8 11.252 87.076 105.502 1 131.9 ? C25 3WV 503 B 1 HETATM 27 C C28 3WV . . . J 8 12.741 88.829 102.686 1 120.58 ? C28 3WV 503 B 1 HETATM 28 C C4 3WV . . . J 8 9.725 90.748 97.253 1 115.84 ? C4 3WV 503 B 1 HETATM 29 C C7 3WV . . . J 8 15.404 89.042 97.635 1 121.42 ? C7 3WV 503 B 1 HETATM 30 C C6 3WV . . . J 8 14.002 89.144 97.028 1 122.02 ? C6 3WV 503 B 1 HETATM 31 C C9 3WV . . . J 8 13.352 91.918 97.574 1 120.01 ? C9 3WV 503 B 1 HETATM 32 C C8 3WV . . . J 8 13.708 87.777 96.33 1 126.6 ? C8 3WV 503 B 1 HETATM 33 N N1 3WV . . . J 8 10.48 89.127 98.785 1 119.45 ? N1 3WV 503 B 1 HETATM 34 C C2 3WV . . . J 8 11.454 89.134 97.689 1 118.4 ? C2 3WV 503 B 1 HETATM 35 C C3 3WV . . . J 8 10.688 89.814 96.556 1 115.63 ? C3 3WV 503 B 1 HETATM 36 C C1 3WV . . . J 8 9.491 90.208 98.651 1 117.31 ? C1 3WV 503 B 1 HETATM 37 C C5 3WV . . . J 8 12.884 89.56 98.032 1 120.19 ? C5 3WV 503 B 1 HETATM 38 O O1 3WV . . . J 8 13.053 90.889 98.534 1 119.79 ? O1 3WV 503 B 1 HETATM 39 O O2 3WV . . . J 8 13.767 86.68 96.89 1 126.59 ? O2 3WV 503 B 1 HETATM 40 N N2 3WV . . . J 8 13.387 87.935 95.04 1 129.68 ? N2 3WV 503 B 1 HETATM 41 C C10 3WV . . . J 8 13.374 86.847 94.075 1 129.96 ? C10 3WV 503 B 1 HETATM 42 C C11 3WV . . . J 8 14.76 86.634 93.482 1 135.18 ? C11 3WV 503 B 1 HETATM 43 O O4 3WV . . . J 8 15.411 87.758 93.295 1 137.11 ? O4 3WV 503 B 1 HETATM 44 C C12 3WV . . . J 8 12.344 87.116 92.964 1 123.61 ? C12 3WV 503 B 1 HETATM 45 C C13 3WV . . . J 8 10.929 87.272 93.465 1 119.01 ? C13 3WV 503 B 1 HETATM 46 C C18 3WV . . . J 8 10.283 86.227 94.119 1 118.16 ? C18 3WV 503 B 1 HETATM 47 C C14 3WV . . . J 8 10.222 88.444 93.234 1 117.36 ? C14 3WV 503 B 1 HETATM 48 C C17 3WV . . . J 8 8.958 86.347 94.518 1 117.54 ? C17 3WV 503 B 1 HETATM 49 C C15 3WV . . . J 8 8.895 88.561 93.627 1 117.69 ? C15 3WV 503 B 1 HETATM 50 C C16 3WV . . . J 8 8.263 87.51 94.269 1 118.01 ? C16 3WV 503 B 1 HETATM 51 O O3 3WV . . . J 8 15.21 85.525 93.219 1 136.73 ? O3 3WV 503 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 46 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 51 #