data_8PTA
#
_model_server_result.job_id            4QdWR74eHYz6-GD3LYILmg 
_model_server_result.datetime_utc      '2024-10-11 02:22:36' 
_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          8pta 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":401}' 
#
_entry.id    8PTA 
#
_exptl.entry_id    8PTA 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              592.644 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'methyl (1R,3S)-1-methyl-3-[[3-[[3-methyl-4-[(4-pyridin-3-ylpyrimidin-2-yl)amino]phenyl]carbamoyl]phenyl]carbamoyl]-4-oxidanylidene-cyclohexane-1-carboxylate' 
_entity.pdbx_number_of_molecules    3 
_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         120 
_cell.entry_id            8PTA 
_cell.length_a            106.256 
_cell.length_b            106.256 
_cell.length_c            99.719 
_cell.Z_PDB               9 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8PTA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        144 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,D,E,H 1 1 
B,F,I 2 1 
C,G,J 3 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 D N N 
? 2 F N N 
? 2 G 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
covale ? covale1 A SG CYS 118 A CYS 116 1_555 D C3 CIF . A CIF 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.73 ? 
covale ? covale2 B SG CYS 118 B CYS 116 1_555 F C3 CIF . B CIF 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.711 ? 
covale ? covale3 C SG CYS 118 C CYS 116 1_555 G C3 CIF . C CIF 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.72 ? 
#
_chem_comp.formula           'C33 H32 N6 O5' 
_chem_comp.formula_weight    592.644 
_chem_comp.id                CIF 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'methyl (1R,3S)-1-methyl-3-[[3-[[3-methyl-4-[(4-pyridin-3-ylpyrimidin-2-yl)amino]phenyl]carbamoyl]phenyl]carbamoyl]-4-oxidanylidene-cyclohexane-1-carboxylate' 
_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
C15 O CIF sing 70 n n 
O C14 CIF sing 71 n n 
C5 C4 CIF sing 72 n n 
C5 C6 CIF sing 73 n n 
C14 O1 CIF doub 74 n n 
C14 C4 CIF sing 75 n n 
C7 C4 CIF sing 76 n n 
C4 C3 CIF sing 77 n n 
C6 C1 CIF sing 78 n n 
C1 O4 CIF doub 79 n n 
C1 C2 CIF sing 80 n n 
C3 C2 CIF sing 81 n n 
O2 C16 CIF doub 82 n n 
C2 C16 CIF sing 83 n n 
C16 N2 CIF sing 84 n n 
N2 C17 CIF sing 85 n n 
C43 C42 CIF doub 86 n y 
C43 N44 CIF sing 87 n y 
C17 C18 CIF doub 88 n y 
C17 C22 CIF sing 89 n y 
C18 C19 CIF sing 90 n y 
C42 C41 CIF sing 91 n y 
N44 C45 CIF doub 92 n y 
C22 C21 CIF doub 93 n y 
C19 C20 CIF doub 94 n y 
C45 C40 CIF sing 95 n y 
C41 C40 CIF doub 96 n y 
C21 C20 CIF sing 97 n y 
C21 C23 CIF sing 98 n n 
C40 C37 CIF sing 99 n n 
C23 N25 CIF sing 100 n n 
C23 O24 CIF doub 101 n n 
N25 C26 CIF sing 102 n n 
C27 C26 CIF doub 103 n y 
C27 C28 CIF sing 104 n y 
C39 C28 CIF sing 105 n n 
C37 N38 CIF doub 106 n y 
C37 C36 CIF sing 107 n y 
C26 C31 CIF sing 108 n y 
C28 C29 CIF doub 109 n y 
N38 C33 CIF sing 110 n y 
C36 C35 CIF doub 111 n y 
C31 C30 CIF doub 112 n y 
C29 C30 CIF sing 113 n y 
C29 N32 CIF sing 114 n n 
C33 N32 CIF sing 115 n n 
C33 N34 CIF doub 116 n y 
C35 N34 CIF sing 117 n y 
C7 H1 CIF sing 118 n n 
C7 H2 CIF sing 119 n n 
C7 H3 CIF sing 120 n n 
C15 H4 CIF sing 121 n n 
C15 H5 CIF sing 122 n n 
C15 H6 CIF sing 123 n n 
C18 H7 CIF sing 124 n n 
C19 H8 CIF sing 125 n n 
C20 H9 CIF sing 126 n n 
C22 H10 CIF sing 127 n n 
C27 H11 CIF sing 128 n n 
C2 H12 CIF sing 129 n n 
C30 H13 CIF sing 130 n n 
C31 H14 CIF sing 131 n n 
C35 H15 CIF sing 132 n n 
C36 H16 CIF sing 133 n n 
C39 H17 CIF sing 134 n n 
C39 H18 CIF sing 135 n n 
C39 H19 CIF sing 136 n n 
C41 H20 CIF sing 137 n n 
C42 H21 CIF sing 138 n n 
C43 H22 CIF sing 139 n n 
C45 H23 CIF sing 140 n n 
C6 H24 CIF sing 141 n n 
C6 H25 CIF sing 142 n n 
C5 H26 CIF sing 143 n n 
C5 H27 CIF sing 144 n n 
C3 H28 CIF sing 145 n n 
C3 H29 CIF sing 146 n n 
N2 H30 CIF sing 147 n n 
N25 H31 CIF sing 148 n n 
N32 H32 CIF sing 149 n n 
#
_atom_sites.entry_id                     8PTA 
_atom_sites.fract_transf_matrix[1][1]    0.009411 
_atom_sites.fract_transf_matrix[1][2]    0.005434 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010867 
_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]    0.010028 
_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
D 2 CIF A 1 401 401 CIF 37B . 
E 3 GOL A 1 402 402 GOL GOL . 
F 2 CIF B 1 401 401 CIF 37B . 
G 2 CIF C 1 401 401 CIF 37B . 
H 4 HOH A 1 501 27 HOH HOH . 
H 4 HOH A 2 502 3 HOH HOH . 
H 4 HOH A 3 503 22 HOH HOH . 
H 4 HOH A 4 504 18 HOH HOH . 
H 4 HOH A 5 505 23 HOH HOH . 
H 4 HOH A 6 506 24 HOH HOH . 
H 4 HOH A 7 507 14 HOH HOH . 
H 4 HOH A 8 508 10 HOH HOH . 
I 4 HOH B 1 501 20 HOH HOH . 
I 4 HOH B 2 502 15 HOH HOH . 
I 4 HOH B 3 503 5 HOH HOH . 
I 4 HOH B 4 504 13 HOH HOH . 
I 4 HOH B 5 505 1 HOH HOH . 
I 4 HOH B 6 506 11 HOH HOH . 
I 4 HOH B 7 507 9 HOH HOH . 
I 4 HOH B 8 508 4 HOH HOH . 
I 4 HOH B 9 509 21 HOH HOH . 
I 4 HOH B 10 510 19 HOH HOH . 
I 4 HOH B 11 511 8 HOH HOH . 
I 4 HOH B 12 512 16 HOH HOH . 
J 4 HOH C 1 501 6 HOH HOH . 
J 4 HOH C 2 502 12 HOH HOH . 
J 4 HOH C 3 503 2 HOH HOH . 
J 4 HOH C 4 504 25 HOH HOH . 
J 4 HOH C 5 505 26 HOH HOH . 
J 4 HOH C 6 506 17 HOH HOH . 
J 4 HOH C 7 507 7 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 C16 CIF . . . D 2 -3.365 -64.751 2.517 1 81.31 ? C16 CIF 401 A 1 
HETATM 2 C C7 CIF . . . D 2 -2.342 -62.842 -0.369 1 91.18 ? C7 CIF 401 A 1 
HETATM 3 C C14 CIF . . . D 2 -4.144 -61.29 -0.698 1 92.39 ? C14 CIF 401 A 1 
HETATM 4 C C15 CIF . . . D 2 -5.692 -59.927 -2.078 1 96.63 ? C15 CIF 401 A 1 
HETATM 5 C C17 CIF . . . D 2 -2.247 -65.341 4.41 1 75.02 ? C17 CIF 401 A 1 
HETATM 6 C C18 CIF . . . D 2 -2.914 -66.508 4.525 1 75.04 ? C18 CIF 401 A 1 
HETATM 7 C C19 CIF . . . D 2 -2.529 -67.429 5.46 1 75.32 ? C19 CIF 401 A 1 
HETATM 8 C C20 CIF . . . D 2 -1.489 -67.189 6.308 1 76.31 ? C20 CIF 401 A 1 
HETATM 9 C C21 CIF . . . D 2 -0.829 -66.01 6.211 1 77.86 ? C21 CIF 401 A 1 
HETATM 10 C C22 CIF . . . D 2 -1.206 -65.124 5.247 1 76.01 ? C22 CIF 401 A 1 
HETATM 11 C C23 CIF . . . D 2 0.308 -65.712 7.122 1 79.87 ? C23 CIF 401 A 1 
HETATM 12 C C26 CIF . . . D 2 1.579 -64.116 8.215 1 70.93 ? C26 CIF 401 A 1 
HETATM 13 C C27 CIF . . . D 2 2.23 -62.993 7.847 1 70.23 ? C27 CIF 401 A 1 
HETATM 14 C C28 CIF . . . D 2 3.299 -62.517 8.53 1 68.17 ? C28 CIF 401 A 1 
HETATM 15 C C29 CIF . . . D 2 3.76 -63.149 9.634 1 68.61 ? C29 CIF 401 A 1 
HETATM 16 C C2 CIF . . . D 2 -4.443 -63.813 2.103 1 83.17 ? C2 CIF 401 A 1 
HETATM 17 C C30 CIF . . . D 2 3.092 -64.267 10.027 1 69.38 ? C30 CIF 401 A 1 
HETATM 18 C C31 CIF . . . D 2 2.016 -64.759 9.326 1 71.67 ? C31 CIF 401 A 1 
HETATM 19 C C33 CIF . . . D 2 5.86 -62.14 9.849 1 68.17 ? C33 CIF 401 A 1 
HETATM 20 C C35 CIF . . . D 2 7.605 -60.701 10.056 1 63.15 ? C35 CIF 401 A 1 
HETATM 21 C C36 CIF . . . D 2 8.017 -60.972 8.78 1 68.16 ? C36 CIF 401 A 1 
HETATM 22 C C37 CIF . . . D 2 7.302 -61.882 8.055 1 78.23 ? C37 CIF 401 A 1 
HETATM 23 C C39 CIF . . . D 2 3.885 -61.279 7.977 1 70.6 ? C39 CIF 401 A 1 
HETATM 24 C C1 CIF . . . D 2 -5.396 -64.515 1.215 1 86.8 ? C1 CIF 401 A 1 
HETATM 25 C C40 CIF . . . D 2 7.634 -62.255 6.661 1 81.96 ? C40 CIF 401 A 1 
HETATM 26 C C41 CIF . . . D 2 8.708 -61.745 6 1 82.19 ? C41 CIF 401 A 1 
HETATM 27 C C42 CIF . . . D 2 8.93 -62.127 4.706 1 76.5 ? C42 CIF 401 A 1 
HETATM 28 C C43 CIF . . . D 2 8.086 -63.004 4.088 1 80.78 ? C43 CIF 401 A 1 
HETATM 29 C C45 CIF . . . D 2 6.828 -63.119 5.973 1 79.64 ? C45 CIF 401 A 1 
HETATM 30 C C6 CIF . . . D 2 -5.898 -63.847 0.002 1 88.11 ? C6 CIF 401 A 1 
HETATM 31 C C5 CIF . . . D 2 -4.607 -63.676 -0.723 1 89.98 ? C5 CIF 401 A 1 
HETATM 32 C C4 CIF . . . D 2 -3.808 -62.599 -0.051 1 88.06 ? C4 CIF 401 A 1 
HETATM 33 C C3 CIF . . . D 2 -3.939 -62.547 1.463 1 80.85 ? C3 CIF 401 A 1 
HETATM 34 N N2 CIF . . . D 2 -2.597 -64.422 3.522 1 75.39 ? N2 CIF 401 A 1 
HETATM 35 N N25 CIF . . . D 2 0.528 -64.488 7.489 1 73.21 ? N25 CIF 401 A 1 
HETATM 36 N N32 CIF . . . D 2 4.8 -62.733 10.364 1 67.4 ? N32 CIF 401 A 1 
HETATM 37 N N34 CIF . . . D 2 6.549 -61.286 10.563 1 63.76 ? N34 CIF 401 A 1 
HETATM 38 N N38 CIF . . . D 2 6.245 -62.444 8.623 1 75.84 ? N38 CIF 401 A 1 
HETATM 39 N N44 CIF . . . D 2 7.052 -63.478 4.726 1 78.41 ? N44 CIF 401 A 1 
HETATM 40 O O2 CIF . . . D 2 -3.215 -65.801 1.921 1 86.59 ? O2 CIF 401 A 1 
HETATM 41 O O1 CIF . . . D 2 -3.454 -60.307 -0.514 1 110.3 ? O1 CIF 401 A 1 
HETATM 42 O O CIF . . . D 2 -5.286 -61.199 -1.583 1 96.91 ? O CIF 401 A 1 
HETATM 43 O O4 CIF . . . D 2 -5.774 -65.642 1.478 1 86.4 ? O4 CIF 401 A 1 
HETATM 44 O O24 CIF . . . D 2 0.996 -66.595 7.533 1 91.35 ? O24 CIF 401 A 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           318 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           44 
#