data_8PT8
#
_model_server_result.job_id            0sAqqMTrGQwb115waYeYxA 
_model_server_result.datetime_utc      '2024-11-14 21:55:10' 
_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          8pt8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":401}' 
#
_entry.id    8PT8 
#
_exptl.entry_id    8PT8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              606.671 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'methyl (1R,3R)-1-methyl-3-[[3-[[3-methyl-4-[(4-pyridin-3-ylpyrimidin-2-yl)amino]phenyl]carbamoyl]phenyl]methylcarbamoyl]-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            8PT8 
_cell.length_a            107.72 
_cell.length_b            107.72 
_cell.length_c            99.085 
_cell.Z_PDB               9 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8PT8 
_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,H 1 1 
B,E,I 2 1 
C,F,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 E N N 
? 2 F 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 A3O . A A3O 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.734 ? 
covale ? covale2 B SG CYS 118 B CYS 116 1_555 E C3 A3O . B A3O 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.752 ? 
covale ? covale3 C SG CYS 118 C CYS 116 1_555 F C3 A3O . C A3O 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.735 ? 
#
_chem_comp.formula           'C34 H34 N6 O5' 
_chem_comp.formula_weight    606.671 
_chem_comp.id                A3O 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'methyl (1R,3R)-1-methyl-3-[[3-[[3-methyl-4-[(4-pyridin-3-ylpyrimidin-2-yl)amino]phenyl]carbamoyl]phenyl]methylcarbamoyl]-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
C7 C4 A3O sing 1 n n 
C6 C5 A3O sing 2 n n 
C6 C1 A3O sing 3 n n 
C5 C4 A3O sing 4 n n 
C4 C14 A3O sing 5 n n 
C4 C3 A3O sing 6 n n 
C1 O4 A3O doub 7 n n 
C1 C2 A3O sing 8 n n 
C14 O1 A3O doub 9 n n 
C14 O A3O sing 10 n n 
O C15 A3O sing 11 n n 
C3 C2 A3O sing 12 n n 
C2 C16 A3O sing 13 n n 
C16 O2 A3O doub 14 n n 
C16 N2 A3O sing 15 n n 
N2 C10 A3O sing 16 n n 
C43 N44 A3O doub 17 n y 
C43 C42 A3O sing 18 n y 
C18 C19 A3O doub 19 n y 
C18 C17 A3O sing 20 n y 
C19 C20 A3O sing 21 n y 
C10 C17 A3O sing 22 n n 
N44 C45 A3O sing 23 n y 
C17 C22 A3O doub 24 n y 
C42 C41 A3O doub 25 n y 
C20 C21 A3O doub 26 n y 
C22 C21 A3O sing 27 n y 
C21 C23 A3O sing 28 n n 
C45 C40 A3O doub 29 n y 
C41 C40 A3O sing 30 n y 
C23 O24 A3O doub 31 n n 
C23 N25 A3O sing 32 n n 
C40 C37 A3O sing 33 n n 
N25 C26 A3O sing 34 n n 
C27 C26 A3O doub 35 n y 
C27 C28 A3O sing 36 n y 
C26 C31 A3O sing 37 n y 
C39 C28 A3O sing 38 n n 
C37 N38 A3O doub 39 n y 
C37 C36 A3O sing 40 n y 
C28 C29 A3O doub 41 n y 
N38 C33 A3O sing 42 n y 
C31 C30 A3O doub 43 n y 
C36 C35 A3O doub 44 n y 
C29 C30 A3O sing 45 n y 
C29 N32 A3O sing 46 n n 
C33 N32 A3O sing 47 n n 
C33 N34 A3O doub 48 n y 
C35 N34 A3O sing 49 n y 
C2 H1 A3O sing 50 n n 
C5 H2 A3O sing 51 n n 
C5 H3 A3O sing 52 n n 
C6 H4 A3O sing 53 n n 
C6 H5 A3O sing 54 n n 
C18 H6 A3O sing 55 n n 
C19 H7 A3O sing 56 n n 
C20 H8 A3O sing 57 n n 
C27 H9 A3O sing 58 n n 
C7 H10 A3O sing 59 n n 
C7 H11 A3O sing 60 n n 
C7 H12 A3O sing 61 n n 
C15 H13 A3O sing 62 n n 
C15 H14 A3O sing 63 n n 
C15 H15 A3O sing 64 n n 
C10 H16 A3O sing 65 n n 
C10 H17 A3O sing 66 n n 
C22 H18 A3O sing 67 n n 
C30 H19 A3O sing 68 n n 
C31 H20 A3O sing 69 n n 
C35 H21 A3O sing 70 n n 
C36 H22 A3O sing 71 n n 
C39 H23 A3O sing 72 n n 
C39 H24 A3O sing 73 n n 
C39 H25 A3O sing 74 n n 
C41 H26 A3O sing 75 n n 
C42 H27 A3O sing 76 n n 
C43 H28 A3O sing 77 n n 
C45 H29 A3O sing 78 n n 
C3 H30 A3O sing 79 n n 
C3 H31 A3O sing 80 n n 
N2 H32 A3O sing 81 n n 
N25 H33 A3O sing 82 n n 
N32 H34 A3O sing 83 n n 
#
_atom_sites.entry_id                     8PT8 
_atom_sites.fract_transf_matrix[1][1]    0.009283 
_atom_sites.fract_transf_matrix[1][2]    0.00536 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010719 
_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]    0.010092 
_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 A3O A 1 401 401 A3O 35R . 
E 2 A3O B 1 401 401 A3O 35R . 
F 2 A3O C 1 401 401 A3O 35R . 
G 3 GOL C 1 402 101 GOL GOL . 
H 4 HOH A 1 501 1 HOH HOH . 
I 4 HOH B 1 501 3 HOH HOH . 
I 4 HOH B 2 502 4 HOH HOH . 
J 4 HOH C 1 501 5 HOH HOH . 
J 4 HOH C 2 502 2 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 O O1 A3O . . . F 2 -4.243 -6.135 -3.626 1 132.53 ? O1 A3O 401 C 1 
HETATM 2 C C2 A3O . . . F 2 -2.501 -3.048 -3.642 1 129.62 ? C2 A3O 401 C 1 
HETATM 3 C C4 A3O . . . F 2 -2.152 -5.502 -2.866 1 133.65 ? C4 A3O 401 C 1 
HETATM 4 C C5 A3O . . . F 2 -2.362 -4.81 -1.535 1 130.2 ? C5 A3O 401 C 1 
HETATM 5 C C6 A3O . . . F 2 -3.623 -3.978 -1.562 1 127.57 ? C6 A3O 401 C 1 
HETATM 6 C C14 A3O . . . F 2 -3.206 -6.496 -3.155 1 131.2 ? C14 A3O 401 C 1 
HETATM 7 C C16 A3O . . . F 2 -2.793 -2.246 -4.881 1 130.04 ? C16 A3O 401 C 1 
HETATM 8 C C17 A3O . . . F 2 -4.552 -1.266 -7.561 1 125.31 ? C17 A3O 401 C 1 
HETATM 9 C C18 A3O . . . F 2 -5.776 -1.032 -6.971 1 123.22 ? C18 A3O 401 C 1 
HETATM 10 C C19 A3O . . . F 2 -6.578 0.006 -7.404 1 120.42 ? C19 A3O 401 C 1 
HETATM 11 C C20 A3O . . . F 2 -6.165 0.814 -8.443 1 121.03 ? C20 A3O 401 C 1 
HETATM 12 C C23 A3O . . . F 2 -4.51 1.498 -10.138 1 117.28 ? C23 A3O 401 C 1 
HETATM 13 C C26 A3O . . . F 2 -2.65 2.511 -11.236 1 104.08 ? C26 A3O 401 C 1 
HETATM 14 C C27 A3O . . . F 2 -1.274 2.641 -11.165 1 100.69 ? C27 A3O 401 C 1 
HETATM 15 C C28 A3O . . . F 2 -0.598 3.624 -11.881 1 99.48 ? C28 A3O 401 C 1 
HETATM 16 C C29 A3O . . . F 2 -1.283 4.509 -12.72 1 101.25 ? C29 A3O 401 C 1 
HETATM 17 C C7 A3O . . . F 2 -0.849 -6.321 -2.765 1 125.92 ? C7 A3O 401 C 1 
HETATM 18 C C15 A3O . . . F 2 -4.045 -8.803 -3.16 1 116.66 ? C15 A3O 401 C 1 
HETATM 19 C C10 A3O . . . F 2 -3.653 -2.398 -7.115 1 124.64 ? C10 A3O 401 C 1 
HETATM 20 C C21 A3O . . . F 2 -4.933 0.59 -9.032 1 119.46 ? C21 A3O 401 C 1 
HETATM 21 C C22 A3O . . . F 2 -4.129 -0.457 -8.61 1 120.77 ? C22 A3O 401 C 1 
HETATM 22 C C30 A3O . . . F 2 -2.642 4.342 -12.804 1 112.07 ? C30 A3O 401 C 1 
HETATM 23 C C31 A3O . . . F 2 -3.32 3.353 -12.112 1 106.1 ? C31 A3O 401 C 1 
HETATM 24 C C33 A3O . . . F 2 0.186 6.353 -13.012 1 105.49 ? C33 A3O 401 C 1 
HETATM 25 C C35 A3O . . . F 2 2.151 7.574 -13.275 1 109.47 ? C35 A3O 401 C 1 
HETATM 26 C C36 A3O . . . F 2 2.036 8.048 -11.975 1 105.22 ? C36 A3O 401 C 1 
HETATM 27 C C37 A3O . . . F 2 0.952 7.641 -11.212 1 111.99 ? C37 A3O 401 C 1 
HETATM 28 C C39 A3O . . . F 2 0.876 3.686 -11.695 1 110.85 ? C39 A3O 401 C 1 
HETATM 29 C C1 A3O . . . F 2 -3.709 -3.223 -2.836 1 130.18 ? C1 A3O 401 C 1 
HETATM 30 C C40 A3O . . . F 2 0.802 8.118 -9.809 1 116.96 ? C40 A3O 401 C 1 
HETATM 31 C C41 A3O . . . F 2 1.125 9.426 -9.471 1 114.32 ? C41 A3O 401 C 1 
HETATM 32 C C42 A3O . . . F 2 0.992 9.818 -8.148 1 116.63 ? C42 A3O 401 C 1 
HETATM 33 C C43 A3O . . . F 2 0.496 8.943 -7.203 1 113.02 ? C43 A3O 401 C 1 
HETATM 34 C C45 A3O . . . F 2 0.327 7.273 -8.823 1 118.49 ? C45 A3O 401 C 1 
HETATM 35 C C3 A3O . . . F 2 -2.132 -4.482 -4.059 1 131.54 ? C3 A3O 401 C 1 
HETATM 36 N N2 A3O . . . F 2 -3.728 -2.652 -5.69 1 130.22 ? N2 A3O 401 C 1 
HETATM 37 N N25 A3O . . . F 2 -3.258 1.5 -10.554 1 110.53 ? N25 A3O 401 C 1 
HETATM 38 N N32 A3O . . . F 2 -0.725 5.491 -13.461 1 111.48 ? N32 A3O 401 C 1 
HETATM 39 N N34 A3O . . . F 2 1.232 6.735 -13.773 1 111.88 ? N34 A3O 401 C 1 
HETATM 40 N N38 A3O . . . F 2 0.05 6.794 -11.743 1 111.96 ? N38 A3O 401 C 1 
HETATM 41 N N44 A3O . . . F 2 0.194 7.7 -7.568 1 118.06 ? N44 A3O 401 C 1 
HETATM 42 O O2 A3O . . . F 2 -2.171 -1.257 -5.164 1 129.87 ? O2 A3O 401 C 1 
HETATM 43 O O A3O . . . F 2 -2.985 -7.888 -2.943 1 122.67 ? O A3O 401 C 1 
HETATM 44 O O4 A3O . . . F 2 -4.745 -2.779 -3.217 1 131.02 ? O4 A3O 401 C 1 
HETATM 45 O O24 A3O . . . F 2 -5.346 2.234 -10.609 1 116.87 ? O24 A3O 401 C 1 
#
_model_server_stats.io_time_ms              25 
_model_server_stats.parse_time_ms           31 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           304 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           45 
#