data_3LG4
#
_model_server_result.job_id            o4uyifl1y7x5wZS0OGgUog 
_model_server_result.datetime_utc      '2024-11-30 17:09:55' 
_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          3lg4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":202}' 
#
_entry.id    3LG4 
#
_exptl.entry_id    3LG4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              386.489 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5-[(3S)-3-(5-methoxy-2',6'-dimethylbiphenyl-3-yl)but-1-yn-1-yl]-6-methylpyrimidine-2,4-diamine" 
_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         120 
_cell.entry_id            3LG4 
_cell.length_a            88.752 
_cell.length_b            88.752 
_cell.length_c            103.167 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3LG4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        169 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 61' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D 1 1 
B,E,F 2 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
? 3 D N N 
? 3 F N N 
#
_chem_comp.formula           'C24 H26 N4 O' 
_chem_comp.formula_weight    386.489 
_chem_comp.id                52V 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "5-[(3S)-3-(5-methoxy-2',6'-dimethylbiphenyl-3-yl)but-1-yn-1-yl]-6-methylpyrimidine-2,4-diamine" 
_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
N9 C1 52V sing 1 n n 
N2 C1 52V doub 2 n y 
C1 C6 52V sing 3 n y 
C2 O17 52V sing 4 n n 
C2 H2 52V sing 5 n n 
C2 H2A 52V sing 6 n n 
C2 H2B 52V sing 7 n n 
N2 C3 52V sing 8 n y 
N7 C3 52V sing 9 n n 
C3 N4 52V doub 10 n y 
C6 C10 52V sing 11 n n 
C6 C5 52V doub 12 n y 
C14 C12 52V sing 13 n n 
C11 C12 52V sing 14 n n 
C12 C13 52V sing 15 n n 
C12 H12 52V sing 16 n n 
C13 H13 52V sing 17 n n 
C13 H13A 52V sing 18 n n 
C13 H13B 52V sing 19 n n 
C15 C14 52V doub 20 n y 
C14 C19 52V sing 21 n y 
C16 C15 52V sing 22 n y 
C15 H15 52V sing 23 n n 
O17 C16 52V sing 24 n n 
C16 C17 52V doub 25 n y 
C17 C18 52V sing 26 n y 
C17 H17 52V sing 27 n n 
C18 C25 52V sing 28 n y 
C18 C19 52V doub 29 n y 
C20 C26 52V sing 30 n n 
C26 H26 52V sing 31 n n 
C26 H26A 52V sing 32 n n 
C26 H26B 52V sing 33 n n 
C25 C20 52V doub 34 n y 
C20 C21 52V sing 35 n y 
C22 C21 52V doub 36 n y 
C21 H21 52V sing 37 n n 
C23 C22 52V sing 38 n y 
C22 H22 52V sing 39 n n 
C24 C23 52V doub 40 n y 
C23 H23 52V sing 41 n n 
C27 C24 52V sing 42 n n 
C24 C25 52V sing 43 n y 
C27 H27 52V sing 44 n n 
C27 H27A 52V sing 45 n n 
C27 H27B 52V sing 46 n n 
C19 H19 52V sing 47 n n 
C10 C11 52V trip 48 n n 
N4 C5 52V sing 49 n y 
C5 C8 52V sing 50 n n 
C8 H8 52V sing 51 n n 
C8 H8A 52V sing 52 n n 
C8 H8B 52V sing 53 n n 
N7 HN7 52V sing 54 n n 
N7 HN7A 52V sing 55 n n 
N9 HN9 52V sing 56 n n 
N9 HN9A 52V sing 57 n n 
#
_atom_sites.entry_id                     3LG4 
_atom_sites.fract_transf_matrix[1][1]    0.011267 
_atom_sites.fract_transf_matrix[1][2]    0.006505 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01301 
_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]    0.009693 
_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
C 2 NDP A 1 201 207 NDP NAP . 
D 3 52V A 1 202 1 52V 52V . 
E 2 NDP B 1 201 207 NDP NAP . 
F 3 52V B 1 202 1 52V 52V . 
#
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 52V . . . D 3 -17.826 -23.833 13.281 0.5 64.85 ? C1 52V 202 A 1 
HETATM 2 C C2 52V . . . D 3 -23.188 -32.011 11.669 0.5 67.27 ? C2 52V 202 A 1 
HETATM 3 C C3 52V . . . D 3 -15.527 -24.158 13.031 0.5 64.5 ? C3 52V 202 A 1 
HETATM 4 C C6 52V . . . D 3 -18.068 -24.972 12.516 0.5 64.77 ? C6 52V 202 A 1 
HETATM 5 C C12 52V . . . D 3 -21.904 -26.241 11.712 0.5 65.48 ? C12 52V 202 A 1 
HETATM 6 C C13 52V . . . D 3 -22.706 -26.186 13.024 0.5 65.59 ? C13 52V 202 A 1 
HETATM 7 C C14 52V . . . D 3 -21.943 -27.651 11.047 0.5 66.64 ? C14 52V 202 A 1 
HETATM 8 C C15 52V . . . D 3 -21.942 -28.84 11.797 0.5 67.28 ? C15 52V 202 A 1 
HETATM 9 C C16 52V . . . D 3 -21.988 -30.091 11.159 0.5 67.42 ? C16 52V 202 A 1 
HETATM 10 C C17 52V . . . D 3 -22.029 -30.159 9.77 0.5 66.93 ? C17 52V 202 A 1 
HETATM 11 C C18 52V . . . D 3 -22.033 -28.991 9.014 0.5 67.64 ? C18 52V 202 A 1 
HETATM 12 C C26 52V . . . D 3 -19.594 -29.774 7.619 0.5 68.36 ? C26 52V 202 A 1 
HETATM 13 C C20 52V . . . D 3 -20.922 -29.471 6.905 0.5 68.41 ? C20 52V 202 A 1 
HETATM 14 C C21 52V . . . D 3 -20.957 -29.576 5.513 0.5 68.28 ? C21 52V 202 A 1 
HETATM 15 C C22 52V . . . D 3 -22.133 -29.314 4.818 0.5 68.04 ? C22 52V 202 A 1 
HETATM 16 C C23 52V . . . D 3 -23.278 -28.947 5.52 0.5 68.19 ? C23 52V 202 A 1 
HETATM 17 C C24 52V . . . D 3 -23.261 -28.834 6.907 0.5 68.19 ? C24 52V 202 A 1 
HETATM 18 C C27 52V . . . D 3 -24.563 -28.422 7.605 0.5 68.12 ? C27 52V 202 A 1 
HETATM 19 C C25 52V . . . D 3 -22.076 -29.095 7.618 0.5 67.71 ? C25 52V 202 A 1 
HETATM 20 C C19 52V . . . D 3 -21.989 -27.741 9.651 0.5 66.97 ? C19 52V 202 A 1 
HETATM 21 O O17 52V . . . D 3 -21.982 -31.252 11.88 0.5 67.11 ? O17 52V 202 A 1 
HETATM 22 C C11 52V . . . D 3 -20.531 -25.798 11.995 0.5 64.79 ? C11 52V 202 A 1 
HETATM 23 C C10 52V . . . D 3 -19.404 -25.412 12.24 0.5 64.55 ? C10 52V 202 A 1 
HETATM 24 C C5 52V . . . D 3 -16.978 -25.681 12.022 0.5 64.61 ? C5 52V 202 A 1 
HETATM 25 C C8 52V . . . D 3 -17.184 -26.937 11.177 0.5 64.69 ? C8 52V 202 A 1 
HETATM 26 N N4 52V . . . D 3 -15.736 -25.255 12.293 0.5 64.56 ? N4 52V 202 A 1 
HETATM 27 N N7 52V . . . D 3 -14.286 -23.77 13.277 0.5 64.61 ? N7 52V 202 A 1 
HETATM 28 N N2 52V . . . D 3 -16.559 -23.454 13.52 0.5 64.67 ? N2 52V 202 A 1 
HETATM 29 N N9 52V . . . D 3 -18.836 -23.12 13.774 0.5 64.66 ? N9 52V 202 A 1 
#
_model_server_stats.io_time_ms              60 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          17 
_model_server_stats.element_count           29 
#