data_3QLY
#
_model_server_result.job_id            9q-YeBSrXfjJuyDWzOtBbg 
_model_server_result.datetime_utc      '2024-11-24 15:08:21' 
_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          3qly 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":229}' 
#
_entry.id    3QLY 
#
_exptl.entry_id    3QLY 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              356.419 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            6-methyl-5-[3-methyl-3-(3,4,5-trimethoxyphenyl)but-1-yn-1-yl]pyrimidine-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         90 
_cell.entry_id            3QLY 
_cell.length_a            42.731 
_cell.length_b            42.731 
_cell.length_c            230.839 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3QLY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        76 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41' 
#
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,G 1 1 
B,E,F,H 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           'C19 H24 N4 O3' 
_chem_comp.formula_weight    356.419 
_chem_comp.id                55V 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              6-methyl-5-[3-methyl-3-(3,4,5-trimethoxyphenyl)but-1-yn-1-yl]pyrimidine-2,4-diamine 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     2,4-Diamino-5-[3-(3,4,5-trimethoxyphenyl)pent-1-ynyl]-6-methylpyrimidine 
#
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
C1P O1O 55V sing 1 n n 
C1P H1P 55V sing 2 n n 
C1P H1PA 55V sing 3 n n 
C1P H1PB 55V sing 4 n n 
O1O C1N 55V sing 5 n n 
C1M C1N 55V doub 6 n y 
C1N C1Q 55V sing 7 n y 
C1M C1L 55V sing 8 n y 
C1M H1M 55V sing 9 n n 
C1Q O1V 55V sing 10 n n 
C1Q C1R 55V doub 11 n y 
O1V C1W 55V sing 12 n n 
C1W H1W 55V sing 13 n n 
C1W H1WA 55V sing 14 n n 
C1W H1WB 55V sing 15 n n 
C1S C1R 55V sing 16 n y 
C1R O1T 55V sing 17 n n 
O1T C1U 55V sing 18 n n 
C1U H1U 55V sing 19 n n 
C1U H1UA 55V sing 20 n n 
C1U H1UB 55V sing 21 n n 
C1L C1S 55V doub 22 n y 
C1S H1S 55V sing 23 n n 
C1J C1L 55V sing 24 n n 
C1K C1J 55V sing 25 n n 
C1J C1I 55V sing 26 n n 
C1J C1X 55V sing 27 n n 
C1K H1K 55V sing 28 n n 
C1K H1KA 55V sing 29 n n 
C1K H1KB 55V sing 30 n n 
C1X H1X 55V sing 31 n n 
C1X H1XA 55V sing 32 n n 
C1X H1XB 55V sing 33 n n 
C1I C1H 55V trip 34 n n 
C1H C5 55V sing 35 n n 
C4 C5 55V doub 36 n y 
C5 C6 55V sing 37 n y 
C1Y C4 55V sing 38 n n 
C4 N3 55V sing 39 n y 
C1Y H1Y 55V sing 40 n n 
C1Y H1YA 55V sing 41 n n 
C1Y H1YB 55V sing 42 n n 
N3 C2 55V doub 43 n y 
C2 N1Z 55V sing 44 n n 
C2 N1 55V sing 45 n y 
N1Z HN1Z 55V sing 46 n n 
N1Z HN1A 55V sing 47 n n 
C6 N1 55V doub 48 n y 
C6 N1G 55V sing 49 n n 
N1G HN1G 55V sing 50 n n 
N1G HN1B 55V sing 51 n n 
#
_atom_sites.entry_id                     3QLY 
_atom_sites.fract_transf_matrix[1][1]    0.023402 
_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]    0.023402 
_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]    0.004332 
_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 1 228 207 NDP NDP . 
D 3 55V A 1 229 1 55V 55V . 
E 2 NDP B 1 228 207 NDP NDP . 
F 3 55V B 1 229 1 55V 55V . 
G 4 HOH A 1 230 16 HOH HOH . 
G 4 HOH A 2 231 25 HOH HOH . 
G 4 HOH A 3 232 31 HOH HOH . 
G 4 HOH A 4 233 35 HOH HOH . 
G 4 HOH A 5 234 39 HOH HOH . 
G 4 HOH A 6 235 41 HOH HOH . 
G 4 HOH A 7 236 46 HOH HOH . 
G 4 HOH A 8 237 50 HOH HOH . 
G 4 HOH A 9 238 53 HOH HOH . 
G 4 HOH A 10 239 57 HOH HOH . 
G 4 HOH A 11 240 1 HOH HOH . 
G 4 HOH A 12 241 2 HOH HOH . 
G 4 HOH A 13 242 3 HOH HOH . 
G 4 HOH A 14 243 1 HOH HOH . 
G 4 HOH A 15 244 4 HOH HOH . 
G 4 HOH A 16 245 6 HOH HOH . 
G 4 HOH A 17 246 3 HOH HOH . 
G 4 HOH A 18 247 4 HOH HOH . 
H 4 HOH B 1 230 2 HOH HOH . 
H 4 HOH B 2 231 3 HOH HOH . 
H 4 HOH B 3 232 4 HOH HOH . 
H 4 HOH B 4 233 6 HOH HOH . 
H 4 HOH B 5 234 13 HOH HOH . 
H 4 HOH B 6 235 23 HOH HOH . 
H 4 HOH B 7 236 26 HOH HOH . 
H 4 HOH B 8 237 27 HOH HOH . 
H 4 HOH B 9 238 29 HOH HOH . 
H 4 HOH B 10 239 34 HOH HOH . 
H 4 HOH B 11 240 37 HOH HOH . 
H 4 HOH B 12 241 38 HOH HOH . 
H 4 HOH B 13 242 44 HOH HOH . 
H 4 HOH B 14 243 47 HOH HOH . 
H 4 HOH B 15 244 52 HOH HOH . 
H 4 HOH B 16 245 58 HOH HOH . 
H 4 HOH B 17 246 59 HOH HOH . 
H 4 HOH B 18 247 1 HOH HOH . 
H 4 HOH B 19 248 2 HOH HOH . 
H 4 HOH B 20 249 3 HOH HOH . 
H 4 HOH B 21 250 5 HOH HOH . 
H 4 HOH B 22 251 2 HOH HOH . 
H 4 HOH B 23 252 6 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 C1P 55V . . . F 3 -12.003 13.028 -37.302 1 32.5 ? C1P 55V 229 B 1 
HETATM 2 O O1O 55V . . . F 3 -12.607 14.319 -37.127 1 30.34 ? O1O 55V 229 B 1 
HETATM 3 C C1N 55V . . . F 3 -11.659 15.297 -37.195 1 30.42 ? C1N 55V 229 B 1 
HETATM 4 C C1M 55V . . . F 3 -10.654 15.355 -36.232 1 30 ? C1M 55V 229 B 1 
HETATM 5 C C1Q 55V . . . F 3 -11.696 16.24 -38.223 1 29.99 ? C1Q 55V 229 B 1 
HETATM 6 O O1V 55V . . . F 3 -12.697 16.209 -39.157 1 30.26 ? O1V 55V 229 B 1 
HETATM 7 C C1W 55V . . . F 3 -12.566 15.089 -40.044 1 29.95 ? C1W 55V 229 B 1 
HETATM 8 C C1R 55V . . . F 3 -10.737 17.252 -38.273 1 29.51 ? C1R 55V 229 B 1 
HETATM 9 O O1T 55V . . . F 3 -10.8 18.183 -39.278 1 28.98 ? O1T 55V 229 B 1 
HETATM 10 C C1U 55V . . . F 3 -9.604 18.963 -39.388 1 24.9 ? C1U 55V 229 B 1 
HETATM 11 C C1S 55V . . . F 3 -9.739 17.314 -37.296 1 29.09 ? C1S 55V 229 B 1 
HETATM 12 C C1L 55V . . . F 3 -9.681 16.351 -36.286 1 29.35 ? C1L 55V 229 B 1 
HETATM 13 C C1J 55V . . . F 3 -8.602 16.423 -35.183 1 28.34 ? C1J 55V 229 B 1 
HETATM 14 C C1K 55V . . . F 3 -9.296 16.541 -33.824 1 27.56 ? C1K 55V 229 B 1 
HETATM 15 C C1X 55V . . . F 3 -7.683 17.625 -35.408 1 26.8 ? C1X 55V 229 B 1 
HETATM 16 C C1I 55V . . . F 3 -7.795 15.196 -35.181 1 27.9 ? C1I 55V 229 B 1 
HETATM 17 C C1H 55V . . . F 3 -7.137 14.163 -35.134 1 28.33 ? C1H 55V 229 B 1 
HETATM 18 C C5 55V . . . F 3 -6.345 12.968 -35.102 1 28.28 ? C5 55V 229 B 1 
HETATM 19 C C4 55V . . . F 3 -6.141 12.24 -36.264 1 28.67 ? C4 55V 229 B 1 
HETATM 20 C C1Y 55V . . . F 3 -6.754 12.712 -37.584 1 27.82 ? C1Y 55V 229 B 1 
HETATM 21 N N3 55V . . . F 3 -5.41 11.116 -36.219 1 28.33 ? N3 55V 229 B 1 
HETATM 22 C C2 55V . . . F 3 -4.878 10.688 -35.063 1 27.91 ? C2 55V 229 B 1 
HETATM 23 N N1Z 55V . . . F 3 -4.166 9.564 -35.046 1 27.74 ? N1Z 55V 229 B 1 
HETATM 24 N N1 55V . . . F 3 -5.063 11.378 -33.922 1 27.9 ? N1 55V 229 B 1 
HETATM 25 C C6 55V . . . F 3 -5.78 12.511 -33.916 1 28.17 ? C6 55V 229 B 1 
HETATM 26 N N1G 55V . . . F 3 -5.951 13.182 -32.777 1 28.11 ? N1G 55V 229 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           321 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           26 
#