data_3TD8
#
_model_server_result.job_id            bCWtrBy9N9VkeZfJel2fYA 
_model_server_result.datetime_utc      '2024-11-25 07:46:57' 
_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          3td8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":302}' 
#
_entry.id    3TD8 
#
_exptl.entry_id    3TD8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              405.45 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '6-{2-[(2,4-diamino-5-methylpyrido[2,3-d]pyrimidin-6-yl)methyl]-4-methoxyphenyl}hex-5-ynoic acid' 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          95.2 
_cell.angle_gamma         90 
_cell.entry_id            3TD8 
_cell.length_a            36.123 
_cell.length_b            42.63 
_cell.length_c            59.894 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3TD8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C22 H23 N5 O3' 
_chem_comp.formula_weight    405.45 
_chem_comp.id                D2R 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '6-{2-[(2,4-diamino-5-methylpyrido[2,3-d]pyrimidin-6-yl)methyl]-4-methoxyphenyl}hex-5-ynoic acid' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "2,4-Diamino--5-methyl-6-[2'-(4-carboxy-1-pentynyl)-5'-methoxybenzyl]pyrido[2,3-d]pyrimidine" 
#
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
C2 N1 D2R doub 83 n y 
N1 C6 D2R sing 84 n y 
N3 C2 D2R sing 85 n y 
NAC C2 D2R sing 86 n n 
N3 C4 D2R doub 87 n y 
NAQ C4 D2R sing 88 n y 
C4 C5 D2R sing 89 n y 
C5 CAX D2R sing 90 n y 
C5 C6 D2R doub 91 n y 
C6 NAD D2R sing 92 n n 
OAT CAA D2R sing 93 n n 
CAA HAA D2R sing 94 n n 
CAA HAAA D2R sing 95 n n 
CAA HAAB D2R sing 96 n n 
CAX CAB D2R sing 97 n n 
CAB HAB D2R sing 98 n n 
CAB HABA D2R sing 99 n n 
CAB HABB D2R sing 100 n n 
NAC HNAC D2R sing 101 n n 
NAC HNAA D2R sing 102 n n 
NAD HNAD D2R sing 103 n n 
NAD HNAB D2R sing 104 n n 
OAE CAU D2R doub 105 n n 
CAU OAF D2R sing 106 n n 
OAF HOAF D2R sing 107 n n 
CAM CAG D2R sing 108 n n 
CAG CAH D2R trip 109 n n 
CAH CAZ D2R sing 110 n n 
CAJ CAI D2R doub 111 n y 
CAI CAY D2R sing 112 n y 
CAI HAI D2R sing 113 n n 
CAZ CAJ D2R sing 114 n y 
CAJ HAJ D2R sing 115 n n 
NAQ CAK D2R doub 116 n y 
CAK CBA D2R sing 117 n y 
CAK HAK D2R sing 118 n n 
CBB CAL D2R sing 119 n y 
CAL CAY D2R doub 120 n y 
CAL HAL D2R sing 121 n n 
CAM CAN D2R sing 122 n n 
CAM HAM D2R sing 123 n n 
CAM HAMA D2R sing 124 n n 
CAO CAN D2R sing 125 n n 
CAN HAN D2R sing 126 n n 
CAN HANA D2R sing 127 n n 
CAO CAU D2R sing 128 n n 
CAO HAO D2R sing 129 n n 
CAO HAOA D2R sing 130 n n 
CBA CAP D2R sing 131 n n 
CAP CBB D2R sing 132 n n 
CAP HAP D2R sing 133 n n 
CAP HAPA D2R sing 134 n n 
CAY OAT D2R sing 135 n n 
CBA CAX D2R doub 136 n y 
CAZ CBB D2R doub 137 n y 
#
_atom_sites.entry_id                     3TD8 
_atom_sites.fract_transf_matrix[1][1]    0.027683 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002519 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.023458 
_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]    0.016765 
_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
B 2 NDP A 1 301 1 NDP NAP . 
C 3 D2R A 1 302 1 D2R DRG . 
D 4 HOH A 1 401 1 HOH HOH . 
D 4 HOH A 2 402 2 HOH HOH . 
D 4 HOH A 3 403 3 HOH HOH . 
D 4 HOH A 4 404 4 HOH HOH . 
D 4 HOH A 5 405 6 HOH HOH . 
D 4 HOH A 6 406 7 HOH HOH . 
D 4 HOH A 7 407 8 HOH HOH . 
D 4 HOH A 8 408 9 HOH HOH . 
D 4 HOH A 9 409 11 HOH HOH . 
D 4 HOH A 10 410 12 HOH HOH . 
D 4 HOH A 11 411 13 HOH HOH . 
D 4 HOH A 12 412 14 HOH HOH . 
D 4 HOH A 13 413 15 HOH HOH . 
D 4 HOH A 14 414 16 HOH HOH . 
D 4 HOH A 15 415 17 HOH HOH . 
D 4 HOH A 16 416 18 HOH HOH . 
D 4 HOH A 17 417 19 HOH HOH . 
D 4 HOH A 18 418 20 HOH HOH . 
D 4 HOH A 19 419 21 HOH HOH . 
D 4 HOH A 20 420 22 HOH HOH . 
D 4 HOH A 21 421 23 HOH HOH . 
D 4 HOH A 22 422 24 HOH HOH . 
D 4 HOH A 23 423 25 HOH HOH . 
D 4 HOH A 24 424 26 HOH HOH . 
D 4 HOH A 25 425 27 HOH HOH . 
D 4 HOH A 26 426 28 HOH HOH . 
D 4 HOH A 27 427 29 HOH HOH . 
D 4 HOH A 28 428 30 HOH HOH . 
D 4 HOH A 29 429 31 HOH HOH . 
D 4 HOH A 30 430 32 HOH HOH . 
D 4 HOH A 31 431 33 HOH HOH . 
D 4 HOH A 32 432 35 HOH HOH . 
D 4 HOH A 33 433 36 HOH HOH . 
D 4 HOH A 34 434 37 HOH HOH . 
D 4 HOH A 35 435 38 HOH HOH . 
D 4 HOH A 36 436 39 HOH HOH . 
D 4 HOH A 37 437 40 HOH HOH . 
D 4 HOH A 38 438 41 HOH HOH . 
D 4 HOH A 39 439 42 HOH HOH . 
D 4 HOH A 40 440 43 HOH HOH . 
D 4 HOH A 41 441 44 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 N N1 D2R . . . C 3 10.328 -1.269 13.114 1 24.21 ? N1 D2R 302 A 1 
HETATM 2 C C2 D2R . . . C 3 10.629 -2.1 12.1 1 23.66 ? C2 D2R 302 A 1 
HETATM 3 N N3 D2R . . . C 3 11.656 -1.872 11.279 1 28.89 ? N3 D2R 302 A 1 
HETATM 4 C C4 D2R . . . C 3 12.383 -0.755 11.43 1 31.55 ? C4 D2R 302 A 1 
HETATM 5 C C5 D2R . . . C 3 12.148 0.149 12.512 1 28.85 ? C5 D2R 302 A 1 
HETATM 6 C C6 D2R . . . C 3 11.06 -0.19 13.4 1 27.47 ? C6 D2R 302 A 1 
HETATM 7 C CAA D2R . . . C 3 18.16 2.366 15.431 1 55.96 ? CAA D2R 302 A 1 
HETATM 8 C CAB D2R . . . C 3 12.852 2.419 13.709 1 30.72 ? CAB D2R 302 A 1 
HETATM 9 N NAC D2R . . . C 3 9.887 -3.21 11.878 1 27.93 ? NAC D2R 302 A 1 
HETATM 10 N NAD D2R . . . C 3 10.722 0.568 14.451 1 23.49 ? NAD D2R 302 A 1 
HETATM 11 O OAE D2R . . . C 3 11.542 4.954 7.048 1 40.46 ? OAE D2R 302 A 1 
HETATM 12 O OAF D2R . . . C 3 12.069 6.554 5.62 1 41.36 ? OAF D2R 302 A 1 
HETATM 13 C CAG D2R . . . C 3 16.263 3.381 8.395 1 44.81 ? CAG D2R 302 A 1 
HETATM 14 C CAH D2R . . . C 3 16.733 3.065 9.47 1 41.48 ? CAH D2R 302 A 1 
HETATM 15 C CAI D2R . . . C 3 19.182 2.017 12.096 1 41.83 ? CAI D2R 302 A 1 
HETATM 16 C CAJ D2R . . . C 3 18.662 2.406 10.863 1 39.75 ? CAJ D2R 302 A 1 
HETATM 17 C CAK D2R . . . C 3 14.129 0.552 10.683 1 35.14 ? CAK D2R 302 A 1 
HETATM 18 C CAL D2R . . . C 3 16.919 2.151 13.057 1 41.46 ? CAL D2R 302 A 1 
HETATM 19 C CAM D2R . . . C 3 15.767 3.777 7.063 1 44.04 ? CAM D2R 302 A 1 
HETATM 20 C CAN D2R . . . C 3 14.28 4.042 7.181 1 42.84 ? CAN D2R 302 A 1 
HETATM 21 C CAO D2R . . . C 3 13.804 5.053 6.152 1 41.59 ? CAO D2R 302 A 1 
HETATM 22 C CAP D2R . . . C 3 14.932 2.77 11.697 1 36.64 ? CAP D2R 302 A 1 
HETATM 23 N NAQ D2R . . . C 3 13.372 -0.546 10.549 1 30.91 ? NAQ D2R 302 A 1 
HETATM 24 O OAT D2R . . . C 3 18.774 1.537 14.43 1 51.05 ? OAT D2R 302 A 1 
HETATM 25 C CAU D2R . . . C 3 12.359 5.554 6.301 1 44.04 ? CAU D2R 302 A 1 
HETATM 26 C CAX D2R . . . C 3 12.964 1.323 12.622 1 29.54 ? CAX D2R 302 A 1 
HETATM 27 C CAY D2R . . . C 3 18.295 1.909 13.204 1 47.34 ? CAY D2R 302 A 1 
HETATM 28 C CAZ D2R . . . C 3 17.281 2.656 10.732 1 46.91 ? CAZ D2R 302 A 1 
HETATM 29 C CBA D2R . . . C 3 13.993 1.512 11.685 1 33.68 ? CBA D2R 302 A 1 
HETATM 30 C CBB D2R . . . C 3 16.405 2.504 11.822 1 41.21 ? CBB D2R 302 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           331 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           30 
#