data_8STV
#
_model_server_result.job_id            oiAu0NxNl6RDTRjqfnahtA 
_model_server_result.datetime_utc      '2024-11-05 05:09:30' 
_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          8stv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":604}' 
#
_entry.id    8STV 
#
_exptl.entry_id    8STV 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              399.399 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            5-{2-[2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)ethoxy]phenoxy}naphthalene-2-carbonitrile 
_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          97.73 
_cell.angle_gamma         90 
_cell.entry_id            8STV 
_cell.length_a            111.591 
_cell.length_b            73.222 
_cell.length_c            170.655 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8STV 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
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 dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 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,B,E,F,G,H,L,M 1 1 
C,D,I,J,K,N,O 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
? 5 H N N 
? 5 K 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
metalc ? metalc1 C OD1 ASP 445 C ASP 443 1_555 I MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.743 ? 
metalc ? metalc2 C OD2 ASP 445 C ASP 443 1_555 I MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.615 ? 
metalc ? metalc3 C OD2 ASP 551 C ASP 549 1_555 I MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.847 ? 
#
_chem_comp.formula           'C23 H17 N3 O4' 
_chem_comp.formula_weight    399.399 
_chem_comp.id                3LQ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              5-{2-[2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)ethoxy]phenoxy}naphthalene-2-carbonitrile 
_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
C01 C00 3LQ doub 1 n y 
C01 C02 3LQ sing 2 n y 
C00 C05 3LQ sing 3 n y 
C02 C03 3LQ doub 4 n y 
O0Q C0K 3LQ doub 5 n n 
C0D O0B 3LQ sing 6 n n 
C0D C0E 3LQ sing 7 n n 
C05 O0B 3LQ sing 8 n n 
C05 C04 3LQ doub 9 n y 
C03 C04 3LQ sing 10 n y 
C04 O0A 3LQ sing 11 n n 
C0E N0H 3LQ sing 12 n n 
C0K N0H 3LQ sing 13 n n 
C0K N0M 3LQ sing 14 n n 
N0H C0P 3LQ sing 15 n n 
N0M C0N 3LQ sing 16 n n 
O0A CAH 3LQ sing 17 n n 
CAM CAH 3LQ doub 18 n y 
CAM CAL 3LQ sing 19 n y 
C0P C0O 3LQ doub 20 n n 
C0N O0S 3LQ doub 21 n n 
C0N C0O 3LQ sing 22 n n 
CAH CAI 3LQ sing 23 n y 
CAL CAK 3LQ doub 24 n y 
CAI CAY 3LQ doub 25 n y 
CAI CAJ 3LQ sing 26 n y 
CAY CAZ 3LQ sing 27 n y 
CAK CAJ 3LQ sing 28 n y 
CAJ CBB 3LQ doub 29 n y 
CAZ CBA 3LQ doub 30 n y 
CBB CBA 3LQ sing 31 n y 
CBA CBC 3LQ sing 32 n n 
CBC NBD 3LQ trip 33 n n 
C00 H1 3LQ sing 34 n n 
C01 H2 3LQ sing 35 n n 
C02 H3 3LQ sing 36 n n 
C03 H4 3LQ sing 37 n n 
C0D H5 3LQ sing 38 n n 
C0D H6 3LQ sing 39 n n 
C0E H7 3LQ sing 40 n n 
C0E H8 3LQ sing 41 n n 
N0M H9 3LQ sing 42 n n 
C0O H10 3LQ sing 43 n n 
C0P H11 3LQ sing 44 n n 
CAY H12 3LQ sing 45 n n 
CAZ H13 3LQ sing 46 n n 
CBB H14 3LQ sing 47 n n 
CAK H15 3LQ sing 48 n n 
CAL H16 3LQ sing 49 n n 
CAM H17 3LQ sing 50 n n 
#
_atom_sites.entry_id                     8STV 
_atom_sites.fract_transf_matrix[1][1]    0.008961 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001216 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013657 
_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]    0.005914 
_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
E 3 SO4 A 1 601 1 SO4 SO4 . 
F 3 SO4 A 1 602 2 SO4 SO4 . 
G 4 EDO A 1 603 603 EDO EDO . 
H 5 3LQ A 1 604 1 3LQ 3LQ . 
I 6 MG C 1 601 1 MG MG . 
J 4 EDO C 1 602 601 EDO EDO . 
K 5 3LQ C 1 603 2 3LQ 3LQ . 
L 7 HOH A 1 701 25 HOH HOH . 
L 7 HOH A 2 702 45 HOH HOH . 
L 7 HOH A 3 703 68 HOH HOH . 
L 7 HOH A 4 704 61 HOH HOH . 
L 7 HOH A 5 705 63 HOH HOH . 
L 7 HOH A 6 706 58 HOH HOH . 
L 7 HOH A 7 707 35 HOH HOH . 
L 7 HOH A 8 708 2 HOH HOH . 
L 7 HOH A 9 709 50 HOH HOH . 
L 7 HOH A 10 710 10 HOH HOH . 
L 7 HOH A 11 711 15 HOH HOH . 
L 7 HOH A 12 712 64 HOH HOH . 
L 7 HOH A 13 713 7 HOH HOH . 
L 7 HOH A 14 714 46 HOH HOH . 
L 7 HOH A 15 715 24 HOH HOH . 
L 7 HOH A 16 716 33 HOH HOH . 
L 7 HOH A 17 717 9 HOH HOH . 
L 7 HOH A 18 718 19 HOH HOH . 
L 7 HOH A 19 719 74 HOH HOH . 
L 7 HOH A 20 720 1 HOH HOH . 
L 7 HOH A 21 721 47 HOH HOH . 
L 7 HOH A 22 722 51 HOH HOH . 
L 7 HOH A 23 723 43 HOH HOH . 
L 7 HOH A 24 724 28 HOH HOH . 
L 7 HOH A 25 725 30 HOH HOH . 
L 7 HOH A 26 726 14 HOH HOH . 
L 7 HOH A 27 727 42 HOH HOH . 
L 7 HOH A 28 728 29 HOH HOH . 
L 7 HOH A 29 729 23 HOH HOH . 
L 7 HOH A 30 730 75 HOH HOH . 
L 7 HOH A 31 731 70 HOH HOH . 
M 7 HOH B 1 501 13 HOH HOH . 
M 7 HOH B 2 502 54 HOH HOH . 
M 7 HOH B 3 503 21 HOH HOH . 
M 7 HOH B 4 504 17 HOH HOH . 
M 7 HOH B 5 505 26 HOH HOH . 
M 7 HOH B 6 506 4 HOH HOH . 
M 7 HOH B 7 507 11 HOH HOH . 
M 7 HOH B 8 508 60 HOH HOH . 
M 7 HOH B 9 509 48 HOH HOH . 
M 7 HOH B 10 510 49 HOH HOH . 
M 7 HOH B 11 511 6 HOH HOH . 
M 7 HOH B 12 512 3 HOH HOH . 
M 7 HOH B 13 513 67 HOH HOH . 
M 7 HOH B 14 514 44 HOH HOH . 
M 7 HOH B 15 515 52 HOH HOH . 
M 7 HOH B 16 516 20 HOH HOH . 
M 7 HOH B 17 517 8 HOH HOH . 
M 7 HOH B 18 518 22 HOH HOH . 
M 7 HOH B 19 519 34 HOH HOH . 
M 7 HOH B 20 520 31 HOH HOH . 
M 7 HOH B 21 521 5 HOH HOH . 
M 7 HOH B 22 522 39 HOH HOH . 
M 7 HOH B 23 523 73 HOH HOH . 
M 7 HOH B 24 524 41 HOH HOH . 
M 7 HOH B 25 525 69 HOH HOH . 
M 7 HOH B 26 526 57 HOH HOH . 
M 7 HOH B 27 527 72 HOH HOH . 
M 7 HOH B 28 528 32 HOH HOH . 
M 7 HOH B 29 529 40 HOH HOH . 
N 7 HOH C 1 701 65 HOH HOH . 
N 7 HOH C 2 702 71 HOH HOH . 
N 7 HOH C 3 703 27 HOH HOH . 
O 7 HOH D 1 501 38 HOH HOH . 
O 7 HOH D 2 502 59 HOH HOH . 
O 7 HOH D 3 503 56 HOH HOH . 
O 7 HOH D 4 504 66 HOH HOH . 
O 7 HOH D 5 505 53 HOH HOH . 
O 7 HOH D 6 506 62 HOH HOH . 
O 7 HOH D 7 507 36 HOH HOH . 
O 7 HOH D 8 508 37 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 C00 3LQ . . . H 5 -30.09 -34.634 8.31 1 57.5 ? C00 3LQ 604 A 1 
HETATM 2 C C01 3LQ . . . H 5 -30.247 -34.147 9.604 1 55.9 ? C01 3LQ 604 A 1 
HETATM 3 C C02 3LQ . . . H 5 -31.492 -34.091 10.173 1 58.65 ? C02 3LQ 604 A 1 
HETATM 4 C C03 3LQ . . . H 5 -32.607 -34.508 9.461 1 56.17 ? C03 3LQ 604 A 1 
HETATM 5 C C04 3LQ . . . H 5 -32.448 -35 8.189 1 52.91 ? C04 3LQ 604 A 1 
HETATM 6 C C05 3LQ . . . H 5 -31.197 -35.053 7.584 1 57.93 ? C05 3LQ 604 A 1 
HETATM 7 O O0A 3LQ . . . H 5 -33.538 -35.425 7.45 1 60.69 ? O0A 3LQ 604 A 1 
HETATM 8 O O0B 3LQ . . . H 5 -31.153 -35.556 6.315 1 63.39 ? O0B 3LQ 604 A 1 
HETATM 9 C C0D 3LQ . . . H 5 -29.854 -35.698 5.731 1 51.86 ? C0D 3LQ 604 A 1 
HETATM 10 C C0E 3LQ . . . H 5 -30.063 -36.353 4.385 1 69.03 ? C0E 3LQ 604 A 1 
HETATM 11 N N0H 3LQ . . . H 5 -30.815 -37.616 4.505 1 76 ? N0H 3LQ 604 A 1 
HETATM 12 C C0K 3LQ . . . H 5 -30.109 -38.789 4.696 1 77.83 ? C0K 3LQ 604 A 1 
HETATM 13 N N0M 3LQ . . . H 5 -30.883 -39.921 4.791 1 71.25 ? N0M 3LQ 604 A 1 
HETATM 14 C C0N 3LQ . . . H 5 -32.262 -39.987 4.716 1 69.25 ? C0N 3LQ 604 A 1 
HETATM 15 C C0O 3LQ . . . H 5 -32.908 -38.722 4.516 1 74.01 ? C0O 3LQ 604 A 1 
HETATM 16 C C0P 3LQ . . . H 5 -32.177 -37.619 4.42 1 68.69 ? C0P 3LQ 604 A 1 
HETATM 17 O O0Q 3LQ . . . H 5 -28.892 -38.824 4.773 1 86.04 ? O0Q 3LQ 604 A 1 
HETATM 18 O O0S 3LQ . . . H 5 -32.826 -41.078 4.82 1 68.89 ? O0S 3LQ 604 A 1 
HETATM 19 C CAH 3LQ . . . H 5 -34.326 -34.506 6.755 1 64.95 ? CAH 3LQ 604 A 1 
HETATM 20 C CAI 3LQ . . . H 5 -35.565 -35.012 6.326 1 61.65 ? CAI 3LQ 604 A 1 
HETATM 21 C CAY 3LQ . . . H 5 -36.008 -36.319 6.642 1 61.88 ? CAY 3LQ 604 A 1 
HETATM 22 C CAZ 3LQ . . . H 5 -37.237 -36.742 6.222 1 70.35 ? CAZ 3LQ 604 A 1 
HETATM 23 C CBA 3LQ . . . H 5 -38.089 -35.879 5.5 1 72.7 ? CBA 3LQ 604 A 1 
HETATM 24 C CBC 3LQ . . . H 5 -39.378 -36.369 5.071 1 64.15 ? CBC 3LQ 604 A 1 
HETATM 25 N NBD 3LQ . . . H 5 -40.432 -36.724 4.798 1 78.68 ? NBD 3LQ 604 A 1 
HETATM 26 C CBB 3LQ . . . H 5 -37.692 -34.603 5.189 1 67.8 ? CBB 3LQ 604 A 1 
HETATM 27 C CAJ 3LQ . . . H 5 -36.427 -34.144 5.605 1 65.05 ? CAJ 3LQ 604 A 1 
HETATM 28 C CAK 3LQ . . . H 5 -35.984 -32.83 5.302 1 62.37 ? CAK 3LQ 604 A 1 
HETATM 29 C CAL 3LQ . . . H 5 -34.759 -32.411 5.714 1 55.2 ? CAL 3LQ 604 A 1 
HETATM 30 C CAM 3LQ . . . H 5 -33.907 -33.259 6.442 1 62.61 ? CAM 3LQ 604 A 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    35 
_model_server_stats.query_time_ms           346 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           30 
#