data_4KYA
#
_model_server_result.job_id            R89hX-e3NXH7q0jOu1qUGA 
_model_server_result.datetime_utc      '2025-06-25 13:35:35' 
_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          4kya 
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_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Z","auth_seq_id":702}' 
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_entry.id    4KYA 
#
_exptl.entry_id    4KYA 
_exptl.method      'X-RAY DIFFRACTION' 
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_entity.details                     ? 
_entity.formula_weight              358.416 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            2-Amino-5-(1-naphthylsulfanyl)-3,9-dihydro-4H-pyrimido[4,5-b]indol-4-one 
_entity.pdbx_number_of_molecules    8 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90.07 
_cell.angle_beta          89.96 
_cell.angle_gamma         90.07 
_cell.entry_id            4KYA 
_cell.length_a            53.531 
_cell.length_b            145.079 
_cell.length_c            176.614 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
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_symmetry.entry_id                 4KYA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 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 
PISA dimeric 2 author_and_software_defined_assembly 3 
PISA dimeric 2 author_and_software_defined_assembly 4 
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loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,I,J,K,L,M,N,O,P 1 1 
C,D,Q,R,S,T,U,V,W,X 2 1 
E,F,Y,Z,AA,BA,CA,DA,EA,FA 3 1 
G,H,GA,HA,IA,JA,KA,LA,MA,NA 4 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 J N N 
? 3 N N N 
? 3 R N N 
? 3 V N N 
? 3 Z N N 
? 3 DA N N 
? 3 HA N N 
? 3 LA N N 
#
_chem_comp.formula           'C20 H14 N4 O S' 
_chem_comp.formula_weight    358.416 
_chem_comp.id                1UG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              2-Amino-5-(1-naphthylsulfanyl)-3,9-dihydro-4H-pyrimido[4,5-b]indol-4-one 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
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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
CAK CAF 1UG doub 1 n y 
CAK CAV 1UG sing 2 n y 
NAO CAV 1UG sing 3 n y 
NAO CAW 1UG sing 4 n y 
CAF CAH 1UG sing 5 n y 
CAV CAY 1UG doub 6 n y 
CAW NAM 1UG sing 7 n n 
CAW CAZ 1UG doub 8 n y 
NAM CAQ 1UG doub 9 n n 
CAH CAS 1UG doub 10 n y 
CAY CAZ 1UG sing 11 n y 
CAY CAS 1UG sing 12 n y 
CAZ CAT 1UG sing 13 n n 
CAS SAP 1UG sing 14 n n 
CAQ NAA 1UG sing 15 n n 
CAQ NAN 1UG sing 16 n n 
CAT NAN 1UG sing 17 n n 
CAT OAB 1UG doub 18 n n 
CAG CAE 1UG doub 19 n y 
CAG CAR 1UG sing 20 n y 
SAP CAR 1UG sing 21 n n 
CAE CAJ 1UG sing 22 n y 
CAR CAX 1UG doub 23 n y 
CAJ CAU 1UG doub 24 n y 
CAX CAU 1UG sing 25 n y 
CAX CAL 1UG sing 26 n y 
CAU CAI 1UG sing 27 n y 
CAL CAD 1UG doub 28 n y 
CAI CAC 1UG doub 29 n y 
CAD CAC 1UG sing 30 n y 
CAG H1 1UG sing 31 n n 
CAE H2 1UG sing 32 n n 
CAJ H3 1UG sing 33 n n 
CAI H4 1UG sing 34 n n 
CAC H5 1UG sing 35 n n 
CAD H6 1UG sing 36 n n 
CAL H7 1UG sing 37 n n 
NAN H8 1UG sing 38 n n 
NAA H9 1UG sing 39 n n 
NAA H10 1UG sing 40 n n 
NAO H11 1UG sing 41 n n 
CAK H12 1UG sing 42 n n 
CAF H13 1UG sing 43 n n 
CAH H14 1UG sing 44 n n 
#
_atom_sites.entry_id                     4KYA 
_atom_sites.fract_transf_matrix[1][1]    0.018681 
_atom_sites.fract_transf_matrix[1][2]    0.000023 
_atom_sites.fract_transf_matrix[1][3]    -0.000013 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006893 
_atom_sites.fract_transf_matrix[2][3]    0.000008 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.005662 
_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
I 2 UMP A 1 701 701 UMP UMP . 
J 3 1UG A 1 702 702 1UG 1UG . 
K 4 FOL A 1 703 703 FOL FOL . 
L 5 NDP A 1 704 704 NDP NDP . 
M 2 UMP B 1 701 701 UMP UMP . 
N 3 1UG B 1 702 702 1UG 1UG . 
O 4 FOL B 1 703 703 FOL FOL . 
P 5 NDP B 1 704 704 NDP NDP . 
Q 2 UMP C 1 701 701 UMP UMP . 
R 3 1UG C 1 702 702 1UG 1UG . 
S 4 FOL C 1 703 703 FOL FOL . 
T 5 NDP C 1 704 704 NDP NDP . 
U 2 UMP D 1 701 701 UMP UMP . 
V 3 1UG D 1 702 702 1UG 1UG . 
W 4 FOL D 1 703 703 FOL FOL . 
X 5 NDP D 1 704 704 NDP NDP . 
Y 2 UMP E 1 701 701 UMP UMP . 
Z 3 1UG E 1 702 702 1UG 1UG . 
AA 4 FOL E 1 703 703 FOL FOL . 
BA 5 NDP E 1 704 704 NDP NDP . 
CA 2 UMP F 1 701 701 UMP UMP . 
DA 3 1UG F 1 702 702 1UG 1UG . 
EA 4 FOL F 1 703 703 FOL FOL . 
FA 5 NDP F 1 704 704 NDP NDP . 
GA 2 UMP G 1 701 701 UMP UMP . 
HA 3 1UG G 1 702 702 1UG 1UG . 
IA 4 FOL G 1 703 703 FOL FOL . 
JA 5 NDP G 1 704 704 NDP NDP . 
KA 2 UMP H 1 701 701 UMP UMP . 
LA 3 1UG H 1 702 702 1UG 1UG . 
MA 4 FOL H 1 703 703 FOL FOL . 
NA 5 NDP H 1 704 704 NDP NDP . 
#
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 CAG 1UG . . . Z 3 5.361 -86.733 -36.011 1 90.17 ? CAG 1UG 702 E 1 
HETATM 2 C CAE 1UG . . . Z 3 5.444 -88.063 -36.356 1 93.41 ? CAE 1UG 702 E 1 
HETATM 3 C CAJ 1UG . . . Z 3 6.536 -88.838 -36.018 1 95.22 ? CAJ 1UG 702 E 1 
HETATM 4 C CAU 1UG . . . Z 3 7.579 -88.298 -35.316 1 100.41 ? CAU 1UG 702 E 1 
HETATM 5 C CAI 1UG . . . Z 3 8.639 -89.164 -35.018 1 98.31 ? CAI 1UG 702 E 1 
HETATM 6 C CAC 1UG . . . Z 3 9.716 -88.683 -34.318 1 102.26 ? CAC 1UG 702 E 1 
HETATM 7 C CAD 1UG . . . Z 3 9.659 -87.353 -33.959 1 109.63 ? CAD 1UG 702 E 1 
HETATM 8 C CAL 1UG . . . Z 3 8.607 -86.476 -34.248 1 111.5 ? CAL 1UG 702 E 1 
HETATM 9 C CAX 1UG . . . Z 3 7.514 -86.944 -34.954 1 102.67 ? CAX 1UG 702 E 1 
HETATM 10 C CAR 1UG . . . Z 3 6.391 -86.149 -35.3 1 92.82 ? CAR 1UG 702 E 1 
HETATM 11 S SAP 1UG . . . Z 3 6.108 -84.442 -34.957 1 96.33 ? SAP 1UG 702 E 1 
HETATM 12 C CAS 1UG . . . Z 3 6.147 -84.194 -33.122 1 114.76 ? CAS 1UG 702 E 1 
HETATM 13 C CAY 1UG . . . Z 3 7.245 -83.653 -32.527 1 115.56 ? CAY 1UG 702 E 1 
HETATM 14 C CAZ 1UG . . . Z 3 8.45 -83.21 -32.987 1 107.14 ? CAZ 1UG 702 E 1 
HETATM 15 C CAT 1UG . . . Z 3 9.036 -83.123 -34.21 1 101.97 ? CAT 1UG 702 E 1 
HETATM 16 O OAB 1UG . . . Z 3 8.49 -83.486 -35.251 1 99.66 ? OAB 1UG 702 E 1 
HETATM 17 N NAN 1UG . . . Z 3 10.327 -82.603 -34.352 1 94.83 ? NAN 1UG 702 E 1 
HETATM 18 C CAQ 1UG . . . Z 3 11.007 -82.174 -33.224 1 84.64 ? CAQ 1UG 702 E 1 
HETATM 19 N NAA 1UG . . . Z 3 12.229 -81.678 -33.341 1 75.4 ? NAA 1UG 702 E 1 
HETATM 20 N NAM 1UG . . . Z 3 10.397 -82.273 -32.037 1 87.37 ? NAM 1UG 702 E 1 
HETATM 21 C CAW 1UG . . . Z 3 9.153 -82.778 -31.922 1 101.17 ? CAW 1UG 702 E 1 
HETATM 22 N NAO 1UG . . . Z 3 8.413 -82.946 -30.834 1 107.94 ? NAO 1UG 702 E 1 
HETATM 23 C CAV 1UG . . . Z 3 7.242 -83.48 -31.18 1 117.89 ? CAV 1UG 702 E 1 
HETATM 24 C CAK 1UG . . . Z 3 6.193 -83.817 -30.399 1 116.58 ? CAK 1UG 702 E 1 
HETATM 25 C CAF 1UG . . . Z 3 5.046 -84.368 -30.958 1 112 ? CAF 1UG 702 E 1 
HETATM 26 C CAH 1UG . . . Z 3 5.032 -84.552 -32.336 1 112.62 ? CAH 1UG 702 E 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    289 
_model_server_stats.query_time_ms           338 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           26 
#