data_1N5V
#
_model_server_result.job_id            RogT0K7quIP3et52duUA7g 
_model_server_result.datetime_utc      '2025-02-27 02:24:56' 
_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          1n5v 
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_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1001}' 
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_entry.id    1N5V 
#
_exptl.entry_id    1N5V 
_exptl.method      'X-RAY DIFFRACTION' 
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_entity.details                     ? 
_entity.formula_weight              300.263 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            7-HYDROXY-5-METHYL-3,3A,5,11B-TETRAHYDRO-1,4-DIOXA-CYCLOPENTA[A]ANTHRACENE-2,6,11-TRIONE 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            1N5V 
_cell.length_a            47.389 
_cell.length_b            59.921 
_cell.length_c            71.597 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
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_symmetry.entry_id                 1N5V 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
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_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
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_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1 
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_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                      2 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C16 H12 O6' 
_chem_comp.formula_weight    300.263 
_chem_comp.id                NOM 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              7-HYDROXY-5-METHYL-3,3A,5,11B-TETRAHYDRO-1,4-DIOXA-CYCLOPENTA[A]ANTHRACENE-2,6,11-TRIONE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'NANAOMYCIN D' 
#
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
C1 C2 NOM doub 224 n y 
C1 C6 NOM sing 225 n y 
C1 HC1 NOM sing 226 n n 
C2 C3 NOM sing 227 n y 
C2 HC2 NOM sing 228 n n 
C3 C4 NOM doub 229 n y 
C3 C10 NOM sing 230 n n 
C4 C5 NOM sing 231 n y 
C4 C7 NOM sing 232 n n 
C5 C6 NOM doub 233 n y 
C5 O2 NOM sing 234 n n 
C6 HC6 NOM sing 235 n n 
C10 C9 NOM sing 236 n n 
C10 O4 NOM doub 237 n n 
C9 C8 NOM doub 238 n n 
C9 C13 NOM sing 239 n n 
C8 C7 NOM sing 240 n n 
C8 C11 NOM sing 241 n n 
C7 O3 NOM doub 242 n n 
O2 HO2 NOM sing 243 n n 
C13 C14 NOM sing 244 n n 
C13 O6 NOM sing 245 n n 
C13 HC13 NOM sing 246 n n 
C14 O1 NOM sing 247 n n 
C14 C15 NOM sing 248 n n 
C14 HC14 NOM sing 249 n n 
O1 C11 NOM sing 250 n n 
C11 C12 NOM sing 251 n n 
C11 HC11 NOM sing 252 n n 
C12 H121 NOM sing 253 n n 
C12 H122 NOM sing 254 n n 
C12 H123 NOM sing 255 n n 
C15 C16 NOM sing 256 n n 
C15 H151 NOM sing 257 n n 
C15 H152 NOM sing 258 n n 
C16 O5 NOM doub 259 n n 
C16 O6 NOM sing 260 n n 
#
_atom_sites.entry_id                     1N5V 
_atom_sites.fract_transf_matrix[1][1]    0.021102 
_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]    0.016689 
_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]    0.013967 
_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 NOM A 1 1001 1 NOM NAN . 
D 3 HOH A 1 1002 1 HOH HOH . 
D 3 HOH A 2 1003 5 HOH HOH . 
D 3 HOH A 3 1004 8 HOH HOH . 
D 3 HOH A 4 1005 9 HOH HOH . 
D 3 HOH A 5 1006 12 HOH HOH . 
D 3 HOH A 6 1007 15 HOH HOH . 
D 3 HOH A 7 1008 17 HOH HOH . 
D 3 HOH A 8 1009 19 HOH HOH . 
D 3 HOH A 9 1010 20 HOH HOH . 
D 3 HOH A 10 1011 22 HOH HOH . 
D 3 HOH A 11 1012 23 HOH HOH . 
D 3 HOH A 12 1013 24 HOH HOH . 
D 3 HOH A 13 1014 25 HOH HOH . 
D 3 HOH A 14 1015 26 HOH HOH . 
D 3 HOH A 15 1016 28 HOH HOH . 
D 3 HOH A 16 1017 29 HOH HOH . 
D 3 HOH A 17 1018 30 HOH HOH . 
D 3 HOH A 18 1019 33 HOH HOH . 
D 3 HOH A 19 1020 34 HOH HOH . 
D 3 HOH A 20 1021 35 HOH HOH . 
D 3 HOH A 21 1022 37 HOH HOH . 
D 3 HOH A 22 1023 38 HOH HOH . 
D 3 HOH A 23 1024 39 HOH HOH . 
D 3 HOH A 24 1025 40 HOH HOH . 
D 3 HOH A 25 1026 41 HOH HOH . 
D 3 HOH A 26 1027 42 HOH HOH . 
D 3 HOH A 27 1028 43 HOH HOH . 
D 3 HOH A 28 1029 44 HOH HOH . 
D 3 HOH A 29 1030 47 HOH HOH . 
D 3 HOH A 30 1031 49 HOH HOH . 
D 3 HOH A 31 1032 50 HOH HOH . 
D 3 HOH A 32 1033 54 HOH HOH . 
D 3 HOH A 33 1034 55 HOH HOH . 
D 3 HOH A 34 1035 57 HOH HOH . 
D 3 HOH A 35 1036 58 HOH HOH . 
D 3 HOH A 36 1037 60 HOH HOH . 
E 3 HOH B 1 114 2 HOH HOH . 
E 3 HOH B 2 115 3 HOH HOH . 
E 3 HOH B 3 116 4 HOH HOH . 
E 3 HOH B 4 117 6 HOH HOH . 
E 3 HOH B 5 118 7 HOH HOH . 
E 3 HOH B 6 119 10 HOH HOH . 
E 3 HOH B 7 120 11 HOH HOH . 
E 3 HOH B 8 121 13 HOH HOH . 
E 3 HOH B 9 122 14 HOH HOH . 
E 3 HOH B 10 123 16 HOH HOH . 
E 3 HOH B 11 124 18 HOH HOH . 
E 3 HOH B 12 125 21 HOH HOH . 
E 3 HOH B 13 126 27 HOH HOH . 
E 3 HOH B 14 127 31 HOH HOH . 
E 3 HOH B 15 128 32 HOH HOH . 
E 3 HOH B 16 129 36 HOH HOH . 
E 3 HOH B 17 130 45 HOH HOH . 
E 3 HOH B 18 131 46 HOH HOH . 
E 3 HOH B 19 132 48 HOH HOH . 
E 3 HOH B 20 133 51 HOH HOH . 
E 3 HOH B 21 134 52 HOH HOH . 
E 3 HOH B 22 135 53 HOH HOH . 
E 3 HOH B 23 136 56 HOH HOH . 
E 3 HOH B 24 137 59 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 C1 NOM . . . C 2 49.688 37.069 10.11 1 50.75 ? C1 NOM 1001 A 1 
HETATM 2 C C2 NOM . . . C 2 49.017 38.049 10.821 1 50.41 ? C2 NOM 1001 A 1 
HETATM 3 C C3 NOM . . . C 2 48.061 37.67 11.757 1 50.77 ? C3 NOM 1001 A 1 
HETATM 4 C C4 NOM . . . C 2 47.752 36.328 12.02 1 50.49 ? C4 NOM 1001 A 1 
HETATM 5 C C5 NOM . . . C 2 48.453 35.367 11.293 1 51.23 ? C5 NOM 1001 A 1 
HETATM 6 C C6 NOM . . . C 2 49.422 35.731 10.362 1 50.92 ? C6 NOM 1001 A 1 
HETATM 7 C C10 NOM . . . C 2 47.347 38.664 12.497 1 50.93 ? C10 NOM 1001 A 1 
HETATM 8 C C9 NOM . . . C 2 46.357 38.302 13.468 1 49.32 ? C9 NOM 1001 A 1 
HETATM 9 C C8 NOM . . . C 2 46.041 36.958 13.745 1 48.37 ? C8 NOM 1001 A 1 
HETATM 10 C C7 NOM . . . C 2 46.765 35.958 12.996 1 48.39 ? C7 NOM 1001 A 1 
HETATM 11 O O3 NOM . . . C 2 46.477 34.799 13.24 1 46.86 ? O3 NOM 1001 A 1 
HETATM 12 O O4 NOM . . . C 2 47.544 39.866 12.337 1 52.18 ? O4 NOM 1001 A 1 
HETATM 13 O O2 NOM . . . C 2 48.171 34.033 11.486 1 51.44 ? O2 NOM 1001 A 1 
HETATM 14 C C13 NOM . . . C 2 45.718 39.342 14.143 1 50.64 ? C13 NOM 1001 A 1 
HETATM 15 C C14 NOM . . . C 2 44.416 38.926 14.87 1 51.02 ? C14 NOM 1001 A 1 
HETATM 16 O O1 NOM . . . C 2 44.374 37.651 15.422 1 49.84 ? O1 NOM 1001 A 1 
HETATM 17 C C11 NOM . . . C 2 45.077 36.662 14.689 1 48.27 ? C11 NOM 1001 A 1 
HETATM 18 C C12 NOM . . . C 2 44.378 35.33 14.774 1 45.66 ? C12 NOM 1001 A 1 
HETATM 19 C C15 NOM . . . C 2 43.994 40.072 15.763 1 52.2 ? C15 NOM 1001 A 1 
HETATM 20 C C16 NOM . . . C 2 44.769 41.271 15.151 1 54.98 ? C16 NOM 1001 A 1 
HETATM 21 O O5 NOM . . . C 2 44.493 42.408 15.562 1 57.77 ? O5 NOM 1001 A 1 
HETATM 22 O O6 NOM . . . C 2 45.63 41.034 14.292 1 53.41 ? O6 NOM 1001 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           346 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           22 
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