data_8YH6
#
_model_server_result.job_id            MBgJ6Nfaz0_4mvuwnC6FgA 
_model_server_result.datetime_utc      '2024-12-01 02:07:02' 
_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          8yh6 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":801}' 
#
_entry.id    8YH6 
#
_exptl.entry_id    8YH6 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              544.731 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            namodenoson 
_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            8YH6 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8YH6 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    pentameric 
_pdbx_struct_assembly.oligomeric_count      5 
_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,E,F 
_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                      5 
_struct_asym.id                             F 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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
disulf ? disulf1 C SG CYS 22 S CYS 22 1_555 C SG CYS 96 S CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf2 C SG CYS 159 S CYS 147 1_555 C SG CYS 229 S CYS 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? 
disulf ? disulf3 D SG CYS 108 R CYS 83 1_555 D SG CYS 190 R CYS 165 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
#
_chem_comp.formula           'C18 H18 Cl I N6 O4' 
_chem_comp.formula_weight    544.731 
_chem_comp.id                XS0 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              namodenoson 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     (2~{S},3~{S},4~{R},5~{R})-5-[2-chloranyl-6-[(3-iodanylphenyl)methylamino]purin-9-yl]-~{N}-methyl-3,4-bis(oxidanyl)oxolane-2-carboxamide;CF102;Cl-IB-MECA 
#
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
C25 C26 XS0 doub 374 n y 
C25 C24 XS0 sing 375 n y 
C26 C27 XS0 sing 376 n y 
I28 C24 XS0 sing 377 n n 
C24 C23 XS0 doub 378 n y 
C27 C22 XS0 doub 379 n y 
C23 C22 XS0 sing 380 n y 
C22 C21 XS0 sing 381 n n 
C21 N20 XS0 sing 382 n n 
N20 C14 XS0 sing 383 n n 
N15 C14 XS0 doub 384 n y 
N15 C16 XS0 sing 385 n y 
C14 C13 XS0 sing 386 n y 
CL19 C16 XS0 sing 387 n n 
C16 N17 XS0 doub 388 n y 
C13 N12 XS0 sing 389 n y 
C13 C18 XS0 doub 390 n y 
N12 C11 XS0 doub 391 n y 
N17 C18 XS0 sing 392 n y 
C18 N10 XS0 sing 393 n y 
C11 N10 XS0 sing 394 n y 
N10 C08 XS0 sing 395 n n 
C08 O09 XS0 sing 396 n n 
C08 C07 XS0 sing 397 n n 
O09 C05 XS0 sing 398 n n 
C05 C03 XS0 sing 399 n n 
C05 C06 XS0 sing 400 n n 
C07 O29 XS0 sing 401 n n 
C07 C06 XS0 sing 402 n n 
O04 C03 XS0 doub 403 n n 
C03 N02 XS0 sing 404 n n 
N02 C01 XS0 sing 405 n n 
C06 O30 XS0 sing 406 n n 
C21 H1 XS0 sing 407 n n 
C21 H2 XS0 sing 408 n n 
C26 H3 XS0 sing 409 n n 
C01 H4 XS0 sing 410 n n 
C01 H5 XS0 sing 411 n n 
C01 H6 XS0 sing 412 n n 
N02 H7 XS0 sing 413 n n 
C05 H8 XS0 sing 414 n n 
C06 H9 XS0 sing 415 n n 
C07 H10 XS0 sing 416 n n 
C08 H11 XS0 sing 417 n n 
C11 H12 XS0 sing 418 n n 
N20 H13 XS0 sing 419 n n 
C23 H14 XS0 sing 420 n n 
C25 H15 XS0 sing 421 n n 
C27 H16 XS0 sing 422 n n 
O29 H17 XS0 sing 423 n n 
O30 H18 XS0 sing 424 n n 
#
_atom_sites.entry_id                     8YH6 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
_pdbx_nonpoly_scheme.asym_id          F 
_pdbx_nonpoly_scheme.entity_id        5 
_pdbx_nonpoly_scheme.mon_id           XS0 
_pdbx_nonpoly_scheme.pdb_strand_id    R 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      801 
_pdbx_nonpoly_scheme.auth_seq_num     301 
_pdbx_nonpoly_scheme.pdb_mon_id       XS0 
_pdbx_nonpoly_scheme.auth_mon_id      nam 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
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 N12 XS0 . . . F 5 114.573 120.535 80.241 1 20 ? N12 XS0 801 R 1 
HETATM 2 C C13 XS0 . . . F 5 113.282 120.733 79.779 1 20 ? C13 XS0 801 R 1 
HETATM 3 C C21 XS0 . . . F 5 113.081 121.405 76.109 1 20 ? C21 XS0 801 R 1 
HETATM 4 C C22 XS0 . . . F 5 114.189 122.176 75.434 1 20 ? C22 XS0 801 R 1 
HETATM 5 C C24 XS0 . . . F 5 115.022 123.499 73.608 1 20 ? C24 XS0 801 R 1 
HETATM 6 C C26 XS0 . . . F 5 116.433 123.051 75.47 1 20 ? C26 XS0 801 R 1 
HETATM 7 CL CL19 XS0 . . . F 5 109.048 121.608 79.248 1 20 ? CL19 XS0 801 R 1 
HETATM 8 C C01 XS0 . . . F 5 117.429 120.547 85.969 1 20 ? C01 XS0 801 R 1 
HETATM 9 N N02 XS0 . . . F 5 116.109 120.744 85.402 1 20 ? N02 XS0 801 R 1 
HETATM 10 C C03 XS0 . . . F 5 115.009 120.668 86.138 1 20 ? C03 XS0 801 R 1 
HETATM 11 O O04 XS0 . . . F 5 115.02 120.409 87.336 1 20 ? O04 XS0 801 R 1 
HETATM 12 C C05 XS0 . . . F 5 113.69 120.9 85.42 1 20 ? C05 XS0 801 R 1 
HETATM 13 C C06 XS0 . . . F 5 112.865 119.62 85.269 1 20 ? C06 XS0 801 R 1 
HETATM 14 C C07 XS0 . . . F 5 112.009 119.905 84.026 1 20 ? C07 XS0 801 R 1 
HETATM 15 C C08 XS0 . . . F 5 112.75 121.06 83.338 1 20 ? C08 XS0 801 R 1 
HETATM 16 O O09 XS0 . . . F 5 113.92 121.325 84.084 1 20 ? O09 XS0 801 R 1 
HETATM 17 N N10 XS0 . . . F 5 113.163 120.788 81.97 1 20 ? N10 XS0 801 R 1 
HETATM 18 C C11 XS0 . . . F 5 114.446 120.577 81.542 1 20 ? C11 XS0 801 R 1 
HETATM 19 C C14 XS0 . . . F 5 112.751 120.911 78.498 1 20 ? C14 XS0 801 R 1 
HETATM 20 N N15 XS0 . . . F 5 111.44 121.163 78.367 1 20 ? N15 XS0 801 R 1 
HETATM 21 C C16 XS0 . . . F 5 110.73 121.259 79.483 1 20 ? C16 XS0 801 R 1 
HETATM 22 N N17 XS0 . . . F 5 111.097 121.133 80.746 1 20 ? N17 XS0 801 R 1 
HETATM 23 C C18 XS0 . . . F 5 112.403 120.884 80.831 1 20 ? C18 XS0 801 R 1 
HETATM 24 N N20 XS0 . . . F 5 113.529 120.935 77.407 1 20 ? N20 XS0 801 R 1 
HETATM 25 C C23 XS0 . . . F 5 114 122.773 74.193 1 20 ? C23 XS0 801 R 1 
HETATM 26 C C25 XS0 . . . F 5 116.241 123.643 74.235 1 20 ? C25 XS0 801 R 1 
HETATM 27 C C27 XS0 . . . F 5 115.416 122.324 76.064 1 20 ? C27 XS0 801 R 1 
HETATM 28 O O29 XS0 . . . F 5 110.688 120.303 84.377 1 20 ? O29 XS0 801 R 1 
HETATM 29 O O30 XS0 . . . F 5 112.049 119.424 86.417 1 20 ? O30 XS0 801 R 1 
HETATM 30 I I28 XS0 . . . F 5 114.683 124.47 71.776 1 20 ? I28 XS0 801 R 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           502 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           30 
#