data_4D9H
#
_model_server_result.job_id            ICPN20rvHabRz70qz-1H3A 
_model_server_result.datetime_utc      '2024-11-07 18:54:38' 
_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          4d9h 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":301}' 
#
_entry.id    4D9H 
#
_exptl.entry_id    4D9H 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              267.241 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ADENOSINE 
_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         120 
_cell.entry_id            4D9H 
_cell.length_a            135.724 
_cell.length_b            135.724 
_cell.length_c            56.098 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4D9H 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        150 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 3 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_665 -y+1,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 67.862 117.540432 0 
3 'crystal symmetry operation' 3_565 -x+y,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -67.862 117.540432 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           'C10 H13 N5 O4' 
_chem_comp.formula_weight    267.241 
_chem_comp.id                ADN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              ADENOSINE 
_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
O5' C5' ADN sing 1 n n 
O5' HO5' ADN sing 2 n n 
C5' C4' ADN sing 3 n n 
C5' "H5'1" ADN sing 4 n n 
C5' "H5'2" ADN sing 5 n n 
C4' O4' ADN sing 6 n n 
C4' C3' ADN sing 7 n n 
C4' H4' ADN sing 8 n n 
O4' C1' ADN sing 9 n n 
C3' O3' ADN sing 10 n n 
C3' C2' ADN sing 11 n n 
C3' H3' ADN sing 12 n n 
O3' HO3' ADN sing 13 n n 
C2' O2' ADN sing 14 n n 
C2' C1' ADN sing 15 n n 
C2' H2' ADN sing 16 n n 
O2' HO2' ADN sing 17 n n 
C1' N9 ADN sing 18 n n 
C1' H1' ADN sing 19 n n 
N9 C8 ADN sing 20 n y 
N9 C4 ADN sing 21 n y 
C8 N7 ADN doub 22 n y 
C8 H8 ADN sing 23 n n 
N7 C5 ADN sing 24 n y 
C5 C6 ADN sing 25 n y 
C5 C4 ADN doub 26 n y 
C6 N6 ADN sing 27 n n 
C6 N1 ADN doub 28 n y 
N6 HN61 ADN sing 29 n n 
N6 HN62 ADN sing 30 n n 
N1 C2 ADN sing 31 n y 
C2 N3 ADN doub 32 n y 
C2 H2 ADN sing 33 n n 
N3 C4 ADN sing 34 n y 
#
_atom_sites.entry_id                     4D9H 
_atom_sites.fract_transf_matrix[1][1]    0.007368 
_atom_sites.fract_transf_matrix[1][2]    0.004254 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008508 
_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]    0.017826 
_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 ADN A 1 301 1 ADN ADN . 
D 3 HOH A 1 401 2 HOH HOH . 
D 3 HOH A 2 402 4 HOH HOH . 
D 3 HOH A 3 403 8 HOH HOH . 
D 3 HOH A 4 404 10 HOH HOH . 
D 3 HOH A 5 405 12 HOH HOH . 
D 3 HOH A 6 406 16 HOH HOH . 
D 3 HOH A 7 407 20 HOH HOH . 
D 3 HOH A 8 408 22 HOH HOH . 
D 3 HOH A 9 409 27 HOH HOH . 
D 3 HOH A 10 410 29 HOH HOH . 
D 3 HOH A 11 411 32 HOH HOH . 
D 3 HOH A 12 412 33 HOH HOH . 
D 3 HOH A 13 413 36 HOH HOH . 
D 3 HOH A 14 414 37 HOH HOH . 
D 3 HOH A 15 415 39 HOH HOH . 
D 3 HOH A 16 416 45 HOH HOH . 
D 3 HOH A 17 417 47 HOH HOH . 
D 3 HOH A 18 418 50 HOH HOH . 
D 3 HOH A 19 419 51 HOH HOH . 
D 3 HOH A 20 420 52 HOH HOH . 
D 3 HOH A 21 421 53 HOH HOH . 
D 3 HOH A 22 422 54 HOH HOH . 
D 3 HOH A 23 423 58 HOH HOH . 
D 3 HOH A 24 424 63 HOH HOH . 
D 3 HOH A 25 425 68 HOH HOH . 
D 3 HOH A 26 426 69 HOH HOH . 
D 3 HOH A 27 427 70 HOH HOH . 
D 3 HOH A 28 428 73 HOH HOH . 
D 3 HOH A 29 429 76 HOH HOH . 
D 3 HOH A 30 430 77 HOH HOH . 
D 3 HOH A 31 431 78 HOH HOH . 
D 3 HOH A 32 432 82 HOH HOH . 
D 3 HOH A 33 433 84 HOH HOH . 
D 3 HOH A 34 434 87 HOH HOH . 
D 3 HOH A 35 435 91 HOH HOH . 
D 3 HOH A 36 436 92 HOH HOH . 
D 3 HOH A 37 437 93 HOH HOH . 
D 3 HOH A 38 438 97 HOH HOH . 
D 3 HOH A 39 439 98 HOH HOH . 
E 3 HOH B 1 301 3 HOH HOH . 
E 3 HOH B 2 302 5 HOH HOH . 
E 3 HOH B 3 303 6 HOH HOH . 
E 3 HOH B 4 304 7 HOH HOH . 
E 3 HOH B 5 305 9 HOH HOH . 
E 3 HOH B 6 306 11 HOH HOH . 
E 3 HOH B 7 307 13 HOH HOH . 
E 3 HOH B 8 308 14 HOH HOH . 
E 3 HOH B 9 309 15 HOH HOH . 
E 3 HOH B 10 310 17 HOH HOH . 
E 3 HOH B 11 311 18 HOH HOH . 
E 3 HOH B 12 312 19 HOH HOH . 
E 3 HOH B 13 313 21 HOH HOH . 
E 3 HOH B 14 314 23 HOH HOH . 
E 3 HOH B 15 315 24 HOH HOH . 
E 3 HOH B 16 316 25 HOH HOH . 
E 3 HOH B 17 317 26 HOH HOH . 
E 3 HOH B 18 318 28 HOH HOH . 
E 3 HOH B 19 319 30 HOH HOH . 
E 3 HOH B 20 320 31 HOH HOH . 
E 3 HOH B 21 321 34 HOH HOH . 
E 3 HOH B 22 322 35 HOH HOH . 
E 3 HOH B 23 323 38 HOH HOH . 
E 3 HOH B 24 324 40 HOH HOH . 
E 3 HOH B 25 325 41 HOH HOH . 
E 3 HOH B 26 326 42 HOH HOH . 
E 3 HOH B 27 327 43 HOH HOH . 
E 3 HOH B 28 328 44 HOH HOH . 
E 3 HOH B 29 329 46 HOH HOH . 
E 3 HOH B 30 330 48 HOH HOH . 
E 3 HOH B 31 331 49 HOH HOH . 
E 3 HOH B 32 332 55 HOH HOH . 
E 3 HOH B 33 333 56 HOH HOH . 
E 3 HOH B 34 334 57 HOH HOH . 
E 3 HOH B 35 335 59 HOH HOH . 
E 3 HOH B 36 336 60 HOH HOH . 
E 3 HOH B 37 337 61 HOH HOH . 
E 3 HOH B 38 338 62 HOH HOH . 
E 3 HOH B 39 339 64 HOH HOH . 
E 3 HOH B 40 340 65 HOH HOH . 
E 3 HOH B 41 341 66 HOH HOH . 
E 3 HOH B 42 342 67 HOH HOH . 
E 3 HOH B 43 343 71 HOH HOH . 
E 3 HOH B 44 344 72 HOH HOH . 
E 3 HOH B 45 345 74 HOH HOH . 
E 3 HOH B 46 346 75 HOH HOH . 
E 3 HOH B 47 347 79 HOH HOH . 
E 3 HOH B 48 348 80 HOH HOH . 
E 3 HOH B 49 349 81 HOH HOH . 
E 3 HOH B 50 350 83 HOH HOH . 
E 3 HOH B 51 351 85 HOH HOH . 
E 3 HOH B 52 352 86 HOH HOH . 
E 3 HOH B 53 353 88 HOH HOH . 
E 3 HOH B 54 354 89 HOH HOH . 
E 3 HOH B 55 355 90 HOH HOH . 
E 3 HOH B 56 356 94 HOH HOH . 
E 3 HOH B 57 357 95 HOH HOH . 
E 3 HOH B 58 358 96 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 O O5' ADN . . . C 2 -6.279 51.064 22.962 0.5 31.41 ? O5' ADN 301 A 1 
HETATM 2 C C5' ADN . . . C 2 -6.003 52.068 21.991 0.5 31.47 ? C5' ADN 301 A 1 
HETATM 3 C C4' ADN . . . C 2 -7.24 52.379 21.156 0.5 30.87 ? C4' ADN 301 A 1 
HETATM 4 O O4' ADN . . . C 2 -8.475 52.393 21.878 0.5 30.45 ? O4' ADN 301 A 1 
HETATM 5 C C3' ADN . . . C 2 -7.094 53.706 20.46 0.5 30.17 ? C3' ADN 301 A 1 
HETATM 6 O O3' ADN . . . C 2 -7.033 53.43 19.065 0.5 30.69 ? O3' ADN 301 A 1 
HETATM 7 C C2' ADN . . . C 2 -8.353 54.464 20.758 0.5 28.61 ? C2' ADN 301 A 1 
HETATM 8 O O2' ADN . . . C 2 -9.004 54.625 19.514 0.5 26.3 ? O2' ADN 301 A 1 
HETATM 9 C C1' ADN . . . C 2 -9.185 53.61 21.698 0.5 30.27 ? C1' ADN 301 A 1 
HETATM 10 N N9 ADN . . . C 2 -9.242 54.163 23.066 0.5 32.09 ? N9 ADN 301 A 1 
HETATM 11 C C8 ADN . . . C 2 -9.977 53.615 24.051 0.5 31.06 ? C8 ADN 301 A 1 
HETATM 12 N N7 ADN . . . C 2 -9.817 54.304 25.197 0.5 32.06 ? N7 ADN 301 A 1 
HETATM 13 C C5 ADN . . . C 2 -8.956 55.308 24.97 0.5 30.57 ? C5 ADN 301 A 1 
HETATM 14 C C6 ADN . . . C 2 -8.361 56.411 25.756 0.5 30.23 ? C6 ADN 301 A 1 
HETATM 15 N N6 ADN . . . C 2 -8.646 56.586 27.062 0.5 30.16 ? N6 ADN 301 A 1 
HETATM 16 N N1 ADN . . . C 2 -7.509 57.25 25.14 0.5 30.6 ? N1 ADN 301 A 1 
HETATM 17 C C2 ADN . . . C 2 -7.198 57.11 23.849 0.5 31.09 ? C2 ADN 301 A 1 
HETATM 18 N N3 ADN . . . C 2 -7.698 56.13 23.08 0.5 31.44 ? N3 ADN 301 A 1 
HETATM 19 C C4 ADN . . . C 2 -8.565 55.207 23.564 0.5 31.69 ? C4 ADN 301 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           302 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           19 
#