data_6PU6
#
_model_server_result.job_id            o_JvcQZ13Pj2TgdHdTNubw 
_model_server_result.datetime_utc      '2024-10-20 12:43:12' 
_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          6pu6 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":401}' 
#
_entry.id    6PU6 
#
_exptl.entry_id    6PU6 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              358.284 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ALPHA-RIBAZOLE-5'-PHOSPHATE" 
_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          111.67 
_cell.angle_gamma         90 
_cell.entry_id            6PU6 
_cell.length_a            47.58 
_cell.length_b            139 
_cell.length_c            54.49 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6PU6 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_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 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G 
_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                      3 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C14 H19 N2 O7 P' 
_chem_comp.formula_weight    358.284 
_chem_comp.id                RBZ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "ALPHA-RIBAZOLE-5'-PHOSPHATE" 
_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
N3 C2 RBZ doub 328 n y 
N3 C3A RBZ sing 329 n y 
N1 C2 RBZ sing 330 n y 
N1 C7A RBZ sing 331 n y 
N1 C1' RBZ sing 332 n n 
C2 H2 RBZ sing 333 n n 
C7A C3A RBZ doub 334 n y 
C7A C7 RBZ sing 335 n y 
C3A C4 RBZ sing 336 n y 
C4 C5 RBZ doub 337 n y 
C4 H4 RBZ sing 338 n n 
C5 C6 RBZ sing 339 n y 
C5 C8 RBZ sing 340 n n 
C6 C7 RBZ doub 341 n y 
C6 C9 RBZ sing 342 n n 
C7 H7 RBZ sing 343 n n 
C8 H81 RBZ sing 344 n n 
C8 H82 RBZ sing 345 n n 
C8 H83 RBZ sing 346 n n 
C9 H91 RBZ sing 347 n n 
C9 H92 RBZ sing 348 n n 
C9 H93 RBZ sing 349 n n 
P O1P RBZ doub 350 n n 
P O2P RBZ sing 351 n n 
P O3P RBZ sing 352 n n 
P O5' RBZ sing 353 n n 
O2P HOP2 RBZ sing 354 n n 
O3P HOP3 RBZ sing 355 n n 
O5' C5' RBZ sing 356 n n 
C5' C4' RBZ sing 357 n n 
C5' "H5'1" RBZ sing 358 n n 
C5' "H5'2" RBZ sing 359 n n 
C4' O4' RBZ sing 360 n n 
C4' C3' RBZ sing 361 n n 
C4' H4' RBZ sing 362 n n 
O4' C1' RBZ sing 363 n n 
C3' O3' RBZ sing 364 n n 
C3' C2' RBZ sing 365 n n 
C3' H3' RBZ sing 366 n n 
O3' "HO'3" RBZ sing 367 n n 
C2' O2' RBZ sing 368 n n 
C2' C1' RBZ sing 369 n n 
C2' H2' RBZ sing 370 n n 
O2' "HO'2" RBZ sing 371 n n 
C1' H1' RBZ sing 372 n n 
#
_atom_sites.entry_id                     6PU6 
_atom_sites.fract_transf_matrix[1][1]    0.021017 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.008351 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007194 
_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]    0.019748 
_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 NCN A 1 401 401 NCN NCN . 
D 3 RBZ B 1 401 401 RBZ RBZ . 
E 4 NIO B 1 402 501 NIO NIO . 
F 5 HOH A 1 501 11 HOH HOH . 
F 5 HOH A 2 502 27 HOH HOH . 
F 5 HOH A 3 503 10 HOH HOH . 
F 5 HOH A 4 504 24 HOH HOH . 
F 5 HOH A 5 505 13 HOH HOH . 
F 5 HOH A 6 506 53 HOH HOH . 
F 5 HOH A 7 507 4 HOH HOH . 
F 5 HOH A 8 508 2 HOH HOH . 
F 5 HOH A 9 509 26 HOH HOH . 
F 5 HOH A 10 510 42 HOH HOH . 
F 5 HOH A 11 511 50 HOH HOH . 
F 5 HOH A 12 512 46 HOH HOH . 
F 5 HOH A 13 513 8 HOH HOH . 
F 5 HOH A 14 514 36 HOH HOH . 
F 5 HOH A 15 515 3 HOH HOH . 
F 5 HOH A 16 516 15 HOH HOH . 
F 5 HOH A 17 517 18 HOH HOH . 
F 5 HOH A 18 518 30 HOH HOH . 
F 5 HOH A 19 519 47 HOH HOH . 
F 5 HOH A 20 520 41 HOH HOH . 
F 5 HOH A 21 521 48 HOH HOH . 
F 5 HOH A 22 522 38 HOH HOH . 
F 5 HOH A 23 523 39 HOH HOH . 
F 5 HOH A 24 524 23 HOH HOH . 
F 5 HOH A 25 525 29 HOH HOH . 
F 5 HOH A 26 526 33 HOH HOH . 
F 5 HOH A 27 527 17 HOH HOH . 
F 5 HOH A 28 528 51 HOH HOH . 
F 5 HOH A 29 529 28 HOH HOH . 
G 5 HOH B 1 501 21 HOH HOH . 
G 5 HOH B 2 502 22 HOH HOH . 
G 5 HOH B 3 503 34 HOH HOH . 
G 5 HOH B 4 504 43 HOH HOH . 
G 5 HOH B 5 505 9 HOH HOH . 
G 5 HOH B 6 506 25 HOH HOH . 
G 5 HOH B 7 507 6 HOH HOH . 
G 5 HOH B 8 508 32 HOH HOH . 
G 5 HOH B 9 509 37 HOH HOH . 
G 5 HOH B 10 510 7 HOH HOH . 
G 5 HOH B 11 511 1 HOH HOH . 
G 5 HOH B 12 512 20 HOH HOH . 
G 5 HOH B 13 513 44 HOH HOH . 
G 5 HOH B 14 514 52 HOH HOH . 
G 5 HOH B 15 515 19 HOH HOH . 
G 5 HOH B 16 516 14 HOH HOH . 
G 5 HOH B 17 517 40 HOH HOH . 
G 5 HOH B 18 518 12 HOH HOH . 
G 5 HOH B 19 519 5 HOH HOH . 
G 5 HOH B 20 520 35 HOH HOH . 
G 5 HOH B 21 521 45 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 N N3 RBZ . . . D 3 2.683 20.042 26.542 1 52.43 ? N3 RBZ 401 B 1 
HETATM 2 N N1 RBZ . . . D 3 1.847 21.824 25.452 1 58.29 ? N1 RBZ 401 B 1 
HETATM 3 C C2 RBZ . . . D 3 2.2 20.515 25.361 1 52.69 ? C2 RBZ 401 B 1 
HETATM 4 C C7A RBZ . . . D 3 2.059 22.202 26.74 1 54.39 ? C7A RBZ 401 B 1 
HETATM 5 C C3A RBZ . . . D 3 2.622 21.019 27.452 1 55.24 ? C3A RBZ 401 B 1 
HETATM 6 C C4 RBZ . . . D 3 2.976 21.066 28.799 1 57.04 ? C4 RBZ 401 B 1 
HETATM 7 C C5 RBZ . . . D 3 2.804 22.259 29.51 1 57.7 ? C5 RBZ 401 B 1 
HETATM 8 C C6 RBZ . . . D 3 2.238 23.456 28.805 1 55.77 ? C6 RBZ 401 B 1 
HETATM 9 C C7 RBZ . . . D 3 1.884 23.4 27.453 1 52.92 ? C7 RBZ 401 B 1 
HETATM 10 C C8 RBZ . . . D 3 3.188 22.338 30.973 1 53.82 ? C8 RBZ 401 B 1 
HETATM 11 C C9 RBZ . . . D 3 2.06 24.739 29.573 1 55.18 ? C9 RBZ 401 B 1 
HETATM 12 P P RBZ . . . D 3 3.889 27.546 23.145 1 50.54 ? P RBZ 401 B 1 
HETATM 13 O O1P RBZ . . . D 3 3.832 28.136 21.766 1 44.57 ? O1P RBZ 401 B 1 
HETATM 14 O O2P RBZ . . . D 3 5.07 26.604 23.346 1 49.59 ? O2P RBZ 401 B 1 
HETATM 15 O O3P RBZ . . . D 3 3.635 28.447 24.325 1 51.61 ? O3P RBZ 401 B 1 
HETATM 16 O O5' RBZ . . . D 3 2.64 26.569 23.217 1 51.94 ? O5' RBZ 401 B 1 
HETATM 17 C C5' RBZ . . . D 3 2.669 25.315 22.544 1 51.38 ? C5' RBZ 401 B 1 
HETATM 18 C C4' RBZ . . . D 3 2.9 24.125 23.454 1 49.24 ? C4' RBZ 401 B 1 
HETATM 19 O O4' RBZ . . . D 3 1.846 23.996 24.469 1 49.69 ? O4' RBZ 401 B 1 
HETATM 20 C C3' RBZ . . . D 3 2.923 22.765 22.736 1 52.25 ? C3' RBZ 401 B 1 
HETATM 21 O O3' RBZ . . . D 3 3.955 21.911 23.211 1 48.78 ? O3' RBZ 401 B 1 
HETATM 22 C C2' RBZ . . . D 3 1.5 22.247 22.948 1 51.67 ? C2' RBZ 401 B 1 
HETATM 23 O O2' RBZ . . . D 3 1.393 20.834 22.824 1 50.64 ? O2' RBZ 401 B 1 
HETATM 24 C C1' RBZ . . . D 3 1.259 22.709 24.386 1 56.7 ? C1' RBZ 401 B 1 
HETATM 25 H H2 RBZ . . . D 3 2.109 19.921 24.46 1 63.02 ? H2 RBZ 401 B 1 
HETATM 26 H H4 RBZ . . . D 3 3.381 20.189 29.29 1 68.25 ? H4 RBZ 401 B 1 
HETATM 27 H H7 RBZ . . . D 3 1.478 24.274 26.959 1 63.3 ? H7 RBZ 401 B 1 
HETATM 28 H H81 RBZ . . . D 3 2.315 22.292 31.571 1 64.38 ? H81 RBZ 401 B 1 
HETATM 29 H H82 RBZ . . . D 3 3.825 21.528 31.215 1 64.38 ? H82 RBZ 401 B 1 
HETATM 30 H H83 RBZ . . . D 3 3.693 23.251 31.157 1 64.38 ? H83 RBZ 401 B 1 
HETATM 31 H H91 RBZ . . . D 3 3.007 25.175 29.757 1 66.01 ? H91 RBZ 401 B 1 
HETATM 32 H H92 RBZ . . . D 3 1.58 24.535 30.495 1 66.01 ? H92 RBZ 401 B 1 
HETATM 33 H H93 RBZ . . . D 3 1.466 25.41 29.008 1 66.01 ? H93 RBZ 401 B 1 
HETATM 34 H "H5'1" RBZ . . . D 3 3.461 25.34 21.794 1 61.45 ? "H5'1" RBZ 401 B 1 
HETATM 35 H "H5'2" RBZ . . . D 3 1.718 25.177 22.024 1 61.45 ? "H5'2" RBZ 401 B 1 
HETATM 36 H H4' RBZ . . . D 3 3.847 24.279 23.992 1 58.88 ? H4' RBZ 401 B 1 
HETATM 37 H H3' RBZ . . . D 3 3.056 22.927 21.657 1 62.49 ? H3' RBZ 401 B 1 
HETATM 38 H "HO'3" RBZ . . . D 3 3.973 21.935 24.177 1 58.33 ? "HO'3" RBZ 401 B 1 
HETATM 39 H H2' RBZ . . . D 3 0.789 22.724 22.259 1 61.8 ? H2' RBZ 401 B 1 
HETATM 40 H "HO'2" RBZ . . . D 3 1.839 20.546 22.016 1 60.57 ? "HO'2" RBZ 401 B 1 
HETATM 41 H H1' RBZ . . . D 3 0.175 22.735 24.564 1 67.84 ? H1' RBZ 401 B 1 
#
_model_server_stats.io_time_ms              53 
_model_server_stats.parse_time_ms           34 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           289 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           41 
#