data_3V8N
#
_model_server_result.job_id            WjtdYkGoP8CyFXZ46aNe_g 
_model_server_result.datetime_utc      '2024-11-08 21:04:54' 
_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          3v8n 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":302}' 
#
_entry.id    3V8N 
#
_exptl.entry_id    3V8N 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              519.261 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "8-bromo-5'-{[3-carboxy-2-(carboxymethyl)-2-hydroxypropanoyl]amino}-5'-deoxyadenosine" 
_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            3V8N 
_cell.length_a            63.063 
_cell.length_b            75.966 
_cell.length_c            119.012 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3V8N 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 2 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_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    1,2,3,4 
#
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_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 63.063 0 0 
3 'crystal symmetry operation' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 63.063 0 0 
4 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C16 H19 Br N6 O9' 
_chem_comp.formula_weight    519.261 
_chem_comp.id                5CI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "8-bromo-5'-{[3-carboxy-2-(carboxymethyl)-2-hydroxypropanoyl]amino}-5'-deoxyadenosine" 
_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
N6 C6 5CI sing 1 n n 
BR8 C8 5CI sing 2 n n 
N7 C8 5CI doub 3 n y 
N7 C5 5CI sing 4 n y 
C8 N9 5CI sing 5 n y 
C6 C5 5CI doub 6 n y 
C6 N1 5CI sing 7 n y 
C5 C4 5CI sing 8 n y 
C2' O2' 5CI sing 9 n n 
C2' C3' 5CI sing 10 n n 
C2' C1' 5CI sing 11 n n 
N1 C2 5CI doub 12 n y 
N9 C4 5CI sing 13 n y 
N9 C1' 5CI sing 14 n n 
C4 N3 5CI doub 15 n y 
O3' C3' 5CI sing 16 n n 
C3' C4' 5CI sing 17 n n 
C2 N3 5CI sing 18 n y 
C1' O4' 5CI sing 19 n n 
O4' C4' 5CI sing 20 n n 
C4' C5' 5CI sing 21 n n 
C5' N5' 5CI sing 22 n n 
N5' C61 5CI sing 23 n n 
O51 C61 5CI doub 24 n n 
C61 C31 5CI sing 25 n n 
C31 C21 5CI sing 26 n n 
C31 C41 5CI sing 27 n n 
C31 O71 5CI sing 28 n n 
C21 C11 5CI sing 29 n n 
C41 C51 5CI sing 30 n n 
C11 O21 5CI doub 31 n n 
C11 O11 5CI sing 32 n n 
O31 C51 5CI doub 33 n n 
C51 O41 5CI sing 34 n n 
O41 H1 5CI sing 35 n n 
C41 H2 5CI sing 36 n n 
C41 H3 5CI sing 37 n n 
C21 H4 5CI sing 38 n n 
C21 H5 5CI sing 39 n n 
O11 H6 5CI sing 40 n n 
O71 H7 5CI sing 41 n n 
N5' H8 5CI sing 42 n n 
C5' H9 5CI sing 43 n n 
C5' H10 5CI sing 44 n n 
C4' H11 5CI sing 45 n n 
C3' H12 5CI sing 46 n n 
O3' H13 5CI sing 47 n n 
C2' H14 5CI sing 48 n n 
O2' H15 5CI sing 49 n n 
C1' H16 5CI sing 50 n n 
C2 H17 5CI sing 51 n n 
N6 H18 5CI sing 52 n n 
N6 H19 5CI sing 53 n n 
#
_atom_sites.entry_id                     3V8N 
_atom_sites.fract_transf_matrix[1][1]    0.015857 
_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]    0.013164 
_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]    0.008403 
_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
B 2 5NB A 1 301 1 5NB 5NB . 
C 3 5CI A 1 302 2 5CI 5CI . 
D 4 CIT A 1 303 1 CIT CIT . 
E 5 HOH A 1 401 1 HOH HOH . 
E 5 HOH A 2 402 3 HOH HOH . 
E 5 HOH A 3 403 5 HOH HOH . 
E 5 HOH A 4 404 6 HOH HOH . 
E 5 HOH A 5 405 8 HOH HOH . 
E 5 HOH A 6 406 9 HOH HOH . 
E 5 HOH A 7 407 10 HOH HOH . 
E 5 HOH A 8 408 11 HOH HOH . 
E 5 HOH A 9 409 12 HOH HOH . 
E 5 HOH A 10 410 13 HOH HOH . 
E 5 HOH A 11 411 14 HOH HOH . 
E 5 HOH A 12 412 16 HOH HOH . 
E 5 HOH A 13 413 17 HOH HOH . 
E 5 HOH A 14 414 18 HOH HOH . 
E 5 HOH A 15 415 19 HOH HOH . 
E 5 HOH A 16 416 20 HOH HOH . 
E 5 HOH A 17 417 21 HOH HOH . 
E 5 HOH A 18 418 22 HOH HOH . 
E 5 HOH A 19 419 23 HOH HOH . 
E 5 HOH A 20 420 26 HOH HOH . 
E 5 HOH A 21 421 27 HOH HOH . 
E 5 HOH A 22 422 30 HOH HOH . 
E 5 HOH A 23 423 32 HOH HOH . 
E 5 HOH A 24 424 34 HOH HOH . 
E 5 HOH A 25 425 35 HOH HOH . 
E 5 HOH A 26 426 37 HOH HOH . 
E 5 HOH A 27 427 41 HOH HOH . 
E 5 HOH A 28 428 43 HOH HOH . 
E 5 HOH A 29 429 44 HOH HOH . 
E 5 HOH A 30 430 45 HOH HOH . 
E 5 HOH A 31 431 46 HOH HOH . 
E 5 HOH A 32 432 47 HOH HOH . 
E 5 HOH A 33 433 48 HOH HOH . 
E 5 HOH A 34 434 50 HOH HOH . 
E 5 HOH A 35 435 52 HOH HOH . 
E 5 HOH A 36 436 54 HOH HOH . 
E 5 HOH A 37 437 57 HOH HOH . 
E 5 HOH A 38 438 58 HOH HOH . 
E 5 HOH A 39 439 61 HOH HOH . 
E 5 HOH A 40 440 62 HOH HOH . 
E 5 HOH A 41 441 65 HOH HOH . 
E 5 HOH A 42 442 66 HOH HOH . 
E 5 HOH A 43 443 68 HOH HOH . 
E 5 HOH A 44 444 70 HOH HOH . 
E 5 HOH A 45 445 72 HOH HOH . 
E 5 HOH A 46 446 73 HOH HOH . 
E 5 HOH A 47 447 76 HOH HOH . 
E 5 HOH A 48 448 77 HOH HOH . 
E 5 HOH A 49 449 78 HOH HOH . 
E 5 HOH A 50 450 79 HOH HOH . 
E 5 HOH A 51 451 82 HOH HOH . 
E 5 HOH A 52 452 83 HOH HOH . 
E 5 HOH A 53 453 84 HOH HOH . 
E 5 HOH A 54 454 85 HOH HOH . 
E 5 HOH A 55 455 87 HOH HOH . 
E 5 HOH A 56 456 91 HOH HOH . 
E 5 HOH A 57 457 92 HOH HOH . 
E 5 HOH A 58 458 93 HOH HOH . 
E 5 HOH A 59 459 94 HOH HOH . 
E 5 HOH A 60 460 95 HOH HOH . 
E 5 HOH A 61 461 101 HOH HOH . 
E 5 HOH A 62 462 102 HOH HOH . 
E 5 HOH A 63 463 103 HOH HOH . 
E 5 HOH A 64 464 104 HOH HOH . 
E 5 HOH A 65 465 105 HOH HOH . 
E 5 HOH A 66 466 106 HOH HOH . 
E 5 HOH A 67 467 107 HOH HOH . 
E 5 HOH A 68 468 108 HOH HOH . 
E 5 HOH A 69 469 109 HOH HOH . 
E 5 HOH A 70 470 110 HOH HOH . 
E 5 HOH A 71 471 111 HOH HOH . 
E 5 HOH A 72 472 112 HOH HOH . 
E 5 HOH A 73 473 113 HOH HOH . 
E 5 HOH A 74 474 114 HOH HOH . 
E 5 HOH A 75 475 115 HOH HOH . 
E 5 HOH A 76 476 116 HOH HOH . 
E 5 HOH A 77 477 117 HOH HOH . 
E 5 HOH A 78 478 118 HOH HOH . 
E 5 HOH A 79 479 119 HOH HOH . 
E 5 HOH A 80 480 120 HOH HOH . 
E 5 HOH A 81 481 121 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 O41 5CI . . . C 3 11.145 9.639 16.498 0.9 62.99 ? O41 5CI 302 A 1 
HETATM 2 C C51 5CI . . . C 3 11.126 10.454 15.571 0.9 62.98 ? C51 5CI 302 A 1 
HETATM 3 O O31 5CI . . . C 3 10.764 11.629 15.629 0.9 65.69 ? O31 5CI 302 A 1 
HETATM 4 C C41 5CI . . . C 3 11.511 9.953 14.211 0.9 60.5 ? C41 5CI 302 A 1 
HETATM 5 C C31 5CI . . . C 3 12.77 9.116 14.185 0.9 63.13 ? C31 5CI 302 A 1 
HETATM 6 C C21 5CI . . . C 3 14.055 9.503 14.846 0.9 63.41 ? C21 5CI 302 A 1 
HETATM 7 C C11 5CI . . . C 3 14.597 8.213 15.435 0.9 61.82 ? C11 5CI 302 A 1 
HETATM 8 O O21 5CI . . . C 3 15.797 8.178 15.673 0.9 63.22 ? O21 5CI 302 A 1 
HETATM 9 O O11 5CI . . . C 3 13.812 7.267 15.581 0.9 57.49 ? O11 5CI 302 A 1 
HETATM 10 O O71 5CI . . . C 3 12.78 7.896 13.529 0.9 70.21 ? O71 5CI 302 A 1 
HETATM 11 C C61 5CI . . . C 3 13.107 9.84 12.831 0.9 56.01 ? C61 5CI 302 A 1 
HETATM 12 O O51 5CI . . . C 3 12.834 11.024 12.679 0.9 58.86 ? O51 5CI 302 A 1 
HETATM 13 N N5' 5CI . . . C 3 13.63 9.159 11.808 0.9 56.64 ? N5' 5CI 302 A 1 
HETATM 14 C C5' 5CI . . . C 3 13.842 9.854 10.512 0.9 40.08 ? C5' 5CI 302 A 1 
HETATM 15 C C4' 5CI . . . C 3 15.26 9.752 9.879 0.9 43.2 ? C4' 5CI 302 A 1 
HETATM 16 O O4' 5CI . . . C 3 15.656 8.425 9.672 0.9 42.43 ? O4' 5CI 302 A 1 
HETATM 17 C C3' 5CI . . . C 3 15.264 10.256 8.438 0.9 43.52 ? C3' 5CI 302 A 1 
HETATM 18 O O3' 5CI . . . C 3 15.303 11.667 8.339 0.9 38.94 ? O3' 5CI 302 A 1 
HETATM 19 C C2' 5CI . . . C 3 16.561 9.673 7.939 0.9 42.41 ? C2' 5CI 302 A 1 
HETATM 20 O O2' 5CI . . . C 3 17.607 10.58 8.143 0.9 45.45 ? O2' 5CI 302 A 1 
HETATM 21 C C1' 5CI . . . C 3 16.801 8.505 8.856 0.9 40.46 ? C1' 5CI 302 A 1 
HETATM 22 N N9 5CI . . . C 3 16.9 7.227 8.147 0.9 41.08 ? N9 5CI 302 A 1 
HETATM 23 C C8 5CI . . . C 3 16.014 6.637 7.359 0.9 43.04 ? C8 5CI 302 A 1 
HETATM 24 BR BR8 5CI . . . C 3 14.338 7.287 6.817 0.7 52.77 ? BR8 5CI 302 A 1 
HETATM 25 N N7 5CI . . . C 3 16.473 5.48 6.951 0.9 42.98 ? N7 5CI 302 A 1 
HETATM 26 C C5 5CI . . . C 3 17.664 5.317 7.475 0.9 42.64 ? C5 5CI 302 A 1 
HETATM 27 C C4 5CI . . . C 3 17.931 6.419 8.234 0.9 42.21 ? C4 5CI 302 A 1 
HETATM 28 N N3 5CI . . . C 3 19.079 6.498 8.892 0.9 38.35 ? N3 5CI 302 A 1 
HETATM 29 C C2 5CI . . . C 3 19.951 5.536 8.811 0.9 44.92 ? C2 5CI 302 A 1 
HETATM 30 N N1 5CI . . . C 3 19.733 4.474 8.089 0.9 40.68 ? N1 5CI 302 A 1 
HETATM 31 C C6 5CI . . . C 3 18.613 4.327 7.41 0.9 41.42 ? C6 5CI 302 A 1 
HETATM 32 N N6 5CI . . . C 3 18.427 3.248 6.694 0.9 43.55 ? N6 5CI 302 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           19 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           301 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           32 
#