data_6B51
#
_model_server_result.job_id            0MdXHIgL8aRy4DOAZwB7gg 
_model_server_result.datetime_utc      '2025-07-14 02:21:56' 
_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          6b51 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":301}' 
#
_entry.id    6B51 
#
_exptl.entry_id    6B51 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-3'-5'-DIPHOSPHATE" 
_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            6B51 
_cell.length_a            51.861 
_cell.length_b            71.957 
_cell.length_c            139.317 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6B51 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C10 H15 N5 O10 P2' 
_chem_comp.formula_weight    427.201 
_chem_comp.id                A3P 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "ADENOSINE-3'-5'-DIPHOSPHATE" 
_chem_comp.type              'rna linking' 
_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
P1 O1P A3P doub 1 n n 
P1 O2P A3P sing 2 n n 
P1 O3P A3P sing 3 n n 
P1 O3' A3P sing 4 n n 
O2P HOP2 A3P sing 5 n n 
O3P HOP3 A3P sing 6 n n 
P2 O4P A3P doub 7 n n 
P2 O5P A3P sing 8 n n 
P2 O6P A3P sing 9 n n 
P2 O5' A3P sing 10 n n 
O5P HOP5 A3P sing 11 n n 
O6P HOP6 A3P sing 12 n n 
O5' C5' A3P sing 13 n n 
C5' C4' A3P sing 14 n n 
C5' "H5'1" A3P sing 15 n n 
C5' "H5'2" A3P sing 16 n n 
C4' O4' A3P sing 17 n n 
C4' C3' A3P sing 18 n n 
C4' H4' A3P sing 19 n n 
O4' C1' A3P sing 20 n n 
C3' O3' A3P sing 21 n n 
C3' C2' A3P sing 22 n n 
C3' H3' A3P sing 23 n n 
C2' O2' A3P sing 24 n n 
C2' C1' A3P sing 25 n n 
C2' H2' A3P sing 26 n n 
O2' HO2' A3P sing 27 n n 
C1' N9 A3P sing 28 n n 
C1' H1' A3P sing 29 n n 
N9 C8 A3P sing 30 n y 
N9 C4 A3P sing 31 n y 
C8 N7 A3P doub 32 n y 
C8 H8 A3P sing 33 n n 
N7 C5 A3P sing 34 n y 
C5 C6 A3P sing 35 n y 
C5 C4 A3P doub 36 n y 
C6 N6 A3P sing 37 n n 
C6 N1 A3P doub 38 n y 
N6 HN61 A3P sing 39 n n 
N6 HN62 A3P sing 40 n n 
N1 C2 A3P sing 41 n y 
C2 N3 A3P doub 42 n y 
C2 H2 A3P sing 43 n n 
N3 C4 A3P sing 44 n y 
#
_atom_sites.entry_id                     6B51 
_atom_sites.fract_transf_matrix[1][1]    0.019282 
_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]    0.013897 
_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]    0.007178 
_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 A3P A 1 301 301 A3P A3P . 
C 3 TRS A 1 302 401 TRS TRS . 
D 4 HOH A 1 401 45 HOH HOH . 
D 4 HOH A 2 402 33 HOH HOH . 
D 4 HOH A 3 403 43 HOH HOH . 
D 4 HOH A 4 404 35 HOH HOH . 
D 4 HOH A 5 405 20 HOH HOH . 
D 4 HOH A 6 406 40 HOH HOH . 
D 4 HOH A 7 407 2 HOH HOH . 
D 4 HOH A 8 408 28 HOH HOH . 
D 4 HOH A 9 409 42 HOH HOH . 
D 4 HOH A 10 410 21 HOH HOH . 
D 4 HOH A 11 411 39 HOH HOH . 
D 4 HOH A 12 412 9 HOH HOH . 
D 4 HOH A 13 413 4 HOH HOH . 
D 4 HOH A 14 414 46 HOH HOH . 
D 4 HOH A 15 415 27 HOH HOH . 
D 4 HOH A 16 416 7 HOH HOH . 
D 4 HOH A 17 417 37 HOH HOH . 
D 4 HOH A 18 418 10 HOH HOH . 
D 4 HOH A 19 419 22 HOH HOH . 
D 4 HOH A 20 420 29 HOH HOH . 
D 4 HOH A 21 421 30 HOH HOH . 
D 4 HOH A 22 422 11 HOH HOH . 
D 4 HOH A 23 423 6 HOH HOH . 
D 4 HOH A 24 424 13 HOH HOH . 
D 4 HOH A 25 425 31 HOH HOH . 
D 4 HOH A 26 426 3 HOH HOH . 
D 4 HOH A 27 427 17 HOH HOH . 
D 4 HOH A 28 428 15 HOH HOH . 
D 4 HOH A 29 429 44 HOH HOH . 
D 4 HOH A 30 430 1 HOH HOH . 
D 4 HOH A 31 431 18 HOH HOH . 
D 4 HOH A 32 432 8 HOH HOH . 
D 4 HOH A 33 433 14 HOH HOH . 
D 4 HOH A 34 434 16 HOH HOH . 
D 4 HOH A 35 435 34 HOH HOH . 
D 4 HOH A 36 436 5 HOH HOH . 
D 4 HOH A 37 437 26 HOH HOH . 
D 4 HOH A 38 438 48 HOH HOH . 
D 4 HOH A 39 439 32 HOH HOH . 
D 4 HOH A 40 440 38 HOH HOH . 
D 4 HOH A 41 441 23 HOH HOH . 
D 4 HOH A 42 442 36 HOH HOH . 
D 4 HOH A 43 443 12 HOH HOH . 
D 4 HOH A 44 444 41 HOH HOH . 
D 4 HOH A 45 445 25 HOH HOH . 
D 4 HOH A 46 446 24 HOH HOH . 
D 4 HOH A 47 447 19 HOH HOH . 
D 4 HOH A 48 448 47 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 P P1 A3P . . . B 2 7.032 -32.764 -17.04 1 40.91 ? P1 A3P 301 A 1 
HETATM 2 O O1P A3P . . . B 2 7.676 -33.347 -18.237 1 36.94 ? O1P A3P 301 A 1 
HETATM 3 O O2P A3P . . . B 2 6.927 -33.799 -15.97 1 42.1 ? O2P A3P 301 A 1 
HETATM 4 O O3P A3P . . . B 2 7.87 -31.598 -16.55 1 39.36 ? O3P A3P 301 A 1 
HETATM 5 P P2 A3P . . . B 2 2.979 -26.87 -18.524 1 35.92 ? P2 A3P 301 A 1 
HETATM 6 O O4P A3P . . . B 2 2.809 -26.779 -20.015 1 35.5 ? O4P A3P 301 A 1 
HETATM 7 O O5P A3P . . . B 2 1.796 -26.248 -17.822 1 37.36 ? O5P A3P 301 A 1 
HETATM 8 O O6P A3P . . . B 2 4.24 -26.126 -18.111 1 38.72 ? O6P A3P 301 A 1 
HETATM 9 O O5' A3P . . . B 2 3.084 -28.396 -18.164 1 37.19 ? O5' A3P 301 A 1 
HETATM 10 C C5' A3P . . . B 2 4.086 -29.189 -18.817 1 38.73 ? C5' A3P 301 A 1 
HETATM 11 C C4' A3P . . . B 2 4.055 -30.557 -18.207 1 40.29 ? C4' A3P 301 A 1 
HETATM 12 O O4' A3P . . . B 2 2.948 -31.375 -18.724 1 37.45 ? O4' A3P 301 A 1 
HETATM 13 C C3' A3P . . . B 2 5.292 -31.329 -18.5 1 37.21 ? C3' A3P 301 A 1 
HETATM 14 O O3' A3P . . . B 2 5.519 -32.27 -17.442 1 36.97 ? O3' A3P 301 A 1 
HETATM 15 C C2' A3P . . . B 2 4.91 -31.983 -19.759 1 38.62 ? C2' A3P 301 A 1 
HETATM 16 O O2' A3P . . . B 2 5.76 -33.063 -20.018 1 41.01 ? O2' A3P 301 A 1 
HETATM 17 C C1' A3P . . . B 2 3.53 -32.462 -19.446 1 40.07 ? C1' A3P 301 A 1 
HETATM 18 N N9 A3P . . . B 2 2.718 -32.733 -20.563 1 40.38 ? N9 A3P 301 A 1 
HETATM 19 C C8 A3P . . . B 2 2.32 -31.838 -21.474 1 40.42 ? C8 A3P 301 A 1 
HETATM 20 N N7 A3P . . . B 2 1.549 -32.442 -22.386 1 41.88 ? N7 A3P 301 A 1 
HETATM 21 C C5 A3P . . . B 2 1.426 -33.76 -22.058 1 42.94 ? C5 A3P 301 A 1 
HETATM 22 C C6 A3P . . . B 2 0.733 -34.875 -22.641 1 45.3 ? C6 A3P 301 A 1 
HETATM 23 N N6 A3P . . . B 2 -0.036 -34.707 -23.816 1 45.56 ? N6 A3P 301 A 1 
HETATM 24 N N1 A3P . . . B 2 0.817 -36.075 -22.037 1 44.77 ? N1 A3P 301 A 1 
HETATM 25 C C2 A3P . . . B 2 1.549 -36.228 -20.929 1 46.24 ? C2 A3P 301 A 1 
HETATM 26 N N3 A3P . . . B 2 2.204 -35.216 -20.351 1 41.37 ? N3 A3P 301 A 1 
HETATM 27 C C4 A3P . . . B 2 2.177 -33.959 -20.88 1 43.39 ? C4 A3P 301 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           308 
_model_server_stats.encode_time_ms          15 
_model_server_stats.element_count           27 
#