data_6BXT
#
_model_server_result.job_id            f8BGjRg9OmKpjlTDinauEA 
_model_server_result.datetime_utc      '2024-11-05 05:33:07' 
_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          6bxt 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":501}' 
#
_entry.id    6BXT 
#
_exptl.entry_id    6BXT 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              559.316 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ADENOSINE-5-DIPHOSPHORIBOSE 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          96.63 
_cell.angle_gamma         90 
_cell.entry_id            6BXT 
_cell.length_a            78.23 
_cell.length_b            49.52 
_cell.length_c            115.71 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6BXT 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
PISA monomeric 1 author_and_software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,D,F 1 1 
B,E,G 2 1 
C,H 3 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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 D N N 
? 2 E N N 
#
_chem_comp.formula           'C15 H23 N5 O14 P2' 
_chem_comp.formula_weight    559.316 
_chem_comp.id                APR 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              ADENOSINE-5-DIPHOSPHORIBOSE 
_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
N1 C2 APR sing 13 n y 
N1 C6 APR doub 14 n y 
C2 N3 APR doub 15 n y 
C2 H2 APR sing 16 n n 
N3 C4 APR sing 17 n y 
C4 C5 APR doub 18 n y 
C4 N9 APR sing 19 n y 
C5 C6 APR sing 20 n y 
C5 N7 APR sing 21 n y 
C6 N6 APR sing 22 n n 
N6 H61 APR sing 23 n n 
N6 H62 APR sing 24 n n 
N7 C8 APR doub 25 n y 
C8 N9 APR sing 26 n y 
C8 H8 APR sing 27 n n 
N9 C1' APR sing 28 n n 
C1' C2' APR sing 29 n n 
C1' O4' APR sing 30 n n 
C1' "H'1" APR sing 31 n n 
C2' O2' APR sing 32 n n 
C2' C3' APR sing 33 n n 
C2' "H'2" APR sing 34 n n 
O2' "HO'2" APR sing 35 n n 
C3' O3' APR sing 36 n n 
C3' C4' APR sing 37 n n 
C3' "H'3" APR sing 38 n n 
O3' "HO'3" APR sing 39 n n 
O4' C4' APR sing 40 n n 
C4' C5' APR sing 41 n n 
C4' "H'4" APR sing 42 n n 
C5' O5' APR sing 43 n n 
C5' "H5'1" APR sing 44 n n 
C5' "H5'2" APR sing 45 n n 
O5' PA APR sing 46 n n 
PA O1A APR doub 47 n n 
PA O2A APR sing 48 n n 
PA O3A APR sing 49 n n 
O2A HOA2 APR sing 50 n n 
O3A PB APR sing 51 n n 
PB O1B APR doub 52 n n 
PB O2B APR sing 53 n n 
PB O5D APR sing 54 n n 
O2B HOB2 APR sing 55 n n 
O5D C5D APR sing 56 n n 
C5D C4D APR sing 57 n n 
C5D H5R1 APR sing 58 n n 
C5D H5R2 APR sing 59 n n 
O4D C1D APR sing 60 n n 
O4D C4D APR sing 61 n n 
O1D C1D APR sing 62 n n 
O1D HOR1 APR sing 63 n n 
C1D C2D APR sing 64 n n 
C1D "HR'1" APR sing 65 n n 
O2D C2D APR sing 66 n n 
O2D HOR2 APR sing 67 n n 
C2D C3D APR sing 68 n n 
C2D "HR'2" APR sing 69 n n 
O3D C3D APR sing 70 n n 
O3D HOR3 APR sing 71 n n 
C3D C4D APR sing 72 n n 
C3D "HR'3" APR sing 73 n n 
C4D "HR'4" APR sing 74 n n 
#
_atom_sites.entry_id                     6BXT 
_atom_sites.fract_transf_matrix[1][1]    0.012783 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001486 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.020194 
_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]    0.0087 
_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
D 2 APR A 1 501 2 APR APR . 
E 2 APR B 1 501 3 APR APR . 
F 3 HOH A 1 601 15 HOH HOH . 
F 3 HOH A 2 602 14 HOH HOH . 
F 3 HOH A 3 603 4 HOH HOH . 
F 3 HOH A 4 604 3 HOH HOH . 
F 3 HOH A 5 605 1 HOH HOH . 
F 3 HOH A 6 606 2 HOH HOH . 
G 3 HOH B 1 601 11 HOH HOH . 
G 3 HOH B 2 602 6 HOH HOH . 
G 3 HOH B 3 603 5 HOH HOH . 
H 3 HOH C 1 501 10 HOH HOH . 
H 3 HOH C 2 502 8 HOH HOH . 
H 3 HOH C 3 503 9 HOH HOH . 
H 3 HOH C 4 504 7 HOH HOH . 
H 3 HOH C 5 505 12 HOH HOH . 
H 3 HOH C 6 506 16 HOH HOH . 
H 3 HOH C 7 507 13 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 N1 APR . . . D 2 83.7 2.474 63.159 1 45.65 ? N1 APR 501 A 1 
HETATM 2 C C2 APR . . . D 2 84.952 2.979 63.215 1 46.7 ? C2 APR 501 A 1 
HETATM 3 N N3 APR . . . D 2 86.027 2.175 62.944 1 49.09 ? N3 APR 501 A 1 
HETATM 4 C C4 APR . . . D 2 85.84 0.866 62.616 1 50.94 ? C4 APR 501 A 1 
HETATM 5 C C5 APR . . . D 2 84.587 0.361 62.56 1 50.05 ? C5 APR 501 A 1 
HETATM 6 C C6 APR . . . D 2 83.505 1.17 62.835 1 47.39 ? C6 APR 501 A 1 
HETATM 7 N N6 APR . . . D 2 82.094 0.983 62.867 1 50.99 ? N6 APR 501 A 1 
HETATM 8 N N7 APR . . . D 2 84.678 -0.959 62.214 1 54.12 ? N7 APR 501 A 1 
HETATM 9 C C8 APR . . . D 2 85.994 -1.259 62.057 1 55.39 ? C8 APR 501 A 1 
HETATM 10 N N9 APR . . . D 2 86.731 -0.131 62.306 1 57.03 ? N9 APR 501 A 1 
HETATM 11 C C1' APR . . . D 2 88.099 0.016 62.269 1 65.07 ? C1' APR 501 A 1 
HETATM 12 C C2' APR . . . D 2 88.822 -1.11 62.161 1 62.01 ? C2' APR 501 A 1 
HETATM 13 O O2' APR . . . D 2 89.394 -1.45 63.473 1 62.65 ? O2' APR 501 A 1 
HETATM 14 C C3' APR . . . D 2 89.956 -0.785 61.173 1 63.87 ? C3' APR 501 A 1 
HETATM 15 O O3' APR . . . D 2 91.069 -0.432 61.824 1 61.89 ? O3' APR 501 A 1 
HETATM 16 O O4' APR . . . D 2 88.465 0.981 60.971 1 68.92 ? O4' APR 501 A 1 
HETATM 17 C C4' APR . . . D 2 89.404 0.425 60.288 1 66.73 ? C4' APR 501 A 1 
HETATM 18 C C5' APR . . . D 2 88.837 -0.087 58.987 1 63.71 ? C5' APR 501 A 1 
HETATM 19 O O5' APR . . . D 2 87.684 -0.907 59.257 1 64.68 ? O5' APR 501 A 1 
HETATM 20 P PA APR . . . D 2 87.119 -1.78 58.088 1 57.46 ? PA APR 501 A 1 
HETATM 21 O O1A APR . . . D 2 86.346 -0.905 57.115 1 61.46 ? O1A APR 501 A 1 
HETATM 22 O O2A APR . . . D 2 86.24 -2.845 58.61 1 52.87 ? O2A APR 501 A 1 
HETATM 23 O O3A APR . . . D 2 88.383 -2.452 57.346 1 70.93 ? O3A APR 501 A 1 
HETATM 24 P PB APR . . . D 2 88.738 -2.31 55.805 1 61.76 ? PB APR 501 A 1 
HETATM 25 O O1B APR . . . D 2 89.429 -0.974 55.531 1 62.94 ? O1B APR 501 A 1 
HETATM 26 O O2B APR . . . D 2 89.678 -3.461 55.445 1 53.35 ? O2B APR 501 A 1 
HETATM 27 O O5D APR . . . D 2 87.417 -2.431 54.931 1 63.74 ? O5D APR 501 A 1 
HETATM 28 C C5D APR . . . D 2 87.04 -3.747 54.614 1 65.44 ? C5D APR 501 A 1 
HETATM 29 O O4D APR . . . D 2 84.887 -3.303 55.347 1 71.12 ? O4D APR 501 A 1 
HETATM 30 O O1D APR . . . D 2 84.072 -1.014 55.506 1 54.72 ? O1D APR 501 A 1 
HETATM 31 C C1D APR . . . D 2 83.88 -2.172 54.786 1 66.44 ? C1D APR 501 A 1 
HETATM 32 O O2D APR . . . D 2 82.865 -2.103 52.707 1 66.88 ? O2D APR 501 A 1 
HETATM 33 C C2D APR . . . D 2 84.137 -1.968 53.495 1 73.65 ? C2D APR 501 A 1 
HETATM 34 O O3D APR . . . D 2 84.488 -3.871 52.175 1 78.34 ? O3D APR 501 A 1 
HETATM 35 C C3D APR . . . D 2 85.104 -3.031 53.062 1 69.5 ? C3D APR 501 A 1 
HETATM 36 C C4D APR . . . D 2 85.502 -3.833 54.36 1 67.69 ? C4D APR 501 A 1 
#
_model_server_stats.io_time_ms              68 
_model_server_stats.parse_time_ms           27 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           342 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           36 
#