data_6K2U
#
_model_server_result.job_id            mW2Jq5L8gIGB15Kzq-M0UA 
_model_server_result.datetime_utc      '2024-12-26 20:34:05' 
_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          6k2u 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":101}' 
#
_entry.id    6K2U 
#
_exptl.entry_id    6K2U 
_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    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            6K2U 
_cell.length_a            101.525 
_cell.length_b            101.525 
_cell.length_c            101.525 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6K2U 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        213 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 3 2' 
#
_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,E,F 
_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 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
covale ? covale1 A OG1 THR 67 B THR 66 1_555 B C1D APR . B APR 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? 
metalc ? metalc1 A OE1 GLU 19 B GLU 18 1_555 D MG MG . B MG 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? 
metalc ? metalc2 A OE2 GLU 19 B GLU 18 1_555 D MG MG . B MG 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? 
metalc ? metalc3 A OE1 GLU 25 B GLU 24 1_555 C ZN ZN . B ZN 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? 
metalc ? metalc4 A OD1 ASP 40 B ASP 39 1_555 C ZN ZN . B ZN 102 14_445 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? 
metalc ? metalc5 A OD2 ASP 40 B ASP 39 1_555 C ZN ZN . B ZN 102 14_445 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? 
metalc ? metalc6 A OD2 ASP 53 B ASP 52 1_555 C ZN ZN . B ZN 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.953 ? 
metalc ? metalc7 B O2A APR . B APR 101 1_555 E MG MG . B MG 104 21_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.965 ? 
#
_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                     6K2U 
_atom_sites.fract_transf_matrix[1][1]    0.00985 
_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]    0.00985 
_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]    0.00985 
_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 APR B 1 101 81 APR AR6 . 
C 3 ZN B 1 102 1 ZN ZN . 
D 4 MG B 1 103 2 MG MG . 
E 4 MG B 1 104 3 MG MG . 
F 5 HOH B 1 201 1 HOH HOH . 
F 5 HOH B 2 202 14 HOH HOH . 
F 5 HOH B 3 203 7 HOH HOH . 
F 5 HOH B 4 204 3 HOH HOH . 
F 5 HOH B 5 205 4 HOH HOH . 
F 5 HOH B 6 206 12 HOH HOH . 
F 5 HOH B 7 207 13 HOH HOH . 
F 5 HOH B 8 208 2 HOH HOH . 
F 5 HOH B 9 209 20 HOH HOH . 
F 5 HOH B 10 210 9 HOH HOH . 
F 5 HOH B 11 211 11 HOH HOH . 
F 5 HOH B 12 212 17 HOH HOH . 
F 5 HOH B 13 213 19 HOH HOH . 
F 5 HOH B 14 214 10 HOH HOH . 
F 5 HOH B 15 215 5 HOH HOH . 
F 5 HOH B 16 216 16 HOH HOH . 
F 5 HOH B 17 217 15 HOH HOH . 
F 5 HOH B 18 218 8 HOH HOH . 
F 5 HOH B 19 219 18 HOH HOH . 
F 5 HOH B 20 220 6 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 . . . B 2 16.801 11.05 31.139 1 70.63 ? N1 APR 101 B 1 
HETATM 2 C C2 APR . . . B 2 15.493 11.159 31.415 1 59.64 ? C2 APR 101 B 1 
HETATM 3 N N3 APR . . . B 2 14.703 10.242 30.902 1 59.48 ? N3 APR 101 B 1 
HETATM 4 C C4 APR . . . B 2 15.201 9.301 30.169 1 43.52 ? C4 APR 101 B 1 
HETATM 5 C C5 APR . . . B 2 16.429 9.164 29.937 1 37.52 ? C5 APR 101 B 1 
HETATM 6 C C6 APR . . . B 2 17.276 10.078 30.401 1 57.6 ? C6 APR 101 B 1 
HETATM 7 N N6 APR . . . B 2 18.682 10.441 30.42 1 60.45 ? N6 APR 101 B 1 
HETATM 8 N N7 APR . . . B 2 16.585 8.116 29.15 1 65.19 ? N7 APR 101 B 1 
HETATM 9 C C8 APR . . . B 2 15.394 7.531 28.934 1 69.05 ? C8 APR 101 B 1 
HETATM 10 N N9 APR . . . B 2 14.575 8.314 29.608 1 66.55 ? N9 APR 101 B 1 
HETATM 11 C C1' APR . . . B 2 13.159 8.525 30.012 1 64.79 ? C1' APR 101 B 1 
HETATM 12 C C2' APR . . . B 2 12.145 8.132 28.908 1 70.11 ? C2' APR 101 B 1 
HETATM 13 O O2' APR . . . B 2 12.163 9.11 27.945 1 78.66 ? O2' APR 101 B 1 
HETATM 14 C C3' APR . . . B 2 10.856 8.146 29.682 1 71.8 ? C3' APR 101 B 1 
HETATM 15 O O3' APR . . . B 2 10.048 9.348 29.33 1 79.04 ? O3' APR 101 B 1 
HETATM 16 O O4' APR . . . B 2 12.762 7.85 31.056 1 56.33 ? O4' APR 101 B 1 
HETATM 17 C C4' APR . . . B 2 11.186 8.207 30.975 1 71.25 ? C4' APR 101 B 1 
HETATM 18 C C5' APR . . . B 2 10.193 7.288 31.703 1 76.48 ? C5' APR 101 B 1 
HETATM 19 O O5' APR . . . B 2 8.877 7.627 31.198 1 87.56 ? O5' APR 101 B 1 
HETATM 20 P PA APR . . . B 2 7.679 6.47 30.795 1 111.76 ? PA APR 101 B 1 
HETATM 21 O O1A APR . . . B 2 6.765 6.198 31.993 1 95.52 ? O1A APR 101 B 1 
HETATM 22 O O2A APR . . . B 2 6.827 6.921 29.608 1 96.75 ? O2A APR 101 B 1 
HETATM 23 O O3A APR . . . B 2 8.447 5.001 30.515 1 98.84 ? O3A APR 101 B 1 
HETATM 24 P PB APR . . . B 2 8.586 4.31 29.048 1 99.96 ? PB APR 101 B 1 
HETATM 25 O O1B APR . . . B 2 10.025 4.008 28.816 1 91.86 ? O1B APR 101 B 1 
HETATM 26 O O2B APR . . . B 2 8.038 5.202 27.978 1 97.65 ? O2B APR 101 B 1 
HETATM 27 O O5D APR . . . B 2 7.679 2.895 29.141 1 94.96 ? O5D APR 101 B 1 
HETATM 28 C C5D APR . . . B 2 6.346 2.981 29.629 1 86.84 ? C5D APR 101 B 1 
HETATM 29 O O4D APR . . . B 2 4.564 2.286 28.279 1 80.71 ? O4D APR 101 B 1 
HETATM 30 C C1D APR . . . B 2 4.271 1.274 27.285 1 70.23 ? C1D APR 101 B 1 
HETATM 31 O O2D APR . . . B 2 5.42 -0.671 26.783 1 72.34 ? O2D APR 101 B 1 
HETATM 32 C C2D APR . . . B 2 5.456 0.785 26.864 1 73.31 ? C2D APR 101 B 1 
HETATM 33 O O3D APR . . . B 2 6.78 -0.118 28.513 1 70.65 ? O3D APR 101 B 1 
HETATM 34 C C3D APR . . . B 2 6.43 1.07 27.969 1 72.69 ? C3D APR 101 B 1 
HETATM 35 C C4D APR . . . B 2 5.535 1.842 29.012 1 79.39 ? C4D APR 101 B 1 
#
_model_server_stats.io_time_ms              49 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           258 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           35 
#