data_4O27
#
_model_server_result.job_id            GepBS0DHgubJbiNNGXd_Mw 
_model_server_result.datetime_utc      '2024-11-25 12:53:00' 
_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          4o27 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":500}' 
#
_entry.id    4O27 
#
_exptl.entry_id    4O27 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-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            4O27 
_cell.length_a            119.111 
_cell.length_b            119.111 
_cell.length_c            149.258 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4O27 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
#
_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                      4 
_struct_asym.id                             D 
_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
metalc ? metalc1 B OD1 ASN 133 B ASN 149 1_555 E MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? 
metalc ? metalc2 D O2A ADP . B ADP 500 1_555 E MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.773 ? 
#
_chem_comp.formula           'C10 H15 N5 O10 P2' 
_chem_comp.formula_weight    427.201 
_chem_comp.id                ADP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "ADENOSINE-5'-DIPHOSPHATE" 
_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
PB O1B ADP doub 1 n n 
PB O2B ADP sing 2 n n 
PB O3B ADP sing 3 n n 
PB O3A ADP sing 4 n n 
O2B HOB2 ADP sing 5 n n 
O3B HOB3 ADP sing 6 n n 
PA O1A ADP doub 7 n n 
PA O2A ADP sing 8 n n 
PA O3A ADP sing 9 n n 
PA O5' ADP sing 10 n n 
O2A HOA2 ADP sing 11 n n 
O5' C5' ADP sing 12 n n 
C5' C4' ADP sing 13 n n 
C5' "H5'1" ADP sing 14 n n 
C5' "H5'2" ADP sing 15 n n 
C4' O4' ADP sing 16 n n 
C4' C3' ADP sing 17 n n 
C4' H4' ADP sing 18 n n 
O4' C1' ADP sing 19 n n 
C3' O3' ADP sing 20 n n 
C3' C2' ADP sing 21 n n 
C3' H3' ADP sing 22 n n 
O3' HO3' ADP sing 23 n n 
C2' O2' ADP sing 24 n n 
C2' C1' ADP sing 25 n n 
C2' H2' ADP sing 26 n n 
O2' HO2' ADP sing 27 n n 
C1' N9 ADP sing 28 n n 
C1' H1' ADP sing 29 n n 
N9 C8 ADP sing 30 n y 
N9 C4 ADP sing 31 n y 
C8 N7 ADP doub 32 n y 
C8 H8 ADP sing 33 n n 
N7 C5 ADP sing 34 n y 
C5 C6 ADP sing 35 n y 
C5 C4 ADP doub 36 n y 
C6 N6 ADP sing 37 n n 
C6 N1 ADP doub 38 n y 
N6 HN61 ADP sing 39 n n 
N6 HN62 ADP sing 40 n n 
N1 C2 ADP sing 41 n y 
C2 N3 ADP doub 42 n y 
C2 H2 ADP sing 43 n n 
N3 C4 ADP sing 44 n y 
#
_atom_sites.entry_id                     4O27 
_atom_sites.fract_transf_matrix[1][1]    0.008396 
_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]    0.008396 
_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]    0.0067 
_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 4 ADP B 1 500 500 ADP ADP . 
E 5 MN B 1 501 501 MN MN . 
#
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 PB ADP . . . D 4 2.351 29.25 34.971 1 153.52 ? PB ADP 500 B 1 
HETATM 2 O O1B ADP . . . D 4 3.723 29.716 34.534 1 134.69 ? O1B ADP 500 B 1 
HETATM 3 O O2B ADP . . . D 4 2.17 29.155 36.467 1 125.9 1 O2B ADP 500 B 1 
HETATM 4 O O3B ADP . . . D 4 1.222 29.958 34.263 1 144.81 ? O3B ADP 500 B 1 
HETATM 5 P PA ADP . . . D 4 2.957 26.457 34.991 1 132.11 ? PA ADP 500 B 1 
HETATM 6 O O1A ADP . . . D 4 3.837 25.824 33.934 1 105.78 1 O1A ADP 500 B 1 
HETATM 7 O O2A ADP . . . D 4 3.487 26.863 36.349 1 120.37 ? O2A ADP 500 B 1 
HETATM 8 O O3A ADP . . . D 4 2.186 27.744 34.403 1 126.57 ? O3A ADP 500 B 1 
HETATM 9 O O5' ADP . . . D 4 1.726 25.44 35.185 1 110.28 ? O5' ADP 500 B 1 
HETATM 10 C C5' ADP . . . D 4 0.906 25.473 36.351 1 112.37 ? C5' ADP 500 B 1 
HETATM 11 C C4' ADP . . . D 4 0.162 24.158 36.555 1 100.3 ? C4' ADP 500 B 1 
HETATM 12 O O4' ADP . . . D 4 -0.28 23.586 35.317 1 98.03 ? O4' ADP 500 B 1 
HETATM 13 C C3' ADP . . . D 4 1.04 23.102 37.197 1 94.91 ? C3' ADP 500 B 1 
HETATM 14 O O3' ADP . . . D 4 1.06 23.199 38.624 1 88.61 ? O3' ADP 500 B 1 
HETATM 15 C C2' ADP . . . D 4 0.349 21.838 36.753 1 96.31 ? C2' ADP 500 B 1 
HETATM 16 O O2' ADP . . . D 4 -0.695 21.618 37.706 1 98.74 ? O2' ADP 500 B 1 
HETATM 17 C C1' ADP . . . D 4 -0.224 22.153 35.371 1 97.07 ? C1' ADP 500 B 1 
HETATM 18 N N9 ADP . . . D 4 0.721 21.59 34.35 1 96.03 ? N9 ADP 500 B 1 
HETATM 19 C C8 ADP . . . D 4 1.57 22.293 33.572 1 93.29 ? C8 ADP 500 B 1 
HETATM 20 N N7 ADP . . . D 4 2.313 21.491 32.77 1 83.78 ? N7 ADP 500 B 1 
HETATM 21 C C5 ADP . . . D 4 1.939 20.231 33.025 1 89.34 ? C5 ADP 500 B 1 
HETATM 22 C C6 ADP . . . D 4 2.324 18.892 32.527 1 92.36 ? C6 ADP 500 B 1 
HETATM 23 N N6 ADP . . . D 4 3.275 18.754 31.573 1 91.83 ? N6 ADP 500 B 1 
HETATM 24 N N1 ADP . . . D 4 1.694 17.816 33.047 1 92.57 ? N1 ADP 500 B 1 
HETATM 25 C C2 ADP . . . D 4 0.745 17.946 33.993 1 97.14 ? C2 ADP 500 B 1 
HETATM 26 N N3 ADP . . . D 4 0.35 19.131 34.497 1 99.57 ? N3 ADP 500 B 1 
HETATM 27 C C4 ADP . . . D 4 0.897 20.294 34.062 1 94.01 ? C4 ADP 500 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           265 
_model_server_stats.encode_time_ms          17 
_model_server_stats.element_count           27 
#