data_2PB9
#
_model_server_result.job_id            aP4U7RPjSeZd37qjCeo2ig 
_model_server_result.datetime_utc      '2024-12-20 05:07:29' 
_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          2pb9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":500}' 
#
_entry.id    2PB9 
#
_exptl.entry_id    2PB9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              94.971 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHATE ION' 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            2PB9 
_cell.length_a            78.126 
_cell.length_b            78.126 
_cell.length_c            155.388 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2PB9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        94 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 42 21 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,F 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
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 78.126 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 D N 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 C TYR 85 A TYR 349 1_555 A N MSE 86 A MSE 350 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale2 A C MSE 86 A MSE 350 1_555 A N ARG 87 A ARG 351 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale3 A C PRO 167 A PRO 431 1_555 A N MSE 168 A MSE 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? 
covale ? covale4 A C MSE 168 A MSE 432 1_555 A N ILE 169 A ILE 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? 
covale ? covale5 A C LYS 184 A LYS 448 1_555 A N MSE 185 A MSE 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale6 A C MSE 185 A MSE 449 1_555 A N LEU 186 A LEU 450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale7 B C TYR 85 B TYR 349 1_555 B N MSE 86 B MSE 350 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale8 B C MSE 86 B MSE 350 1_555 B N ARG 87 B ARG 351 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale9 B C PRO 167 B PRO 431 1_555 B N MSE 168 B MSE 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale10 B C MSE 168 B MSE 432 1_555 B N ILE 169 B ILE 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? 
covale ? covale11 B C LYS 184 B LYS 448 1_555 B N MSE 185 B MSE 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale12 B C MSE 185 B MSE 449 1_555 B N LEU 186 B LEU 450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
#
_chem_comp.formula           'O4 P -3' 
_chem_comp.formula_weight    94.971 
_chem_comp.id                PO4 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHATE ION' 
_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
P O1 PO4 doub 266 n n 
P O2 PO4 sing 267 n n 
P O3 PO4 sing 268 n n 
P O4 PO4 sing 269 n n 
#
_atom_sites.entry_id                     2PB9 
_atom_sites.fract_transf_matrix[1][1]    0.0128 
_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]    0.0128 
_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]    0.006436 
_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
C 2 PO4 A 1 500 500 PO4 PO4 . 
D 2 PO4 B 1 500 500 PO4 PO4 . 
E 3 HOH A 1 1 1 HOH HOH . 
E 3 HOH A 2 3 3 HOH HOH . 
E 3 HOH A 3 4 4 HOH HOH . 
E 3 HOH A 4 8 8 HOH HOH . 
E 3 HOH A 5 12 12 HOH HOH . 
E 3 HOH A 6 13 13 HOH HOH . 
E 3 HOH A 7 14 14 HOH HOH . 
E 3 HOH A 8 20 20 HOH HOH . 
E 3 HOH A 9 22 22 HOH HOH . 
E 3 HOH A 10 25 25 HOH HOH . 
E 3 HOH A 11 29 29 HOH HOH . 
E 3 HOH A 12 30 30 HOH HOH . 
E 3 HOH A 13 32 32 HOH HOH . 
E 3 HOH A 14 33 33 HOH HOH . 
E 3 HOH A 15 35 35 HOH HOH . 
E 3 HOH A 16 36 36 HOH HOH . 
E 3 HOH A 17 39 39 HOH HOH . 
E 3 HOH A 18 42 42 HOH HOH . 
E 3 HOH A 19 43 43 HOH HOH . 
E 3 HOH A 20 46 46 HOH HOH . 
E 3 HOH A 21 48 48 HOH HOH . 
E 3 HOH A 22 53 53 HOH HOH . 
F 3 HOH B 1 2 2 HOH HOH . 
F 3 HOH B 2 5 5 HOH HOH . 
F 3 HOH B 3 6 6 HOH HOH . 
F 3 HOH B 4 7 7 HOH HOH . 
F 3 HOH B 5 9 9 HOH HOH . 
F 3 HOH B 6 10 10 HOH HOH . 
F 3 HOH B 7 11 11 HOH HOH . 
F 3 HOH B 8 15 15 HOH HOH . 
F 3 HOH B 9 16 16 HOH HOH . 
F 3 HOH B 10 17 17 HOH HOH . 
F 3 HOH B 11 18 18 HOH HOH . 
F 3 HOH B 12 19 19 HOH HOH . 
F 3 HOH B 13 21 21 HOH HOH . 
F 3 HOH B 14 23 23 HOH HOH . 
F 3 HOH B 15 24 24 HOH HOH . 
F 3 HOH B 16 26 26 HOH HOH . 
F 3 HOH B 17 27 27 HOH HOH . 
F 3 HOH B 18 28 28 HOH HOH . 
F 3 HOH B 19 31 31 HOH HOH . 
F 3 HOH B 20 34 34 HOH HOH . 
F 3 HOH B 21 37 37 HOH HOH . 
F 3 HOH B 22 38 38 HOH HOH . 
F 3 HOH B 23 40 40 HOH HOH . 
F 3 HOH B 24 41 41 HOH HOH . 
F 3 HOH B 25 44 44 HOH HOH . 
F 3 HOH B 26 45 45 HOH HOH . 
F 3 HOH B 27 47 47 HOH HOH . 
F 3 HOH B 28 49 49 HOH HOH . 
F 3 HOH B 29 50 50 HOH HOH . 
F 3 HOH B 30 51 51 HOH HOH . 
F 3 HOH B 31 52 52 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 P PO4 . . . D 2 37.667 -9.8 66.859 1 47.19 ? P PO4 500 B 1 
HETATM 2 O O1 PO4 . . . D 2 37.762 -9.12 68.205 1 46.14 ? O1 PO4 500 B 1 
HETATM 3 O O2 PO4 . . . D 2 38.889 -10.655 66.668 1 45.45 ? O2 PO4 500 B 1 
HETATM 4 O O3 PO4 . . . D 2 36.42 -10.664 66.802 1 45.47 ? O3 PO4 500 B 1 
HETATM 5 O O4 PO4 . . . D 2 37.556 -8.743 65.784 1 46.2 ? O4 PO4 500 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           324 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           5 
#