data_2OI2
#
_model_server_result.job_id            4sSmRC1KplSRFqnelvexRg 
_model_server_result.datetime_utc      '2025-04-12 22:30:56' 
_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          2oi2 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":300}' 
#
_entry.id    2OI2 
#
_exptl.entry_id    2OI2 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              308.117 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(3R)-3-HYDROXY-5-{[(R)-HYDROXY(PHOSPHONOOXY)PHOSPHORYL]OXY}-3-METHYLPENTANOIC ACID' 
_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         120 
_cell.entry_id            2OI2 
_cell.length_a            101.597 
_cell.length_b            101.597 
_cell.length_c            83.28 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2OI2 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_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    1,2 
#
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' 4_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 83.28 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_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 A OG SER 92 A SER 92 1_555 B MG MG . A MG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? 
metalc ? metalc2 A OD2 ASP 135 A ASP 135 1_555 B MG MG . A MG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? 
metalc ? metalc3 C O1A DP6 . A DP6 300 1_555 B MG MG . A MG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.904 ? 
metalc ? metalc4 C O1B DP6 . A DP6 300 1_555 B MG MG . A MG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? 
metalc ? metalc5 B MG MG . A MG 400 1_555 D O HOH . A HOH 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? 
#
_chem_comp.formula           'C6 H14 O10 P2' 
_chem_comp.formula_weight    308.117 
_chem_comp.id                DP6 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(3R)-3-HYDROXY-5-{[(R)-HYDROXY(PHOSPHONOOXY)PHOSPHORYL]OXY}-3-METHYLPENTANOIC ACID' 
_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
C3A C3 DP6 sing 83 n n 
C3A H3A1 DP6 sing 84 n n 
C3A H3A2 DP6 sing 85 n n 
C3A H3A3 DP6 sing 86 n n 
O1A PA DP6 doub 87 n n 
O2A PA DP6 sing 88 n n 
O2A HO2A DP6 sing 89 n n 
O3A C3 DP6 sing 90 n n 
O3A HO3A DP6 sing 91 n n 
O1B PB DP6 doub 92 n n 
O2B PB DP6 sing 93 n n 
O2B HO2B DP6 sing 94 n n 
O3B PB DP6 sing 95 n n 
O3B HO3B DP6 sing 96 n n 
PB O6 DP6 sing 97 n n 
O6 PA DP6 sing 98 n n 
PA O5 DP6 sing 99 n n 
O5 C5 DP6 sing 100 n n 
C5 C4 DP6 sing 101 n n 
C5 H51 DP6 sing 102 n n 
C5 H52 DP6 sing 103 n n 
C4 C3 DP6 sing 104 n n 
C4 H41 DP6 sing 105 n n 
C4 H42 DP6 sing 106 n n 
C3 C2 DP6 sing 107 n n 
C2 C1 DP6 sing 108 n n 
C2 H21 DP6 sing 109 n n 
C2 H22 DP6 sing 110 n n 
C1 O1 DP6 doub 111 n n 
C1 O2 DP6 sing 112 n n 
O2 HO2 DP6 sing 113 n n 
#
_atom_sites.entry_id                     2OI2 
_atom_sites.fract_transf_matrix[1][1]    0.009843 
_atom_sites.fract_transf_matrix[1][2]    0.005683 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011365 
_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]    0.012008 
_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 MG A 1 400 400 MG MG2 . 
C 3 DP6 A 1 300 300 DP6 DPM . 
D 4 HOH A 1 401 1 HOH TIP . 
D 4 HOH A 2 402 2 HOH TIP . 
D 4 HOH A 3 403 3 HOH TIP . 
D 4 HOH A 4 404 4 HOH TIP . 
D 4 HOH A 5 405 5 HOH TIP . 
D 4 HOH A 6 406 6 HOH TIP . 
D 4 HOH A 7 407 7 HOH TIP . 
D 4 HOH A 8 408 9 HOH TIP . 
D 4 HOH A 9 409 11 HOH TIP . 
D 4 HOH A 10 410 12 HOH TIP . 
D 4 HOH A 11 411 13 HOH TIP . 
D 4 HOH A 12 412 15 HOH TIP . 
D 4 HOH A 13 413 17 HOH TIP . 
D 4 HOH A 14 414 18 HOH TIP . 
D 4 HOH A 15 415 19 HOH TIP . 
D 4 HOH A 16 416 20 HOH TIP . 
D 4 HOH A 17 417 21 HOH TIP . 
D 4 HOH A 18 418 22 HOH TIP . 
D 4 HOH A 19 419 23 HOH TIP . 
D 4 HOH A 20 420 24 HOH TIP . 
D 4 HOH A 21 421 25 HOH TIP . 
D 4 HOH A 22 422 26 HOH TIP . 
D 4 HOH A 23 423 27 HOH TIP . 
D 4 HOH A 24 424 28 HOH TIP . 
D 4 HOH A 25 425 29 HOH TIP . 
D 4 HOH A 26 426 30 HOH TIP . 
D 4 HOH A 27 427 32 HOH TIP . 
D 4 HOH A 28 428 33 HOH TIP . 
D 4 HOH A 29 429 34 HOH TIP . 
D 4 HOH A 30 430 35 HOH TIP . 
D 4 HOH A 31 431 36 HOH TIP . 
D 4 HOH A 32 432 38 HOH TIP . 
D 4 HOH A 33 433 39 HOH TIP . 
D 4 HOH A 34 434 41 HOH TIP . 
D 4 HOH A 35 435 43 HOH TIP . 
D 4 HOH A 36 436 45 HOH TIP . 
D 4 HOH A 37 437 46 HOH TIP . 
D 4 HOH A 38 438 47 HOH TIP . 
D 4 HOH A 39 439 49 HOH TIP . 
D 4 HOH A 40 440 50 HOH TIP . 
D 4 HOH A 41 441 51 HOH TIP . 
D 4 HOH A 42 442 52 HOH TIP . 
D 4 HOH A 43 443 54 HOH TIP . 
D 4 HOH A 44 444 55 HOH TIP . 
D 4 HOH A 45 445 56 HOH TIP . 
D 4 HOH A 46 446 58 HOH TIP . 
D 4 HOH A 47 447 59 HOH TIP . 
D 4 HOH A 48 448 60 HOH TIP . 
D 4 HOH A 49 449 61 HOH TIP . 
D 4 HOH A 50 450 63 HOH TIP . 
D 4 HOH A 51 451 64 HOH TIP . 
D 4 HOH A 52 452 71 HOH TIP . 
D 4 HOH A 53 453 72 HOH TIP . 
D 4 HOH A 54 454 73 HOH TIP . 
D 4 HOH A 55 455 74 HOH TIP . 
D 4 HOH A 56 456 75 HOH TIP . 
D 4 HOH A 57 457 76 HOH TIP . 
D 4 HOH A 58 458 77 HOH TIP . 
#
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 C C3A DP6 . . . C 3 23.813 24.338 48.187 1 43.85 ? C3A DP6 300 A 1 
HETATM 2 O O1A DP6 . . . C 3 28.91 25.362 44.813 1 37.91 ? O1A DP6 300 A 1 
HETATM 3 O O2A DP6 . . . C 3 30.564 24.607 46.587 1 35.32 ? O2A DP6 300 A 1 
HETATM 4 O O3A DP6 . . . C 3 24.017 26.694 48.658 1 39.55 ? O3A DP6 300 A 1 
HETATM 5 O O1B DP6 . . . C 3 30.068 23.169 43.348 1 38.88 ? O1B DP6 300 A 1 
HETATM 6 O O2B DP6 . . . C 3 28.444 21.248 43.833 1 37.94 ? O2B DP6 300 A 1 
HETATM 7 O O3B DP6 . . . C 3 30.746 21.292 44.982 1 35.96 ? O3B DP6 300 A 1 
HETATM 8 P PB DP6 . . . C 3 29.587 22.23 44.383 1 36.35 ? PB DP6 300 A 1 
HETATM 9 O O6 DP6 . . . C 3 28.917 22.973 45.644 1 36.97 ? O6 DP6 300 A 1 
HETATM 10 P PA DP6 . . . C 3 29.206 24.517 45.99 1 38.62 ? PA DP6 300 A 1 
HETATM 11 O O5 DP6 . . . C 3 28.114 24.769 47.141 1 38.06 ? O5 DP6 300 A 1 
HETATM 12 C C5 DP6 . . . C 3 26.719 24.84 46.83 1 38.6 ? C5 DP6 300 A 1 
HETATM 13 C C4 DP6 . . . C 3 25.996 25.511 48.001 1 42.23 ? C4 DP6 300 A 1 
HETATM 14 C C3 DP6 . . . C 3 24.487 25.655 47.797 1 42.95 ? C3 DP6 300 A 1 
HETATM 15 C C2 DP6 . . . C 3 24.165 26.003 46.337 1 45.12 ? C2 DP6 300 A 1 
HETATM 16 C C1 DP6 . . . C 3 24.567 27.418 45.899 1 46.09 ? C1 DP6 300 A 1 
HETATM 17 O O1 DP6 . . . C 3 25.058 27.621 44.791 1 47.93 ? O1 DP6 300 A 1 
HETATM 18 O O2 DP6 . . . C 3 24.384 28.374 46.643 1 49.9 ? O2 DP6 300 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           312 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           18 
#