data_2P69
#
_model_server_result.job_id            qPyb27O1zRYJoEHMc79Waw 
_model_server_result.datetime_utc      '2024-11-18 12:24:52' 
_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          2p69 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":306}' 
#
_entry.id    2P69 
#
_exptl.entry_id    2P69 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              247.142 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "PYRIDOXAL-5'-PHOSPHATE" 
_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            2P69 
_cell.length_a            54.559 
_cell.length_b            54.559 
_cell.length_c            212.537 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2P69 
_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    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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 
#
_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
disulf ? disulf1 A SG CYS 93 A CYS 91 1_555 A SG CYS 223 A CYS 221 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? 
covale ? covale1 A C TYR 219 A TYR 217 1_555 A N MSE 220 A MSE 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale2 A C MSE 220 A MSE 218 1_555 A N PHE 221 A PHE 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale3 A C LEU 236 A LEU 234 1_555 A N MSE 237 A MSE 235 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale4 A C MSE 237 A MSE 235 1_555 A N VAL 238 A VAL 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
covale ? covale5 A C GLY 253 A GLY 251 1_555 A N MSE 254 A MSE 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale6 A C MSE 254 A MSE 252 1_555 A N THR 255 A THR 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
metalc ? metalc1 A OD1 ASP 27 A ASP 25 1_555 B CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.749 ? 
metalc ? metalc2 A OD2 ASP 27 A ASP 25 1_555 B CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? 
metalc ? metalc3 A O ASP 29 A ASP 27 1_555 B CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.527 ? 
metalc ? metalc4 A OD1 ASP 240 A ASP 238 1_555 B CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.447 ? 
metalc ? metalc5 B CA CA . A CA 305 1_555 C O3P PLP . A PLP 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.201 ? 
metalc ? metalc6 B CA CA . A CA 305 1_555 D O HOH . A HOH 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? 
metalc ? metalc7 B CA CA . A CA 305 1_555 D O HOH . A HOH 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? 
#
_chem_comp.formula           'C8 H10 N O6 P' 
_chem_comp.formula_weight    247.142 
_chem_comp.id                PLP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "PYRIDOXAL-5'-PHOSPHATE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'VITAMIN B6 Phosphate' 
#
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 PLP doub 260 n y 
N1 C6 PLP sing 261 n y 
C2 C2A PLP sing 262 n n 
C2 C3 PLP sing 263 n y 
C2A H2A1 PLP sing 264 n n 
C2A H2A2 PLP sing 265 n n 
C2A H2A3 PLP sing 266 n n 
C3 O3 PLP sing 267 n n 
C3 C4 PLP doub 268 n y 
O3 HO3 PLP sing 269 n n 
C4 C4A PLP sing 270 n n 
C4 C5 PLP sing 271 n y 
C4A O4A PLP doub 272 n n 
C4A H4A PLP sing 273 n n 
C5 C6 PLP doub 274 n y 
C5 C5A PLP sing 275 n n 
C6 H6 PLP sing 276 n n 
C5A O4P PLP sing 277 n n 
C5A H5A1 PLP sing 278 n n 
C5A H5A2 PLP sing 279 n n 
O4P P PLP sing 280 n n 
P O1P PLP doub 281 n n 
P O2P PLP sing 282 n n 
P O3P PLP sing 283 n n 
O2P HOP2 PLP sing 284 n n 
O3P HOP3 PLP sing 285 n n 
#
_atom_sites.entry_id                     2P69 
_atom_sites.fract_transf_matrix[1][1]    0.018329 
_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]    0.018329 
_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]    0.004705 
_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 CA A 1 305 301 CA CA . 
C 3 PLP A 1 306 300 PLP PLP . 
D 4 HOH A 1 307 2 HOH HOH . 
D 4 HOH A 2 308 5 HOH HOH . 
D 4 HOH A 3 309 6 HOH HOH . 
D 4 HOH A 4 310 7 HOH HOH . 
D 4 HOH A 5 311 8 HOH HOH . 
D 4 HOH A 6 312 9 HOH HOH . 
D 4 HOH A 7 313 10 HOH HOH . 
D 4 HOH A 8 314 11 HOH HOH . 
D 4 HOH A 9 315 12 HOH HOH . 
D 4 HOH A 10 316 13 HOH HOH . 
D 4 HOH A 11 317 14 HOH HOH . 
D 4 HOH A 12 318 15 HOH HOH . 
D 4 HOH A 13 319 16 HOH HOH . 
D 4 HOH A 14 320 17 HOH HOH . 
D 4 HOH A 15 321 18 HOH HOH . 
D 4 HOH A 16 322 19 HOH HOH . 
D 4 HOH A 17 323 21 HOH HOH . 
D 4 HOH A 18 324 22 HOH HOH . 
D 4 HOH A 19 325 23 HOH HOH . 
D 4 HOH A 20 326 24 HOH HOH . 
D 4 HOH A 21 327 25 HOH HOH . 
D 4 HOH A 22 328 26 HOH HOH . 
D 4 HOH A 23 329 27 HOH HOH . 
D 4 HOH A 24 330 28 HOH HOH . 
D 4 HOH A 25 331 29 HOH HOH . 
D 4 HOH A 26 332 30 HOH HOH . 
D 4 HOH A 27 333 31 HOH HOH . 
D 4 HOH A 28 334 32 HOH HOH . 
D 4 HOH A 29 335 33 HOH HOH . 
D 4 HOH A 30 336 34 HOH HOH . 
D 4 HOH A 31 337 36 HOH HOH . 
D 4 HOH A 32 338 39 HOH HOH . 
D 4 HOH A 33 339 41 HOH HOH . 
D 4 HOH A 34 340 44 HOH HOH . 
D 4 HOH A 35 341 45 HOH HOH . 
D 4 HOH A 36 342 46 HOH HOH . 
D 4 HOH A 37 343 47 HOH HOH . 
D 4 HOH A 38 344 49 HOH HOH . 
D 4 HOH A 39 345 56 HOH HOH . 
D 4 HOH A 40 346 57 HOH HOH . 
D 4 HOH A 41 347 59 HOH HOH . 
D 4 HOH A 42 348 61 HOH HOH . 
D 4 HOH A 43 349 63 HOH HOH . 
D 4 HOH A 44 350 64 HOH HOH . 
D 4 HOH A 45 351 65 HOH HOH . 
D 4 HOH A 46 352 66 HOH HOH . 
D 4 HOH A 47 353 73 HOH HOH . 
D 4 HOH A 48 354 74 HOH HOH . 
D 4 HOH A 49 355 92 HOH HOH . 
D 4 HOH A 50 356 94 HOH HOH . 
D 4 HOH A 51 357 95 HOH HOH . 
D 4 HOH A 52 358 97 HOH HOH . 
D 4 HOH A 53 359 98 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 PLP . . . C 3 -5.181 -7.065 15.746 1 47.19 ? N1 PLP 306 A 1 
HETATM 2 C C2 PLP . . . C 3 -5.449 -8.414 15.637 1 49.82 ? C2 PLP 306 A 1 
HETATM 3 C C2A PLP . . . C 3 -6.529 -8.902 14.714 1 46.33 ? C2A PLP 306 A 1 
HETATM 4 C C3 PLP . . . C 3 -4.731 -9.332 16.4 1 51.94 ? C3 PLP 306 A 1 
HETATM 5 O O3 PLP . . . C 3 -4.985 -10.676 16.303 1 58.51 ? O3 PLP 306 A 1 
HETATM 6 C C4 PLP . . . C 3 -3.743 -8.9 17.268 1 58.69 ? C4 PLP 306 A 1 
HETATM 7 C C4A PLP . . . C 3 -2.802 -9.881 17.911 1 66.44 ? C4A PLP 306 A 1 
HETATM 8 O O4A PLP . . . C 3 -3.131 -11.066 17.946 1 70.64 ? O4A PLP 306 A 1 
HETATM 9 C C5 PLP . . . C 3 -3.486 -7.554 17.38 1 52.5 ? C5 PLP 306 A 1 
HETATM 10 C C6 PLP . . . C 3 -4.195 -6.628 16.614 1 53.26 ? C6 PLP 306 A 1 
HETATM 11 C C5A PLP . . . C 3 -2.389 -7.159 18.328 1 51.7 ? C5A PLP 306 A 1 
HETATM 12 O O4P PLP . . . C 3 -2.755 -6.029 19.062 1 48.56 ? O4P PLP 306 A 1 
HETATM 13 P P PLP . . . C 3 -1.761 -5.511 20.217 1 43.84 ? P PLP 306 A 1 
HETATM 14 O O1P PLP . . . C 3 -2.354 -5.885 21.59 1 42.12 ? O1P PLP 306 A 1 
HETATM 15 O O2P PLP . . . C 3 -1.734 -4.013 20.042 1 40.42 ? O2P PLP 306 A 1 
HETATM 16 O O3P PLP . . . C 3 -0.411 -6.208 20.048 1 39.76 ? O3P PLP 306 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           744 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           16 
#