data_1ABB
#
_model_server_result.job_id            F7yNfV3734pF3NlwLxxMFA 
_model_server_result.datetime_utc      '2024-10-13 19:15:25' 
_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          1abb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":933}' 
#
_entry.id    1ABB 
#
_exptl.entry_id    1ABB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              327.122 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "PYRIDOXAL-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          109.29 
_cell.angle_gamma         90 
_cell.entry_id            1ABB 
_cell.length_a            119 
_cell.length_b            188.1 
_cell.length_c            88.1 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1ABB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,G,H,I,J,K,L,M,N,O,P 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 F N N 
? 3 I N N 
? 3 L N N 
? 3 O 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 NZ LYS 671 A LYS 680 1_555 F C4A PDP . A PDP 931 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.378 ? 
covale ? covale2 B NZ LYS 671 B LYS 680 1_555 I C4A PDP . B PDP 932 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.372 ? 
covale ? covale3 C NZ LYS 671 C LYS 680 1_555 L C4A PDP . C PDP 933 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
covale ? covale4 D NZ LYS 671 D LYS 680 1_555 O C4A PDP . D PDP 934 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? 
#
_chem_comp.formula           'C8 H11 N O9 P2' 
_chem_comp.formula_weight    327.122 
_chem_comp.id                PDP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "PYRIDOXAL-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
N1 C2 PDP doub 273 n y 
N1 C6 PDP sing 274 n y 
C2 C2A PDP sing 275 n n 
C2 C3 PDP sing 276 n y 
C2A H2A1 PDP sing 277 n n 
C2A H2A2 PDP sing 278 n n 
C2A H2A3 PDP sing 279 n n 
C3 O3 PDP sing 280 n n 
C3 C4 PDP doub 281 n y 
O3 HO3 PDP sing 282 n n 
C4 C4A PDP sing 283 n n 
C4 C5 PDP sing 284 n y 
C4A O4A PDP doub 285 n n 
C4A H4A PDP sing 286 n n 
C5 C6 PDP doub 287 n y 
C5 C5A PDP sing 288 n n 
C6 H6 PDP sing 289 n n 
C5A O5A PDP sing 290 n n 
C5A H5A1 PDP sing 291 n n 
C5A H5A2 PDP sing 292 n n 
O5A PA PDP sing 293 n n 
PA O1A PDP doub 294 n n 
PA O3A PDP sing 295 n n 
PA O2A PDP sing 296 n n 
O3A PB PDP sing 297 n n 
O2A HOA2 PDP sing 298 n n 
PB O1B PDP doub 299 n n 
PB O2B PDP sing 300 n n 
PB O3B PDP sing 301 n n 
O2B HOB2 PDP sing 302 n n 
O3B HOB3 PDP sing 303 n n 
#
_atom_sites.entry_id                     1ABB 
_atom_sites.fract_transf_matrix[1][1]    0.008403 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002941 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.005316 
_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]    0.012026 
_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
E 2 SO4 A 1 900 900 SO4 SO4 . 
F 3 PDP A 1 931 931 PDP PDP . 
G 4 IMP A 1 920 920 IMP IMP . 
H 2 SO4 B 1 900 900 SO4 SO4 . 
I 3 PDP B 1 932 932 PDP PDP . 
J 4 IMP B 1 920 920 IMP IMP . 
K 2 SO4 C 1 900 900 SO4 SO4 . 
L 3 PDP C 1 933 933 PDP PDP . 
M 4 IMP C 1 920 920 IMP IMP . 
N 2 SO4 D 1 900 900 SO4 SO4 . 
O 3 PDP D 1 934 934 PDP PDP . 
P 4 IMP D 1 920 920 IMP IMP . 
#
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 PDP . . . L 3 105.286 43.362 51.207 1 10.33 ? N1 PDP 933 C 1 
HETATM 2 C C2 PDP . . . L 3 105.646 44.615 50.754 1 8.96 ? C2 PDP 933 C 1 
HETATM 3 C C2A PDP . . . L 3 104.614 45.716 50.591 1 2 ? C2A PDP 933 C 1 
HETATM 4 C C3 PDP . . . L 3 106.96 44.862 50.435 1 6.8 ? C3 PDP 933 C 1 
HETATM 5 O O3 PDP . . . L 3 107.245 46.113 49.988 1 9.89 ? O3 PDP 933 C 1 
HETATM 6 C C4 PDP . . . L 3 107.926 43.865 50.568 1 7.23 ? C4 PDP 933 C 1 
HETATM 7 C C4A PDP . . . L 3 109.38 44.127 50.223 1 2 ? C4A PDP 933 C 1 
HETATM 8 C C5 PDP . . . L 3 107.537 42.599 51.037 1 7.87 ? C5 PDP 933 C 1 
HETATM 9 C C6 PDP . . . L 3 106.218 42.394 51.359 1 5.95 ? C6 PDP 933 C 1 
HETATM 10 C C5A PDP . . . L 3 108.526 41.532 51.354 1 11.88 ? C5A PDP 933 C 1 
HETATM 11 O O5A PDP . . . L 3 108.657 41.356 52.841 1 20.79 ? O5A PDP 933 C 1 
HETATM 12 P PA PDP . . . L 3 109.967 40.685 53.519 1 18.5 ? PA PDP 933 C 1 
HETATM 13 O O1A PDP . . . L 3 110.32 41.463 54.721 1 30.58 ? O1A PDP 933 C 1 
HETATM 14 O O3A PDP . . . L 3 110.046 39.133 53.966 1 40.1 ? O3A PDP 933 C 1 
HETATM 15 O O2A PDP . . . L 3 111.01 40.733 52.468 1 28.72 ? O2A PDP 933 C 1 
HETATM 16 P PB PDP . . . L 3 108.733 38.145 54.016 1 66.04 ? PB PDP 933 C 1 
HETATM 17 O O1B PDP . . . L 3 109.357 36.923 54.603 1 67.73 ? O1B PDP 933 C 1 
HETATM 18 O O2B PDP . . . L 3 107.766 38.732 54.994 1 62.2 ? O2B PDP 933 C 1 
HETATM 19 O O3B PDP . . . L 3 108.219 37.968 52.611 1 66.33 ? O3B PDP 933 C 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    31 
_model_server_stats.query_time_ms           277 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           19 
#