data_2PAF
#
_model_server_result.job_id            slI5PdflaEyCICYbORxKwg 
_model_server_result.datetime_utc      '2024-11-05 19:34:35' 
_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          2paf 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":901}' 
#
_entry.id    2PAF 
#
_exptl.entry_id    2PAF 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              285.25 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '2-nitrophenyl beta-D-fucopyranoside' 
_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            2PAF 
_cell.length_a            77.541 
_cell.length_b            77.541 
_cell.length_c            212.456 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2PAF 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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
? 2 C N N 
? 2 D N N 
#
_struct_conn.conn_type_id                   covale 
_struct_conn.details                        ? 
_struct_conn.id                             covale1 
_struct_conn.ptnr1_label_asym_id            B 
_struct_conn.ptnr1_label_atom_id            ND2 
_struct_conn.ptnr1_label_comp_id            ASN 
_struct_conn.ptnr1_label_seq_id             64 
_struct_conn.ptnr1_auth_asym_id             B 
_struct_conn.ptnr1_auth_comp_id             ASN 
_struct_conn.ptnr1_auth_seq_id              125 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            D 
_struct_conn.ptnr2_label_atom_id            O6B 
_struct_conn.ptnr2_label_comp_id            NPF 
_struct_conn.ptnr2_label_seq_id             . 
_struct_conn.ptnr2_auth_asym_id             B 
_struct_conn.ptnr2_auth_comp_id             NPF 
_struct_conn.ptnr2_auth_seq_id              901 
_struct_conn.ptnr2_symmetry                 1_555 
_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                1.871 
_struct_conn.pdbx_value_order               ? 
#
_chem_comp.formula           'C12 H15 N O7' 
_chem_comp.formula_weight    285.25 
_chem_comp.id                NPF 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              '2-nitrophenyl beta-D-fucopyranoside' 
_chem_comp.type              d-saccharide 
_chem_comp.pdbx_synonyms     'ORTHONITROPHENYL-BETA-D-FUCOPYRANOSIDE;2-nitrophenyl 6-deoxy-beta-D-galactopyranoside;2-nitrophenyl beta-D-fucoside;2-nitrophenyl D-fucoside;2-nitrophenyl fucoside' 
#
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
C1A C2A NPF doub 235 n y 
C1A C6A NPF sing 236 n y 
C1A O1 NPF sing 237 n n 
C2A C3A NPF sing 238 n y 
C2A H2A NPF sing 239 n n 
C3A C4A NPF doub 240 n y 
C3A H3A NPF sing 241 n n 
C4A C5A NPF sing 242 n y 
C4A H4A NPF sing 243 n n 
C5A C6A NPF doub 244 n y 
C5A H5A NPF sing 245 n n 
C6A N6 NPF sing 246 n n 
N6 O6A NPF sing 247 n n 
N6 O6B NPF doub 248 n n 
O1 C1 NPF sing 249 n n 
C1 C2 NPF sing 250 n n 
C1 O5 NPF sing 251 n n 
C1 H1 NPF sing 252 n n 
C2 O2 NPF sing 253 n n 
C2 C3 NPF sing 254 n n 
C2 H2 NPF sing 255 n n 
O2 HO2 NPF sing 256 n n 
C3 O3 NPF sing 257 n n 
C3 C4 NPF sing 258 n n 
C3 H3 NPF sing 259 n n 
O3 HO3 NPF sing 260 n n 
C4 O4 NPF sing 261 n n 
C4 C5 NPF sing 262 n n 
C4 H4 NPF sing 263 n n 
O4 HO4 NPF sing 264 n n 
C5 C6 NPF sing 265 n n 
C5 O5 NPF sing 266 n n 
C5 H5 NPF sing 267 n n 
C6 H61 NPF sing 268 n n 
C6 H62 NPF sing 269 n n 
C6 H63 NPF sing 270 n n 
#
_pdbx_chem_comp_identifier.comp_id            NPF 
_pdbx_chem_comp_identifier.identifier         orthonitrophenyl-b-D-fucopyranoside 
_pdbx_chem_comp_identifier.type               'IUPAC CARBOHYDRATE SYMBOL' 
_pdbx_chem_comp_identifier.program            PDB-CARE 
_pdbx_chem_comp_identifier.program_version    1 
#
_atom_sites.entry_id                     2PAF 
_atom_sites.fract_transf_matrix[1][1]    0.012896 
_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]    0.012896 
_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]    0.004707 
_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 NPF A 1 902 902 NPF NPF . 
D 2 NPF B 1 901 901 NPF NPF . 
#
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 C1A NPF . . . D 2 -23.166 29.904 -20.762 1 50.41 ? C1A NPF 901 B 1 
HETATM 2 C C2A NPF . . . D 2 -23.617 31.193 -21.106 1 53.49 ? C2A NPF 901 B 1 
HETATM 3 C C3A NPF . . . D 2 -24.955 31.547 -21.334 1 55.45 ? C3A NPF 901 B 1 
HETATM 4 C C4A NPF . . . D 2 -25.968 30.606 -21.181 1 56.18 ? C4A NPF 901 B 1 
HETATM 5 C C5A NPF . . . D 2 -25.638 29.298 -20.82 1 55.51 ? C5A NPF 901 B 1 
HETATM 6 C C6A NPF . . . D 2 -24.315 28.899 -20.587 1 53.95 ? C6A NPF 901 B 1 
HETATM 7 N N6 NPF . . . D 2 -24.098 27.624 -20.246 1 56.2 ? N6 NPF 901 B 1 
HETATM 8 O O6A NPF . . . D 2 -22.792 27.048 -19.957 1 56.1 ? O6A NPF 901 B 1 
HETATM 9 O O6B NPF . . . D 2 -25.255 26.803 -20.148 1 57.16 ? O6B NPF 901 B 1 
HETATM 10 O O1 NPF . . . D 2 -22.223 29.878 -19.689 1 42.37 ? O1 NPF 901 B 1 
HETATM 11 C C1 NPF . . . D 2 -20.988 29.682 -20.369 1 35.93 ? C1 NPF 901 B 1 
HETATM 12 C C2 NPF . . . D 2 -19.888 30.519 -19.718 1 34.3 ? C2 NPF 901 B 1 
HETATM 13 O O2 NPF . . . D 2 -20.14 31.906 -20.015 1 31.38 ? O2 NPF 901 B 1 
HETATM 14 C C3 NPF . . . D 2 -18.462 30.04 -20.144 1 33.63 ? C3 NPF 901 B 1 
HETATM 15 O O3 NPF . . . D 2 -17.478 30.268 -19.118 1 32.52 ? O3 NPF 901 B 1 
HETATM 16 C C4 NPF . . . D 2 -18.388 28.543 -20.417 1 33.74 ? C4 NPF 901 B 1 
HETATM 17 O O4 NPF . . . D 2 -18.262 27.93 -19.14 1 34.01 ? O4 NPF 901 B 1 
HETATM 18 C C5 NPF . . . D 2 -19.626 28.001 -21.146 1 34.38 ? C5 NPF 901 B 1 
HETATM 19 C C6 NPF . . . D 2 -19.572 26.49 -21.487 1 34.8 ? C6 NPF 901 B 1 
HETATM 20 O O5 NPF . . . D 2 -20.692 28.297 -20.256 1 33.9 ? O5 NPF 901 B 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           224 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           20 
#