data_1YBW
#
_model_server_result.job_id            JlVNA4-KSM7hZI_lI2RPkg 
_model_server_result.datetime_utc      '2025-07-13 15:02:56' 
_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          1ybw 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":741}' 
#
_entry.id    1YBW 
#
_exptl.entry_id    1YBW 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          2 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_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          107.77 
_cell.angle_gamma         90 
_cell.entry_id            1YBW 
_cell.length_a            52.43 
_cell.length_b            76.43 
_cell.length_c            72.15 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1YBW 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,E 1 1 
B,D,F 2 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 
#
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 22 A CYS 394 1_555 A SG CYS 149 A CYS 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? 
disulf ? disulf2 A SG CYS 60 A CYS 432 1_555 A SG CYS 76 A CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? 
disulf ? disulf3 A SG CYS 68 A CYS 440 1_555 A SG CYS 138 A CYS 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.722 ? 
disulf ? disulf4 A SG CYS 163 A CYS 535 1_555 A SG CYS 232 A CYS 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? 
disulf ? disulf5 A SG CYS 195 A CYS 567 1_555 A SG CYS 211 A CYS 583 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.047 ? 
disulf ? disulf6 B SG CYS 22 B CYS 394 1_555 B SG CYS 149 B CYS 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? 
disulf ? disulf7 B SG CYS 60 B CYS 432 1_555 B SG CYS 76 B CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.536 ? 
disulf ? disulf8 B SG CYS 68 B CYS 440 1_555 B SG CYS 138 B CYS 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.735 ? 
disulf ? disulf9 B SG CYS 163 B CYS 535 1_555 B SG CYS 232 B CYS 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.678 ? 
disulf ? disulf10 B SG CYS 195 B CYS 567 1_555 B SG CYS 211 B CYS 583 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.048 ? 
covale ? covale1 A ND2 ASN 96 A ASN 468 1_555 C C1 NAG . A NAG 741 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? 
covale ? covale2 B ND2 ASN 96 B ASN 468 1_555 D C1 NAG . B NAG 742 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? 
#
_chem_comp.formula           'C8 H15 N O6' 
_chem_comp.formula_weight    221.208 
_chem_comp.id                NAG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              2-acetamido-2-deoxy-beta-D-glucopyranose 
_chem_comp.type              'd-saccharide, beta linking' 
_chem_comp.pdbx_synonyms     N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE 
#
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
C1 C2 NAG sing 237 n n 
C1 O1 NAG sing 238 n n 
C1 O5 NAG sing 239 n n 
C1 H1 NAG sing 240 n n 
C2 C3 NAG sing 241 n n 
C2 N2 NAG sing 242 n n 
C2 H2 NAG sing 243 n n 
C3 C4 NAG sing 244 n n 
C3 O3 NAG sing 245 n n 
C3 H3 NAG sing 246 n n 
C4 C5 NAG sing 247 n n 
C4 O4 NAG sing 248 n n 
C4 H4 NAG sing 249 n n 
C5 C6 NAG sing 250 n n 
C5 O5 NAG sing 251 n n 
C5 H5 NAG sing 252 n n 
C6 O6 NAG sing 253 n n 
C6 H61 NAG sing 254 n n 
C6 H62 NAG sing 255 n n 
C7 C8 NAG sing 256 n n 
C7 N2 NAG sing 257 n n 
C7 O7 NAG doub 258 n n 
C8 H81 NAG sing 259 n n 
C8 H82 NAG sing 260 n n 
C8 H83 NAG sing 261 n n 
N2 HN2 NAG sing 262 n n 
O1 HO1 NAG sing 263 n n 
O3 HO3 NAG sing 264 n n 
O4 HO4 NAG sing 265 n n 
O6 HO6 NAG sing 266 n n 
#
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.identifier
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 
NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 
NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 
NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 
#
_atom_sites.entry_id                     1YBW 
_atom_sites.fract_transf_matrix[1][1]    0.019073 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.006113 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013084 
_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]    0.014554 
_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 NAG A 1 741 741 NAG NAG . 
D 2 NAG B 1 742 741 NAG NAG . 
E 3 HOH A 1 1 1 HOH WAT . 
E 3 HOH A 2 2 2 HOH WAT . 
E 3 HOH A 3 3 3 HOH WAT . 
E 3 HOH A 4 4 4 HOH WAT . 
E 3 HOH A 5 5 5 HOH WAT . 
E 3 HOH A 6 6 6 HOH WAT . 
E 3 HOH A 7 7 7 HOH WAT . 
E 3 HOH A 8 8 8 HOH WAT . 
E 3 HOH A 9 9 9 HOH WAT . 
E 3 HOH A 10 10 10 HOH WAT . 
E 3 HOH A 11 11 11 HOH WAT . 
E 3 HOH A 12 13 13 HOH WAT . 
E 3 HOH A 13 14 14 HOH WAT . 
E 3 HOH A 14 15 15 HOH WAT . 
E 3 HOH A 15 16 16 HOH WAT . 
E 3 HOH A 16 17 17 HOH WAT . 
E 3 HOH A 17 18 18 HOH WAT . 
E 3 HOH A 18 19 19 HOH WAT . 
E 3 HOH A 19 20 20 HOH WAT . 
E 3 HOH A 20 21 21 HOH WAT . 
E 3 HOH A 21 22 22 HOH WAT . 
E 3 HOH A 22 23 23 HOH WAT . 
E 3 HOH A 23 24 24 HOH WAT . 
E 3 HOH A 24 25 25 HOH WAT . 
E 3 HOH A 25 26 26 HOH WAT . 
E 3 HOH A 26 27 27 HOH WAT . 
E 3 HOH A 27 28 28 HOH WAT . 
E 3 HOH A 28 29 29 HOH WAT . 
E 3 HOH A 29 30 30 HOH WAT . 
E 3 HOH A 30 31 31 HOH WAT . 
E 3 HOH A 31 32 32 HOH WAT . 
E 3 HOH A 32 33 33 HOH WAT . 
E 3 HOH A 33 34 34 HOH WAT . 
E 3 HOH A 34 35 35 HOH WAT . 
E 3 HOH A 35 36 36 HOH WAT . 
E 3 HOH A 36 37 37 HOH WAT . 
E 3 HOH A 37 38 38 HOH WAT . 
E 3 HOH A 38 39 39 HOH WAT . 
E 3 HOH A 39 40 40 HOH WAT . 
E 3 HOH A 40 41 41 HOH WAT . 
E 3 HOH A 41 43 43 HOH WAT . 
E 3 HOH A 42 44 44 HOH WAT . 
E 3 HOH A 43 45 45 HOH WAT . 
E 3 HOH A 44 46 46 HOH WAT . 
E 3 HOH A 45 47 47 HOH WAT . 
E 3 HOH A 46 48 48 HOH WAT . 
E 3 HOH A 47 49 49 HOH WAT . 
E 3 HOH A 48 50 50 HOH WAT . 
E 3 HOH A 49 51 51 HOH WAT . 
E 3 HOH A 50 52 52 HOH WAT . 
E 3 HOH A 51 54 54 HOH WAT . 
E 3 HOH A 52 55 55 HOH WAT . 
E 3 HOH A 53 56 56 HOH WAT . 
E 3 HOH A 54 57 57 HOH WAT . 
E 3 HOH A 55 58 58 HOH WAT . 
E 3 HOH A 56 59 59 HOH WAT . 
E 3 HOH A 57 60 60 HOH WAT . 
F 3 HOH B 1 101 101 HOH WAT . 
F 3 HOH B 2 102 102 HOH WAT . 
F 3 HOH B 3 103 103 HOH WAT . 
F 3 HOH B 4 104 104 HOH WAT . 
F 3 HOH B 5 105 105 HOH WAT . 
F 3 HOH B 6 106 106 HOH WAT . 
F 3 HOH B 7 107 107 HOH WAT . 
F 3 HOH B 8 108 108 HOH WAT . 
F 3 HOH B 9 109 109 HOH WAT . 
F 3 HOH B 10 110 110 HOH WAT . 
F 3 HOH B 11 111 111 HOH WAT . 
F 3 HOH B 12 113 113 HOH WAT . 
F 3 HOH B 13 114 114 HOH WAT . 
F 3 HOH B 14 115 115 HOH WAT . 
F 3 HOH B 15 116 116 HOH WAT . 
F 3 HOH B 16 117 117 HOH WAT . 
F 3 HOH B 17 118 118 HOH WAT . 
F 3 HOH B 18 119 119 HOH WAT . 
F 3 HOH B 19 120 120 HOH WAT . 
F 3 HOH B 20 121 121 HOH WAT . 
F 3 HOH B 21 122 122 HOH WAT . 
F 3 HOH B 22 123 123 HOH WAT . 
F 3 HOH B 23 124 124 HOH WAT . 
F 3 HOH B 24 125 125 HOH WAT . 
F 3 HOH B 25 126 126 HOH WAT . 
F 3 HOH B 26 127 127 HOH WAT . 
F 3 HOH B 27 128 128 HOH WAT . 
F 3 HOH B 28 129 129 HOH WAT . 
F 3 HOH B 29 130 130 HOH WAT . 
F 3 HOH B 30 131 131 HOH WAT . 
F 3 HOH B 31 132 132 HOH WAT . 
F 3 HOH B 32 133 133 HOH WAT . 
F 3 HOH B 33 134 134 HOH WAT . 
F 3 HOH B 34 135 135 HOH WAT . 
F 3 HOH B 35 136 136 HOH WAT . 
F 3 HOH B 36 137 137 HOH WAT . 
F 3 HOH B 37 138 138 HOH WAT . 
F 3 HOH B 38 139 139 HOH WAT . 
F 3 HOH B 39 140 140 HOH WAT . 
F 3 HOH B 40 141 141 HOH WAT . 
F 3 HOH B 41 143 143 HOH WAT . 
F 3 HOH B 42 144 144 HOH WAT . 
F 3 HOH B 43 145 145 HOH WAT . 
F 3 HOH B 44 146 146 HOH WAT . 
F 3 HOH B 45 147 147 HOH WAT . 
F 3 HOH B 46 151 151 HOH WAT . 
F 3 HOH B 47 153 153 HOH WAT . 
F 3 HOH B 48 155 155 HOH WAT . 
F 3 HOH B 49 156 156 HOH WAT . 
F 3 HOH B 50 157 157 HOH WAT . 
F 3 HOH B 51 158 158 HOH WAT . 
F 3 HOH B 52 159 159 HOH WAT . 
F 3 HOH B 53 160 160 HOH WAT . 
#
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 C1 NAG . . . C 2 34.014 -14.454 15.157 1 53.1 ? C1 NAG 741 A 1 
HETATM 2 C C2 NAG . . . C 2 33.176 -14.11 16.399 1 53.99 ? C2 NAG 741 A 1 
HETATM 3 C C3 NAG . . . C 2 34.04 -13.52 17.519 1 55.95 ? C3 NAG 741 A 1 
HETATM 4 C C4 NAG . . . C 2 35.229 -14.438 17.798 1 56.31 ? C4 NAG 741 A 1 
HETATM 5 C C5 NAG . . . C 2 35.998 -14.691 16.504 1 56.59 ? C5 NAG 741 A 1 
HETATM 6 C C6 NAG . . . C 2 37.158 -15.631 16.746 1 57.22 ? C6 NAG 741 A 1 
HETATM 7 C C7 NAG . . . C 2 30.864 -13.615 15.987 1 51.73 ? C7 NAG 741 A 1 
HETATM 8 C C8 NAG . . . C 2 29.791 -12.604 15.59 1 51.51 ? C8 NAG 741 A 1 
HETATM 9 N N2 NAG . . . C 2 32.116 -13.186 16.043 1 52.9 ? N2 NAG 741 A 1 
HETATM 10 O O3 NAG . . . C 2 33.258 -13.387 18.7 1 56.64 ? O3 NAG 741 A 1 
HETATM 11 O O4 NAG . . . C 2 36.08 -13.818 18.748 1 57.99 ? O4 NAG 741 A 1 
HETATM 12 O O5 NAG . . . C 2 35.124 -15.303 15.526 1 55.43 ? O5 NAG 741 A 1 
HETATM 13 O O6 NAG . . . C 2 37.888 -15.879 15.556 1 57.93 ? O6 NAG 741 A 1 
HETATM 14 O O7 NAG . . . C 2 30.562 -14.777 16.238 1 52.02 ? O7 NAG 741 A 1 
#
_model_server_stats.io_time_ms              46 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           321 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           14 
#