data_7XGD
#
_model_server_result.job_id            lt2_EVSeXK4imoUYEgrKiw 
_model_server_result.datetime_utc      '2024-11-22 22:46:13' 
_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          7xgd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":1002}' 
#
_entry.id    7XGD 
#
_exptl.entry_id    7XGD 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            7XGD 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7XGD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 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,E,F 
_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    ? 
_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 
? 2 E N N 
? 2 F 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 3 A CYS 3 1_555 A SG CYS 22 A CYS 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf2 A SG CYS 120 A CYS 120 1_555 A SG CYS 148 A CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf3 A SG CYS 152 A CYS 152 1_555 A SG CYS 175 A CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? 
disulf ? disulf4 A SG CYS 162 A CYS 162 1_555 A SG CYS 181 A CYS 181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf5 A SG CYS 185 A CYS 185 1_555 A SG CYS 194 A CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf6 A SG CYS 189 A CYS 189 1_555 A SG CYS 200 A CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf7 A SG CYS 201 A CYS 201 1_555 A SG CYS 209 A CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf8 A SG CYS 205 A CYS 205 1_555 A SG CYS 218 A CYS 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf9 A SG CYS 221 A CYS 221 1_555 A SG CYS 230 A CYS 230 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf10 A SG CYS 234 A CYS 234 1_555 A SG CYS 246 A CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf11 A SG CYS 252 A CYS 252 1_555 A SG CYS 273 A CYS 273 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf12 A SG CYS 277 A CYS 277 1_555 A SG CYS 291 A CYS 291 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf13 A SG CYS 294 A CYS 294 1_555 A SG CYS 298 A CYS 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf14 A SG CYS 302 A CYS 302 1_555 A SG CYS 323 A CYS 323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf15 A SG CYS 633 A CYS 633 1_555 A SG CYS 849 A CYS 849 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf16 A SG CYS 669 A CYS 669 1_555 A SG CYS 672 A CYS 672 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf17 A SG CYS 670 A CYS 670 1_555 B SG CYS 670 B CYS 670 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf18 A SG CYS 776 A CYS 776 1_555 A SG CYS 785 A CYS 785 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf19 B SG CYS 3 B CYS 3 1_555 B SG CYS 22 B CYS 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf20 B SG CYS 120 B CYS 120 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf21 B SG CYS 152 B CYS 152 1_555 B SG CYS 175 B CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
disulf ? disulf22 B SG CYS 162 B CYS 162 1_555 B SG CYS 181 B CYS 181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? 
disulf ? disulf23 B SG CYS 185 B CYS 185 1_555 B SG CYS 194 B CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf24 B SG CYS 189 B CYS 189 1_555 B SG CYS 200 B CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf25 B SG CYS 201 B CYS 201 1_555 B SG CYS 209 B CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf26 B SG CYS 205 B CYS 205 1_555 B SG CYS 218 B CYS 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf27 B SG CYS 221 B CYS 221 1_555 B SG CYS 230 B CYS 230 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf28 B SG CYS 234 B CYS 234 1_555 B SG CYS 246 B CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf29 B SG CYS 252 B CYS 252 1_555 B SG CYS 273 B CYS 273 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf30 B SG CYS 277 B CYS 277 1_555 B SG CYS 291 B CYS 291 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf31 B SG CYS 294 B CYS 294 1_555 B SG CYS 298 B CYS 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf32 B SG CYS 302 B CYS 302 1_555 B SG CYS 323 B CYS 323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf33 B SG CYS 425 B CYS 425 1_555 B SG CYS 458 B CYS 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf34 B SG CYS 633 B CYS 633 1_555 B SG CYS 849 B CYS 849 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf35 B SG CYS 669 B CYS 669 1_555 B SG CYS 672 B CYS 672 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf36 B SG CYS 776 B CYS 776 1_555 B SG CYS 785 B CYS 785 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
covale ? covale1 A ND2 ASN 21 A ASN 21 1_555 C C1 NAG . A NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale2 A ND2 ASN 105 A ASN 105 1_555 D C1 NAG . A NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale3 B ND2 ASN 21 B ASN 21 1_555 E C1 NAG . B NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale4 B ND2 ASN 105 B ASN 105 1_555 F C1 NAG . B NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
#
_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 235 n n 
C1 O1 NAG sing 236 n n 
C1 O5 NAG sing 237 n n 
C1 H1 NAG sing 238 n n 
C2 C3 NAG sing 239 n n 
C2 N2 NAG sing 240 n n 
C2 H2 NAG sing 241 n n 
C3 C4 NAG sing 242 n n 
C3 O3 NAG sing 243 n n 
C3 H3 NAG sing 244 n n 
C4 C5 NAG sing 245 n n 
C4 O4 NAG sing 246 n n 
C4 H4 NAG sing 247 n n 
C5 C6 NAG sing 248 n n 
C5 O5 NAG sing 249 n n 
C5 H5 NAG sing 250 n n 
C6 O6 NAG sing 251 n n 
C6 H61 NAG sing 252 n n 
C6 H62 NAG sing 253 n n 
C7 C8 NAG sing 254 n n 
C7 N2 NAG sing 255 n n 
C7 O7 NAG doub 256 n n 
C8 H81 NAG sing 257 n n 
C8 H82 NAG sing 258 n n 
C8 H83 NAG sing 259 n n 
N2 HN2 NAG sing 260 n n 
O1 HO1 NAG sing 261 n n 
O3 HO3 NAG sing 262 n n 
O4 HO4 NAG sing 263 n n 
O6 HO6 NAG sing 264 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                     7XGD 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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 1001 1001 NAG NAG . 
D 2 NAG A 1 1002 1003 NAG NAG . 
E 2 NAG B 1 1001 1001 NAG NAG . 
F 2 NAG B 1 1002 1003 NAG NAG . 
#
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 . . . F 2 150.709 179.22 204.167 1 303.83 ? C1 NAG 1002 B 1 
HETATM 2 C C2 NAG . . . F 2 151.497 178.921 205.45 1 303.83 ? C2 NAG 1002 B 1 
HETATM 3 C C3 NAG . . . F 2 152.384 177.69 205.258 1 303.83 ? C3 NAG 1002 B 1 
HETATM 4 C C4 NAG . . . F 2 151.564 176.513 204.748 1 303.83 ? C4 NAG 1002 B 1 
HETATM 5 C C5 NAG . . . F 2 150.818 176.912 203.481 1 303.83 ? C5 NAG 1002 B 1 
HETATM 6 C C6 NAG . . . F 2 149.912 175.822 202.959 1 303.83 ? C6 NAG 1002 B 1 
HETATM 7 C C7 NAG . . . F 2 153.146 180.058 206.877 1 303.83 ? C7 NAG 1002 B 1 
HETATM 8 C C8 NAG . . . F 2 153.887 181.335 207.133 1 303.83 ? C8 NAG 1002 B 1 
HETATM 9 N N2 NAG . . . F 2 152.296 180.071 205.843 1 303.83 ? N2 NAG 1002 B 1 
HETATM 10 O O3 NAG . . . F 2 152.997 177.339 206.493 1 303.83 ? O3 NAG 1002 B 1 
HETATM 11 O O4 NAG . . . F 2 152.416 175.408 204.467 1 303.83 ? O4 NAG 1002 B 1 
HETATM 12 O O5 NAG . . . F 2 149.986 178.047 203.757 1 303.83 ? O5 NAG 1002 B 1 
HETATM 13 O O6 NAG . . . F 2 148.689 175.773 203.681 1 303.83 ? O6 NAG 1002 B 1 
HETATM 14 O O7 NAG . . . F 2 153.309 179.06 207.572 1 303.83 ? O7 NAG 1002 B 1 
HETATM 15 H H1 NAG . . . F 2 151.331 179.477 203.46 1 303.83 ? H1 NAG 1002 B 1 
HETATM 16 H H2 NAG . . . F 2 150.859 178.726 206.163 1 303.83 ? H2 NAG 1002 B 1 
HETATM 17 H H3 NAG . . . F 2 153.079 177.898 204.606 1 303.83 ? H3 NAG 1002 B 1 
HETATM 18 H H4 NAG . . . F 2 150.917 176.254 205.432 1 303.83 ? H4 NAG 1002 B 1 
HETATM 19 H H5 NAG . . . F 2 151.465 177.15 202.79 1 303.83 ? H5 NAG 1002 B 1 
HETATM 20 H H61 NAG . . . F 2 149.72 175.992 202.017 1 303.83 ? H61 NAG 1002 B 1 
HETATM 21 H H62 NAG . . . F 2 150.366 174.962 203.042 1 303.83 ? H62 NAG 1002 B 1 
HETATM 22 H H81 NAG . . . F 2 154.545 181.192 207.84 1 303.83 ? H81 NAG 1002 B 1 
HETATM 23 H H82 NAG . . . F 2 154.341 181.619 206.317 1 303.83 ? H82 NAG 1002 B 1 
HETATM 24 H H83 NAG . . . F 2 153.257 182.026 207.413 1 303.83 ? H83 NAG 1002 B 1 
HETATM 25 H HN2 NAG . . . F 2 152.215 180.84 205.36 1 303.83 ? HN2 NAG 1002 B 1 
HETATM 26 H HO3 NAG . . . F 2 153.254 176.489 206.465 1 303.83 ? HO3 NAG 1002 B 1 
HETATM 27 H HO4 NAG . . . F 2 152.929 175.6 203.769 1 303.83 ? HO4 NAG 1002 B 1 
HETATM 28 H HO6 NAG . . . F 2 148.795 176.17 204.468 1 303.83 ? HO6 NAG 1002 B 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    24 
_model_server_stats.query_time_ms           287 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           28 
#