data_7UPD
#
_model_server_result.job_id            gq4HOgO1sMI4JQV5K0ByQA 
_model_server_result.datetime_utc      '2024-11-25 01:59:12' 
_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          7upd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"U","auth_seq_id":504}' 
#
_entry.id    7UPD 
#
_exptl.entry_id    7UPD 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_entity.pdbx_number_of_molecules    12 
_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            7UPD 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7UPD 
_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    nonameric 
_pdbx_struct_assembly.oligomeric_count      9 
_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,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U 
_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
? 4 J N N 
? 4 K N N 
? 4 L N N 
? 4 M N N 
? 4 N N N 
? 4 O N N 
? 4 P N N 
? 4 Q N N 
? 4 R N N 
? 4 S N N 
? 4 T N N 
? 4 U 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 71 A CYS 71 1_555 A SG CYS 192 A CYS 192 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 A SG CYS 104 A CYS 104 1_555 A SG CYS 114 A CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf3 A SG CYS 331 A CYS 331 1_555 A SG CYS 340 A CYS 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf4 A SG CYS 355 A CYS 355 1_555 A SG CYS 363 A CYS 363 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf5 A SG CYS 387 A CYS 387 1_555 A SG CYS 392 A CYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf6 A SG CYS 394 A CYS 394 1_555 A SG CYS 417 A CYS 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf7 B SG CYS 41 B CYS 22 1_555 B SG CYS 117 B CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
disulf ? disulf8 C SG CYS 41 C CYS 22 1_555 C SG CYS 117 C CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
disulf ? disulf9 D SG CYS 71 D CYS 71 1_555 D SG CYS 192 D CYS 192 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf10 D SG CYS 104 D CYS 104 1_555 D SG CYS 114 D CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf11 D SG CYS 331 D CYS 331 1_555 D SG CYS 340 D CYS 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf12 D SG CYS 355 D CYS 355 1_555 D SG CYS 363 D CYS 363 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf13 D SG CYS 387 D CYS 387 1_555 D SG CYS 392 D CYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf14 D SG CYS 394 D CYS 394 1_555 D SG CYS 417 D CYS 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf15 E SG CYS 42 E CYS 23 1_555 E SG CYS 113 E CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf16 F SG CYS 42 F CYS 23 1_555 F SG CYS 113 F CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf17 G SG CYS 71 G CYS 71 1_555 G SG CYS 192 G CYS 192 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf18 G SG CYS 104 G CYS 104 1_555 G SG CYS 114 G CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf19 G SG CYS 331 G CYS 331 1_555 G SG CYS 340 G CYS 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf20 G SG CYS 355 G CYS 355 1_555 G SG CYS 363 G CYS 363 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf21 G SG CYS 387 G CYS 387 1_555 G SG CYS 392 G CYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf22 G SG CYS 394 G CYS 394 1_555 G SG CYS 417 G CYS 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf23 H SG CYS 41 H CYS 22 1_555 H SG CYS 117 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf24 I SG CYS 42 L CYS 23 1_555 I SG CYS 113 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
covale ? covale1 A ND2 ASN 67 A ASN 67 1_555 J C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? 
covale ? covale2 A ND2 ASN 99 A ASN 99 1_555 K C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale3 A ND2 ASN 414 A ASN 414 1_555 L C1 NAG . A NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale4 A ND2 ASN 464 A ASN 464 1_555 M C1 NAG . A NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale5 D ND2 ASN 67 D ASN 67 1_555 N C1 NAG . D NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale6 D ND2 ASN 99 D ASN 99 1_555 O C1 NAG . D NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale7 D ND2 ASN 414 D ASN 414 1_555 P C1 NAG . D NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale8 D ND2 ASN 464 D ASN 464 1_555 Q C1 NAG . D NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale9 G ND2 ASN 67 G ASN 67 1_555 R C1 NAG . G NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale10 G ND2 ASN 99 G ASN 99 1_555 S C1 NAG . G NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale11 G ND2 ASN 414 G ASN 414 1_555 T C1 NAG . G NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale12 G ND2 ASN 464 G ASN 464 1_555 U C1 NAG . G NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
#
_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                     7UPD 
_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
J 4 NAG A 1 501 481 NAG NAG . 
K 4 NAG A 1 502 482 NAG NAG . 
L 4 NAG A 1 503 483 NAG NAG . 
M 4 NAG A 1 504 484 NAG NAG . 
N 4 NAG D 1 501 481 NAG NAG . 
O 4 NAG D 1 502 482 NAG NAG . 
P 4 NAG D 1 503 483 NAG NAG . 
Q 4 NAG D 1 504 484 NAG NAG . 
R 4 NAG G 1 501 481 NAG NAG . 
S 4 NAG G 1 502 482 NAG NAG . 
T 4 NAG G 1 503 483 NAG NAG . 
U 4 NAG G 1 504 484 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 . . . U 4 169.298 174.775 194.216 1 69.31 ? C1 NAG 504 G 1 
HETATM 2 C C2 NAG . . . U 4 168.55 175.443 193.06 1 70.37 ? C2 NAG 504 G 1 
HETATM 3 C C3 NAG . . . U 4 167.224 176.019 193.549 1 72.42 ? C3 NAG 504 G 1 
HETATM 4 C C4 NAG . . . U 4 166.41 174.951 194.268 1 73.13 ? C4 NAG 504 G 1 
HETATM 5 C C5 NAG . . . U 4 167.243 174.317 195.377 1 72 ? C5 NAG 504 G 1 
HETATM 6 C C6 NAG . . . U 4 166.54 173.17 196.065 1 71.05 ? C6 NAG 504 G 1 
HETATM 7 C C7 NAG . . . U 4 170.173 176.257 191.406 1 72.01 ? C7 NAG 504 G 1 
HETATM 8 C C8 NAG . . . U 4 170.937 177.443 190.901 1 68.1 ? C8 NAG 504 G 1 
HETATM 9 N N2 NAG . . . U 4 169.361 176.482 192.445 1 71 ? N2 NAG 504 G 1 
HETATM 10 O O3 NAG . . . U 4 166.49 176.524 192.439 1 71.55 ? O3 NAG 504 G 1 
HETATM 11 O O4 NAG . . . U 4 165.235 175.524 194.828 1 71.92 ? O4 NAG 504 G 1 
HETATM 12 O O5 NAG . . . U 4 168.459 173.787 194.828 1 72.59 ? O5 NAG 504 G 1 
HETATM 13 O O6 NAG . . . U 4 166.905 173.084 197.435 1 71.62 ? O6 NAG 504 G 1 
HETATM 14 O O7 NAG . . . U 4 170.289 175.146 190.901 1 72.33 ? O7 NAG 504 G 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           26 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           280 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#