data_8H3M
#
_model_server_result.job_id            vxqYT0rD6SIlH-fz1ozKPA 
_model_server_result.datetime_utc      '2024-11-21 09:29:25' 
_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          8h3m 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"W","auth_seq_id":1303}' 
#
_entry.id    8H3M 
#
_exptl.entry_id    8H3M 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_entity.pdbx_number_of_molecules    22 
_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            8H3M 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8H3M 
_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    pentameric 
_pdbx_struct_assembly.oligomeric_count      5 
_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,V,W,X,Y,Z,AA 
_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
? 3 F N N 
? 3 G N N 
? 3 H N N 
? 3 I N N 
? 3 J N N 
? 3 K N N 
? 3 L N N 
? 3 M N N 
? 3 N N N 
? 3 O N N 
? 3 P N N 
? 3 Q N N 
? 3 R N N 
? 3 S N N 
? 3 T N N 
? 3 U N N 
? 3 V N N 
? 3 W N N 
? 3 X N N 
? 3 Y N N 
? 3 Z N N 
? 3 AA 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 288 A CYS 291 1_555 A SG CYS 298 A CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf2 A SG CYS 333 A CYS 336 1_555 A SG CYS 358 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf3 A SG CYS 376 A CYS 379 1_555 A SG CYS 429 A CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf4 A SG CYS 388 A CYS 391 1_555 A SG CYS 522 A CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf5 A SG CYS 535 A CYS 538 1_555 A SG CYS 587 A CYS 590 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf6 A SG CYS 614 A CYS 617 1_555 A SG CYS 646 A CYS 649 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf7 A SG CYS 659 A CYS 662 1_555 A SG CYS 668 A CYS 671 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf8 A SG CYS 732 A CYS 738 1_555 A SG CYS 754 A CYS 760 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf9 A SG CYS 737 A CYS 743 1_555 A SG CYS 743 A CYS 749 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf10 A SG CYS 1026 A CYS 1032 1_555 A SG CYS 1037 A CYS 1043 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf11 A SG CYS 1076 A CYS 1082 1_555 A SG CYS 1120 A CYS 1126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf12 C SG CYS 288 B CYS 291 1_555 C SG CYS 298 B CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf13 C SG CYS 535 B CYS 538 1_555 C SG CYS 587 B CYS 590 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf14 C SG CYS 614 B CYS 617 1_555 C SG CYS 646 B CYS 649 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
disulf ? disulf15 C SG CYS 659 B CYS 662 1_555 C SG CYS 668 B CYS 671 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf16 C SG CYS 732 B CYS 738 1_555 C SG CYS 754 B CYS 760 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf17 C SG CYS 737 B CYS 743 1_555 C SG CYS 743 B CYS 749 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf18 C SG CYS 1026 B CYS 1032 1_555 C SG CYS 1037 B CYS 1043 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf19 C SG CYS 1076 B CYS 1082 1_555 C SG CYS 1120 B CYS 1126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf20 D SG CYS 288 C CYS 291 1_555 D SG CYS 298 C CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf21 D SG CYS 333 C CYS 336 1_555 D SG CYS 358 C CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf22 D SG CYS 376 C CYS 379 1_555 D SG CYS 429 C CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf23 D SG CYS 388 C CYS 391 1_555 D SG CYS 522 C CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf24 D SG CYS 535 C CYS 538 1_555 D SG CYS 587 C CYS 590 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf25 D SG CYS 614 C CYS 617 1_555 D SG CYS 646 C CYS 649 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf26 D SG CYS 659 C CYS 662 1_555 D SG CYS 668 C CYS 671 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf27 D SG CYS 732 C CYS 738 1_555 D SG CYS 754 C CYS 760 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf28 D SG CYS 737 C CYS 743 1_555 D SG CYS 743 C CYS 749 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf29 D SG CYS 1026 C CYS 1032 1_555 D SG CYS 1037 C CYS 1043 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf30 D SG CYS 1076 C CYS 1082 1_555 D SG CYS 1120 C CYS 1126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
covale ? covale1 A ND2 ASN 279 A ASN 282 1_555 L C1 NAG . A NAG 1307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? 
covale ? covale2 A ND2 ASN 340 A ASN 343 1_555 M C1 NAG . A NAG 1308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale3 A ND2 ASN 613 A ASN 616 1_555 I C1 NAG . A NAG 1304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale4 A ND2 ASN 703 A ASN 709 1_555 J C1 NAG . A NAG 1305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale5 A ND2 ASN 711 A ASN 717 1_555 N C1 NAG . A NAG 1309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
covale ? covale6 A ND2 ASN 795 A ASN 801 1_555 K C1 NAG . A NAG 1306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
covale ? covale7 A ND2 ASN 1068 A ASN 1074 1_555 F C1 NAG . A NAG 1301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
covale ? covale8 A ND2 ASN 1092 A ASN 1098 1_555 H C1 NAG . A NAG 1303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? 
covale ? covale9 A ND2 ASN 1128 A ASN 1134 1_555 G C1 NAG . A NAG 1302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale10 C ND2 ASN 703 B ASN 709 1_555 R C1 NAG . B NAG 1304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? 
covale ? covale11 C ND2 ASN 711 B ASN 717 1_555 T C1 NAG . B NAG 1306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale12 C ND2 ASN 795 B ASN 801 1_555 S C1 NAG . B NAG 1305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale13 C ND2 ASN 1068 B ASN 1074 1_555 O C1 NAG . B NAG 1301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale14 C ND2 ASN 1092 B ASN 1098 1_555 Q C1 NAG . B NAG 1303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? 
covale ? covale15 C ND2 ASN 1128 B ASN 1134 1_555 P C1 NAG . B NAG 1302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale16 D ND2 ASN 613 C ASN 616 1_555 X C1 NAG . C NAG 1304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale17 D ND2 ASN 703 C ASN 709 1_555 Y C1 NAG . C NAG 1305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
covale ? covale18 D ND2 ASN 711 C ASN 717 1_555 AA C1 NAG . C NAG 1307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale19 D ND2 ASN 795 C ASN 801 1_555 Z C1 NAG . C NAG 1306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
covale ? covale20 D ND2 ASN 1068 C ASN 1074 1_555 U C1 NAG . C NAG 1301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
covale ? covale21 D ND2 ASN 1092 C ASN 1098 1_555 W C1 NAG . C NAG 1303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? 
covale ? covale22 D ND2 ASN 1128 C ASN 1134 1_555 V C1 NAG . C NAG 1302 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                     8H3M 
_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
F 3 NAG A 1 1301 1305 NAG NAG . 
G 3 NAG A 1 1302 1306 NAG NAG . 
H 3 NAG A 1 1303 1307 NAG NAG . 
I 3 NAG A 1 1304 1309 NAG NAG . 
J 3 NAG A 1 1305 1310 NAG NAG . 
K 3 NAG A 1 1306 1311 NAG NAG . 
L 3 NAG A 1 1307 1312 NAG NAG . 
M 3 NAG A 1 1308 1314 NAG NAG . 
N 3 NAG A 1 1309 1315 NAG NAG . 
O 3 NAG B 1 1301 1305 NAG NAG . 
P 3 NAG B 1 1302 1306 NAG NAG . 
Q 3 NAG B 1 1303 1307 NAG NAG . 
R 3 NAG B 1 1304 1310 NAG NAG . 
S 3 NAG B 1 1305 1311 NAG NAG . 
T 3 NAG B 1 1306 1315 NAG NAG . 
U 3 NAG C 1 1301 1305 NAG NAG . 
V 3 NAG C 1 1302 1306 NAG NAG . 
W 3 NAG C 1 1303 1307 NAG NAG . 
X 3 NAG C 1 1304 1309 NAG NAG . 
Y 3 NAG C 1 1305 1310 NAG NAG . 
Z 3 NAG C 1 1306 1311 NAG NAG . 
AA 3 NAG C 1 1307 1315 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 . . . W 3 176.242 173.229 116.94 1 62.1 ? C1 NAG 1303 C 1 
HETATM 2 C C2 NAG . . . W 3 174.966 172.663 117.542 1 61.75 ? C2 NAG 1303 C 1 
HETATM 3 C C3 NAG . . . W 3 173.743 173.407 116.996 1 61.96 ? C3 NAG 1303 C 1 
HETATM 4 C C4 NAG . . . W 3 174.048 174.152 115.696 1 61.48 ? C4 NAG 1303 C 1 
HETATM 5 C C5 NAG . . . W 3 175.306 175.027 115.78 1 61.04 ? C5 NAG 1303 C 1 
HETATM 6 C C6 NAG . . . W 3 174.995 176.493 115.974 1 62.52 ? C6 NAG 1303 C 1 
HETATM 7 C C7 NAG . . . W 3 174.407 170.367 118.194 1 61.11 ? C7 NAG 1303 C 1 
HETATM 8 C C8 NAG . . . W 3 174.364 168.933 117.765 1 59.5 ? C8 NAG 1303 C 1 
HETATM 9 N N2 NAG . . . W 3 174.856 171.237 117.285 1 60.27 ? N2 NAG 1303 C 1 
HETATM 10 O O3 NAG . . . W 3 173.269 174.322 117.977 1 59.62 ? O3 NAG 1303 C 1 
HETATM 11 O O4 NAG . . . W 3 174.168 173.234 114.614 1 60.58 ? O4 NAG 1303 C 1 
HETATM 12 O O5 NAG . . . W 3 176.146 174.627 116.874 1 63.05 ? O5 NAG 1303 C 1 
HETATM 13 O O6 NAG . . . W 3 175.545 177.28 114.927 1 61.11 ? O6 NAG 1303 C 1 
HETATM 14 O O7 NAG . . . W 3 174.05 170.723 119.313 1 60.2 ? O7 NAG 1303 C 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    40 
_model_server_stats.query_time_ms           285 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#