data_3ZYJ
#
_model_server_result.job_id            6VQ-sbFLG_OW_OldkTiTGQ 
_model_server_result.datetime_utc      '2025-03-03 07:31:47' 
_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          3zyj 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":1371}' 
#
_entry.id    3ZYJ 
#
_exptl.entry_id    3ZYJ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          3 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_entity.pdbx_number_of_molecules    8 
_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            3ZYJ 
_cell.length_a            184.42 
_cell.length_b            204.43 
_cell.length_c            288.07 
_cell.Z_PDB               32 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3ZYJ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        22 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'F 2 2 2' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,H,I 1 1 
C,D,J,K,L,M,N,O,P 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
? 3 E N N 
? 3 F N N 
? 3 G N N 
? 3 H N N 
? 3 J N N 
? 3 K N N 
? 3 L N N 
? 3 M 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
metalc ? metalc1 B O LEU 105 B LEU 105 1_555 I CA CA . B CA 1373 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? 
metalc ? metalc2 B OE2 GLU 110 B GLU 110 1_555 I CA CA . B CA 1373 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.172 ? 
metalc ? metalc3 B O THR 116 B THR 126 1_555 I CA CA . B CA 1373 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.787 ? 
metalc ? metalc4 B OG1 THR 116 B THR 126 1_555 I CA CA . B CA 1373 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.776 ? 
metalc ? metalc5 B O SER 289 B SER 299 1_555 I CA CA . B CA 1373 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.836 ? 
metalc ? metalc6 D O LEU 105 D LEU 105 1_555 P CA CA . D CA 1375 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? 
metalc ? metalc7 D OE2 GLU 110 D GLU 110 1_555 P CA CA . D CA 1375 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? 
metalc ? metalc8 D OG1 THR 116 D THR 126 1_555 P CA CA . D CA 1375 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? 
metalc ? metalc9 D O THR 116 D THR 126 1_555 P CA CA . D CA 1375 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.866 ? 
metalc ? metalc10 D O SER 289 D SER 299 1_555 P CA CA . D CA 1375 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.05 ? 
metalc ? metalc11 D OD1 ASP 290 D ASP 300 1_555 P CA CA . D CA 1375 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.714 ? 
#
_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 283 n n 
C1 O1 NAG sing 284 n n 
C1 O5 NAG sing 285 n n 
C1 H1 NAG sing 286 n n 
C2 C3 NAG sing 287 n n 
C2 N2 NAG sing 288 n n 
C2 H2 NAG sing 289 n n 
C3 C4 NAG sing 290 n n 
C3 O3 NAG sing 291 n n 
C3 H3 NAG sing 292 n n 
C4 C5 NAG sing 293 n n 
C4 O4 NAG sing 294 n n 
C4 H4 NAG sing 295 n n 
C5 C6 NAG sing 296 n n 
C5 O5 NAG sing 297 n n 
C5 H5 NAG sing 298 n n 
C6 O6 NAG sing 299 n n 
C6 H61 NAG sing 300 n n 
C6 H62 NAG sing 301 n n 
C7 C8 NAG sing 302 n n 
C7 N2 NAG sing 303 n n 
C7 O7 NAG doub 304 n n 
C8 H81 NAG sing 305 n n 
C8 H82 NAG sing 306 n n 
C8 H83 NAG sing 307 n n 
N2 HN2 NAG sing 308 n n 
O1 HO1 NAG sing 309 n n 
O3 HO3 NAG sing 310 n n 
O4 HO4 NAG sing 311 n n 
O6 HO6 NAG sing 312 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                     3ZYJ 
_atom_sites.fract_transf_matrix[1][1]    0.005422 
_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]    0.004892 
_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]    0.003471 
_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
E 3 NAG A 1 1445 1445 NAG NAG . 
F 3 NAG B 1 1370 1370 NAG NAG . 
G 3 NAG B 1 1371 1371 NAG NAG . 
H 3 NAG B 1 1372 1372 NAG NAG . 
I 4 CA B 1 1373 1373 CA CA . 
J 3 NAG C 1 1445 1445 NAG NAG . 
K 3 NAG D 1 1370 1370 NAG NAG . 
L 3 NAG D 1 1371 1371 NAG NAG . 
M 3 NAG D 1 1372 1372 NAG NAG . 
N 5 BMA D 1 1373 1373 BMA BMA . 
O 6 MAN D 1 1374 1374 MAN MAN . 
P 4 CA D 1 1375 1375 CA CA . 
#
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 . . . L 3 2.538 18.304 12.101 1 123.39 ? C1 NAG 1371 D 1 
HETATM 2 C C2 NAG . . . L 3 3.76 17.385 12.216 1 123.85 ? C2 NAG 1371 D 1 
HETATM 3 C C3 NAG . . . L 3 4.929 18.229 12.729 1 124.06 ? C3 NAG 1371 D 1 
HETATM 4 C C4 NAG . . . L 3 5.162 19.355 11.721 1 123.69 ? C4 NAG 1371 D 1 
HETATM 5 C C5 NAG . . . L 3 3.872 20.182 11.607 1 123.09 ? C5 NAG 1371 D 1 
HETATM 6 C C6 NAG . . . L 3 4.094 21.307 10.593 1 122.41 ? C6 NAG 1371 D 1 
HETATM 7 C C7 NAG . . . L 3 2.639 15.294 12.871 1 124.01 ? C7 NAG 1371 D 1 
HETATM 8 C C8 NAG . . . L 3 2.398 14.201 13.878 1 124.01 ? C8 NAG 1371 D 1 
HETATM 9 N N2 NAG . . . L 3 3.493 16.301 13.169 1 124.01 ? N2 NAG 1371 D 1 
HETATM 10 O O3 NAG . . . L 3 6.11 17.434 12.855 1 124.33 ? O3 NAG 1371 D 1 
HETATM 11 O O4 NAG . . . L 3 6.241 20.178 12.168 1 123.79 ? O4 NAG 1371 D 1 
HETATM 12 O O5 NAG . . . L 3 2.784 19.358 11.158 1 123.18 ? O5 NAG 1371 D 1 
HETATM 13 O O6 NAG . . . L 3 2.901 22.082 10.469 1 122.06 ? O6 NAG 1371 D 1 
HETATM 14 O O7 NAG . . . L 3 2.065 15.261 11.8 1 124.04 ? O7 NAG 1371 D 1 
#
_model_server_stats.io_time_ms              118 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           238 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           14 
#