data_9BRY
#
_model_server_result.job_id            I68Asysh0PLaabJR29fayg 
_model_server_result.datetime_utc      '2024-10-19 14:20:45' 
_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          9bry 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"X","auth_seq_id":505}' 
#
_entry.id    9BRY 
#
_exptl.entry_id    9BRY 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          11 
_entity.src_method                  man 
_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            9BRY 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9BRY 
_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    hexadecameric 
_pdbx_struct_assembly.oligomeric_count      16 
_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 
_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
? 11 T N N 
? 11 V N N 
? 11 W N N 
? 11 X N N 
#
loop_
_pdbx_entity_branch.entity_id
_pdbx_entity_branch.type
9 oligosaccharide 
10 oligosaccharide 
#
loop_
_pdbx_entity_branch_link.link_id
_pdbx_entity_branch_link.details
_pdbx_entity_branch_link.entity_id
_pdbx_entity_branch_link.entity_branch_list_num_1
_pdbx_entity_branch_link.entity_branch_list_num_2
_pdbx_entity_branch_link.comp_id_1
_pdbx_entity_branch_link.comp_id_2
_pdbx_entity_branch_link.atom_id_1
_pdbx_entity_branch_link.leaving_atom_id_1
_pdbx_entity_branch_link.atom_stereo_config_1
_pdbx_entity_branch_link.atom_id_2
_pdbx_entity_branch_link.leaving_atom_id_2
_pdbx_entity_branch_link.atom_stereo_config_2
_pdbx_entity_branch_link.value_order
1 ? 9 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
2 ? 9 3 2 NAG NAG C1 O1 . O4 HO4 . sing 
3 ? 10 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
#
loop_
_pdbx_branch_scheme.entity_id
_pdbx_branch_scheme.hetero
_pdbx_branch_scheme.asym_id
_pdbx_branch_scheme.mon_id
_pdbx_branch_scheme.num
_pdbx_branch_scheme.pdb_asym_id
_pdbx_branch_scheme.pdb_seq_num
_pdbx_branch_scheme.pdb_mon_id
_pdbx_branch_scheme.auth_asym_id
_pdbx_branch_scheme.auth_seq_num
_pdbx_branch_scheme.auth_mon_id
9 n Q NAG 1 A 1 NAG c 514 NAG 
9 n Q NAG 2 A 2 NAG c 515 NAG 
9 n Q NAG 3 A 3 NAG c 516 NAG 
10 n R NAG 1 B 1 NAG c 517 NAG 
10 n R NAG 2 B 2 NAG c 518 NAG 
10 n S NAG 1 C 1 NAG c 525 NAG 
10 n S NAG 2 C 2 NAG c 526 NAG 
#
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
covale ? covale1 A ND2 ASN 255 c ASN 255 1_555 W C1 NAG . c NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? 
covale ? covale2 A ND2 ASN 267 c ASN 267 1_555 S C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.474 ? 
covale ? covale3 A ND2 ASN 290 c ASN 290 1_555 T C1 NAG . c NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale4 A ND2 ASN 297 c ASN 297 1_555 V C1 NAG . c NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? 
covale ? covale5 A ND2 ASN 344 c ASN 344 1_555 R C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? 
covale ? covale6 A ND2 ASN 351 c ASN 351 1_555 Q C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale7 A ND2 ASN 399 c ASN 399 1_555 X C1 NAG . c NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale8 Q O4 NAG . A NAG 1 1_555 Q C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? 
covale ? covale9 Q O4 NAG . A NAG 2 1_555 Q C1 NAG . A NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale10 R O4 NAG . B NAG 1 1_555 R C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? 
covale ? covale11 S O4 NAG . C NAG 1 1_555 S C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? 
#
_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 259 n n 
C1 O1 NAG sing 260 n n 
C1 O5 NAG sing 261 n n 
C1 H1 NAG sing 262 n n 
C2 C3 NAG sing 263 n n 
C2 N2 NAG sing 264 n n 
C2 H2 NAG sing 265 n n 
C3 C4 NAG sing 266 n n 
C3 O3 NAG sing 267 n n 
C3 H3 NAG sing 268 n n 
C4 C5 NAG sing 269 n n 
C4 O4 NAG sing 270 n n 
C4 H4 NAG sing 271 n n 
C5 C6 NAG sing 272 n n 
C5 O5 NAG sing 273 n n 
C5 H5 NAG sing 274 n n 
C6 O6 NAG sing 275 n n 
C6 H61 NAG sing 276 n n 
C6 H62 NAG sing 277 n n 
C7 C8 NAG sing 278 n n 
C7 N2 NAG sing 279 n n 
C7 O7 NAG doub 280 n n 
C8 H81 NAG sing 281 n n 
C8 H82 NAG sing 282 n n 
C8 H83 NAG sing 283 n n 
N2 HN2 NAG sing 284 n n 
O1 HO1 NAG sing 285 n n 
O3 HO3 NAG sing 286 n n 
O4 HO4 NAG sing 287 n n 
O6 HO6 NAG sing 288 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                     9BRY 
_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
T 11 NAG c 1 501 519 NAG NAG . 
U 12 BMA c 1 502 521 BMA BMA . 
V 11 NAG c 1 503 522 NAG NAG . 
W 11 NAG c 1 504 523 NAG NAG . 
X 11 NAG c 1 505 524 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 . . . X 11 192.875 143.115 130.209 1 76.24 ? C1 NAG 505 c 1 
HETATM 2 C C2 NAG . . . X 11 192.443 141.808 130.892 1 76.24 ? C2 NAG 505 c 1 
HETATM 3 C C3 NAG . . . X 11 192.566 140.607 129.959 1 76.24 ? C3 NAG 505 c 1 
HETATM 4 C C4 NAG . . . X 11 191.934 140.905 128.609 1 76.24 ? C4 NAG 505 c 1 
HETATM 5 C C5 NAG . . . X 11 192.564 142.183 128.062 1 76.24 ? C5 NAG 505 c 1 
HETATM 6 C C6 NAG . . . X 11 192.104 142.532 126.664 1 76.24 ? C6 NAG 505 c 1 
HETATM 7 C C7 NAG . . . X 11 192.863 140.834 133.116 1 76.24 ? C7 NAG 505 c 1 
HETATM 8 C C8 NAG . . . X 11 193.887 140.747 134.219 1 76.24 ? C8 NAG 505 c 1 
HETATM 9 N N2 NAG . . . X 11 193.24 141.579 132.064 1 76.24 ? N2 NAG 505 c 1 
HETATM 10 O O3 NAG . . . X 11 191.954 139.513 130.588 1 76.24 ? O3 NAG 505 c 1 
HETATM 11 O O4 NAG . . . X 11 192.177 139.8 127.772 1 76.24 ? O4 NAG 505 c 1 
HETATM 12 O O5 NAG . . . X 11 192.256 143.239 128.949 1 76.24 ? O5 NAG 505 c 1 
HETATM 13 O O6 NAG . . . X 11 190.7 142.464 126.593 1 76.24 ? O6 NAG 505 c 1 
HETATM 14 O O7 NAG . . . X 11 191.784 140.267 133.191 1 76.24 ? O7 NAG 505 c 1 
#
_model_server_stats.io_time_ms              118 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    32 
_model_server_stats.query_time_ms           312 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           14 
#