data_8R5M
#
_model_server_result.job_id            qwymLXQCKHTQPq85XG0Wzg 
_model_server_result.datetime_utc      '2024-12-28 09:33:54' 
_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          8r5m 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":303}' 
#
_entry.id    8R5M 
#
_exptl.entry_id    8R5M 
_exptl.method      'X-RAY DIFFRACTION' 
#
_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    7 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          94.38 
_cell.angle_gamma         90 
_cell.entry_id            8R5M 
_cell.length_a            93.45 
_cell.length_b            73.22 
_cell.length_c            52.24 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8R5M 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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    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
? 2 B N N 
? 2 C N N 
? 2 D N N 
? 2 E N N 
? 2 F N N 
? 2 G N N 
? 2 H 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 19 A CYS 19 1_555 A SG CYS 117 A CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf2 A SG CYS 90 A CYS 90 1_555 A SG CYS 109 A CYS 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
disulf ? disulf3 A SG CYS 122 A CYS 122 1_555 A SG CYS 133 A CYS 133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
disulf ? disulf4 A SG CYS 127 A CYS 127 1_555 A SG CYS 142 A CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf5 A SG CYS 144 A CYS 144 1_555 A SG CYS 153 A CYS 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf6 A SG CYS 159 A CYS 159 1_555 A SG CYS 203 A CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf7 A SG CYS 172 A CYS 172 1_555 A SG CYS 185 A CYS 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? 
disulf ? disulf8 A SG CYS 189 A CYS 189 1_555 A SG CYS 216 A CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
disulf ? disulf9 A SG CYS 221 A CYS 221 1_555 A SG CYS 265 A CYS 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? 
disulf ? disulf10 A SG CYS 234 A CYS 234 1_555 A SG CYS 247 A CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf11 A SG CYS 251 A CYS 251 1_555 A SG CYS 278 A CYS 278 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
covale ? covale1 A ND2 ASN 4 A ASN 4 1_555 F C1 NAG . A NAG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
covale ? covale2 A ND2 ASN 124 A ASN 124 1_555 G C1 NAG . A NAG 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? 
covale ? covale3 A ND2 ASN 139 A ASN 139 1_555 C C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? 
covale ? covale4 A ND2 ASN 158 A ASN 158 1_555 D C1 NAG . A NAG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? 
covale ? covale5 A ND2 ASN 178 A ASN 178 1_555 E C1 NAG . A NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? 
covale ? covale6 A ND2 ASN 182 A ASN 182 1_555 B C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? 
covale ? covale7 A ND2 ASN 244 A ASN 244 1_555 H C1 NAG . A NAG 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? 
metalc ? metalc1 A OE2 GLU 80 A GLU 80 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? 
metalc ? metalc2 A OD1 ASN 82 A ASN 82 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? 
metalc ? metalc3 A OE1 GLU 88 A GLU 88 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? 
metalc ? metalc4 A OD1 ASN 105 A ASN 105 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.648 ? 
metalc ? metalc5 A O ASP 106 A ASP 106 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.649 ? 
metalc ? metalc6 A OD1 ASP 106 A ASP 106 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? 
metalc ? metalc7 A O GLY 168 A GLY 168 1_555 K CA CA . A CA 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.863 ? 
metalc ? metalc8 I OBM Y6O . A Y6O 308 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.83 ? 
metalc ? metalc9 I OBO Y6O . A Y6O 308 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? 
#
_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 237 n n 
C1 O1 NAG sing 238 n n 
C1 O5 NAG sing 239 n n 
C1 H1 NAG sing 240 n n 
C2 C3 NAG sing 241 n n 
C2 N2 NAG sing 242 n n 
C2 H2 NAG sing 243 n n 
C3 C4 NAG sing 244 n n 
C3 O3 NAG sing 245 n n 
C3 H3 NAG sing 246 n n 
C4 C5 NAG sing 247 n n 
C4 O4 NAG sing 248 n n 
C4 H4 NAG sing 249 n n 
C5 C6 NAG sing 250 n n 
C5 O5 NAG sing 251 n n 
C5 H5 NAG sing 252 n n 
C6 O6 NAG sing 253 n n 
C6 H61 NAG sing 254 n n 
C6 H62 NAG sing 255 n n 
C7 C8 NAG sing 256 n n 
C7 N2 NAG sing 257 n n 
C7 O7 NAG doub 258 n n 
C8 H81 NAG sing 259 n n 
C8 H82 NAG sing 260 n n 
C8 H83 NAG sing 261 n n 
N2 HN2 NAG sing 262 n n 
O1 HO1 NAG sing 263 n n 
O3 HO3 NAG sing 264 n n 
O4 HO4 NAG sing 265 n n 
O6 HO6 NAG sing 266 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                     8R5M 
_atom_sites.fract_transf_matrix[1][1]    0.010701 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00082 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013657 
_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]    0.019198 
_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
B 2 NAG A 1 301 281 NAG NAG . 
C 2 NAG A 1 302 282 NAG NAG . 
D 2 NAG A 1 303 283 NAG NAG . 
E 2 NAG A 1 304 284 NAG NAG . 
F 2 NAG A 1 305 285 NAG NAG . 
G 2 NAG A 1 306 286 NAG NAG . 
H 2 NAG A 1 307 287 NAG NAG . 
I 3 Y6O A 1 308 301 Y6O DRG . 
J 4 CA A 1 309 302 CA CA . 
K 4 CA A 1 310 303 CA CA . 
L 5 HOH A 1 401 17 HOH HOH . 
L 5 HOH A 2 402 22 HOH HOH . 
L 5 HOH A 3 403 56 HOH HOH . 
L 5 HOH A 4 404 16 HOH HOH . 
L 5 HOH A 5 405 1 HOH HOH . 
L 5 HOH A 6 406 64 HOH HOH . 
L 5 HOH A 7 407 27 HOH HOH . 
L 5 HOH A 8 408 18 HOH HOH . 
L 5 HOH A 9 409 38 HOH HOH . 
L 5 HOH A 10 410 2 HOH HOH . 
L 5 HOH A 11 411 65 HOH HOH . 
L 5 HOH A 12 412 59 HOH HOH . 
L 5 HOH A 13 413 57 HOH HOH . 
L 5 HOH A 14 414 13 HOH HOH . 
L 5 HOH A 15 415 50 HOH HOH . 
L 5 HOH A 16 416 4 HOH HOH . 
L 5 HOH A 17 417 14 HOH HOH . 
L 5 HOH A 18 418 23 HOH HOH . 
L 5 HOH A 19 419 66 HOH HOH . 
L 5 HOH A 20 420 26 HOH HOH . 
L 5 HOH A 21 421 61 HOH HOH . 
L 5 HOH A 22 422 58 HOH HOH . 
L 5 HOH A 23 423 24 HOH HOH . 
L 5 HOH A 24 424 36 HOH HOH . 
L 5 HOH A 25 425 49 HOH HOH . 
L 5 HOH A 26 426 42 HOH HOH . 
L 5 HOH A 27 427 34 HOH HOH . 
L 5 HOH A 28 428 8 HOH HOH . 
L 5 HOH A 29 429 43 HOH HOH . 
L 5 HOH A 30 430 6 HOH HOH . 
L 5 HOH A 31 431 48 HOH HOH . 
L 5 HOH A 32 432 25 HOH HOH . 
L 5 HOH A 33 433 21 HOH HOH . 
L 5 HOH A 34 434 9 HOH HOH . 
L 5 HOH A 35 435 11 HOH HOH . 
L 5 HOH A 36 436 12 HOH HOH . 
L 5 HOH A 37 437 60 HOH HOH . 
L 5 HOH A 38 438 52 HOH HOH . 
L 5 HOH A 39 439 31 HOH HOH . 
L 5 HOH A 40 440 54 HOH HOH . 
L 5 HOH A 41 441 62 HOH HOH . 
L 5 HOH A 42 442 41 HOH HOH . 
L 5 HOH A 43 443 3 HOH HOH . 
L 5 HOH A 44 444 35 HOH HOH . 
L 5 HOH A 45 445 68 HOH HOH . 
L 5 HOH A 46 446 7 HOH HOH . 
L 5 HOH A 47 447 28 HOH HOH . 
L 5 HOH A 48 448 10 HOH HOH . 
L 5 HOH A 49 449 63 HOH HOH . 
L 5 HOH A 50 450 44 HOH HOH . 
L 5 HOH A 51 451 19 HOH HOH . 
L 5 HOH A 52 452 37 HOH HOH . 
L 5 HOH A 53 453 15 HOH HOH . 
L 5 HOH A 54 454 70 HOH HOH . 
L 5 HOH A 55 455 20 HOH HOH . 
L 5 HOH A 56 456 53 HOH HOH . 
L 5 HOH A 57 457 32 HOH HOH . 
L 5 HOH A 58 458 39 HOH HOH . 
L 5 HOH A 59 459 47 HOH HOH . 
L 5 HOH A 60 460 69 HOH HOH . 
L 5 HOH A 61 461 45 HOH HOH . 
L 5 HOH A 62 462 5 HOH HOH . 
L 5 HOH A 63 463 55 HOH HOH . 
L 5 HOH A 64 464 51 HOH HOH . 
L 5 HOH A 65 465 33 HOH HOH . 
L 5 HOH A 66 466 29 HOH HOH . 
L 5 HOH A 67 467 71 HOH HOH . 
L 5 HOH A 68 468 67 HOH HOH . 
#
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 . . . D 2 -2.453 1.585 0.347 1 62.57 ? C1 NAG 303 A 1 
HETATM 2 C C2 NAG . . . D 2 -1.675 0.859 1.447 1 64.08 ? C2 NAG 303 A 1 
HETATM 3 C C3 NAG . . . D 2 -1.864 1.536 2.807 1 65.83 ? C3 NAG 303 A 1 
HETATM 4 C C4 NAG . . . D 2 -1.585 3.038 2.736 1 66.82 ? C4 NAG 303 A 1 
HETATM 5 C C5 NAG . . . D 2 -2.269 3.665 1.52 1 69.15 ? C5 NAG 303 A 1 
HETATM 6 C C6 NAG . . . D 2 -1.868 5.099 1.268 1 72.46 ? C6 NAG 303 A 1 
HETATM 7 C C7 NAG . . . D 2 -1.037 -1.519 1.519 1 54.24 ? C7 NAG 303 A 1 
HETATM 8 C C8 NAG . . . D 2 -1.531 -2.931 1.596 1 48.55 ? C8 NAG 303 A 1 
HETATM 9 N N2 NAG . . . D 2 -1.984 -0.563 1.528 1 57.28 ? N2 NAG 303 A 1 
HETATM 10 O O3 NAG . . . D 2 -0.94 0.949 3.71 1 69.28 ? O3 NAG 303 A 1 
HETATM 11 O O4 NAG . . . D 2 -2.113 3.662 3.903 1 66.52 ? O4 NAG 303 A 1 
HETATM 12 O O5 NAG . . . D 2 -1.944 2.92 0.328 1 64.42 ? O5 NAG 303 A 1 
HETATM 13 O O6 NAG . . . D 2 -2.629 5.642 0.201 1 76.96 ? O6 NAG 303 A 1 
HETATM 14 O O7 NAG . . . D 2 0.164 -1.252 1.447 1 55.27 ? O7 NAG 303 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           219 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#