data_6EYK
#
_model_server_result.job_id            hPZCt6hiO_azxy0xHHOvww 
_model_server_result.datetime_utc      '2024-12-27 16:08:06' 
_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          6eyk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":303}' 
#
_entry.id    6EYK 
#
_exptl.entry_id    6EYK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          2 
_entity.src_method                  man 
_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          94.19 
_cell.angle_gamma         90 
_cell.entry_id            6EYK 
_cell.length_a            93.52 
_cell.length_b            73.08 
_cell.length_c            52.45 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6EYK 
_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        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_and_software_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 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf2 A SG CYS 90 A CYS 90 1_555 A SG CYS 109 A CYS 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
disulf ? disulf3 A SG CYS 122 A CYS 122 1_555 A SG CYS 133 A CYS 133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
disulf ? disulf4 A SG CYS 127 A CYS 127 1_555 A SG CYS 142 A CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf5 A SG CYS 144 A CYS 144 1_555 A SG CYS 153 A CYS 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? 
disulf ? disulf6 A SG CYS 159 A CYS 159 1_555 A SG CYS 203 A CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf7 A SG CYS 172 A CYS 172 1_555 A SG CYS 185 A CYS 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
disulf ? disulf8 A SG CYS 189 A CYS 189 1_555 A SG CYS 216 A CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
disulf ? disulf9 A SG CYS 221 A CYS 221 1_555 A SG CYS 265 A CYS 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf10 A SG CYS 234 A CYS 234 1_555 A SG CYS 247 A CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
disulf ? disulf11 A SG CYS 251 A CYS 251 1_555 A SG CYS 278 A CYS 278 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
covale ? covale1 A ND2 ASN 4 A ASN 4 1_555 F C1 NAG . A NAG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? 
covale ? covale2 A ND2 ASN 124 A ASN 124 1_555 G C1 NAG . A NAG 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? 
covale ? covale3 A ND2 ASN 139 A ASN 139 1_555 C C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale4 A ND2 ASN 158 A ASN 158 1_555 D C1 NAG . A NAG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? 
covale ? covale5 A ND2 ASN 178 A ASN 178 1_555 E C1 NAG . A NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? 
covale ? covale6 A ND2 ASN 182 A ASN 182 1_555 B C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? 
covale ? covale7 A ND2 ASN 244 A ASN 244 1_555 H C1 NAG . A NAG 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? 
metalc ? metalc1 A OE2 GLU 80 A GLU 80 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.699 ? 
metalc ? metalc2 A OD1 ASN 82 A ASN 82 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.521 ? 
metalc ? metalc3 A OE1 GLU 88 A GLU 88 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.366 ? 
metalc ? metalc4 A OD1 ASN 105 A ASN 105 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.618 ? 
metalc ? metalc5 A O ASP 106 A ASP 106 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.532 ? 
metalc ? metalc6 A OD1 ASP 106 A ASP 106 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.242 ? 
metalc ? metalc7 A O GLY 168 A GLY 168 1_555 K CA CA . A CA 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? 
metalc ? metalc8 I OBB C5K . A C5K 308 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.62 ? 
metalc ? metalc9 I OBD C5K . A C5K 308 1_555 J CA CA . A CA 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? 
metalc ? metalc10 K CA CA . A CA 310 1_555 L O HOH . A HOH 427 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.841 ? 
metalc ? metalc11 K CA CA . A CA 310 1_555 L O HOH . A HOH 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.147 ? 
#
_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 329 n n 
C1 O1 NAG sing 330 n n 
C1 O5 NAG sing 331 n n 
C1 H1 NAG sing 332 n n 
C2 C3 NAG sing 333 n n 
C2 N2 NAG sing 334 n n 
C2 H2 NAG sing 335 n n 
C3 C4 NAG sing 336 n n 
C3 O3 NAG sing 337 n n 
C3 H3 NAG sing 338 n n 
C4 C5 NAG sing 339 n n 
C4 O4 NAG sing 340 n n 
C4 H4 NAG sing 341 n n 
C5 C6 NAG sing 342 n n 
C5 O5 NAG sing 343 n n 
C5 H5 NAG sing 344 n n 
C6 O6 NAG sing 345 n n 
C6 H61 NAG sing 346 n n 
C6 H62 NAG sing 347 n n 
C7 C8 NAG sing 348 n n 
C7 N2 NAG sing 349 n n 
C7 O7 NAG doub 350 n n 
C8 H81 NAG sing 351 n n 
C8 H82 NAG sing 352 n n 
C8 H83 NAG sing 353 n n 
N2 HN2 NAG sing 354 n n 
O1 HO1 NAG sing 355 n n 
O3 HO3 NAG sing 356 n n 
O4 HO4 NAG sing 357 n n 
O6 HO6 NAG sing 358 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                     6EYK 
_atom_sites.fract_transf_matrix[1][1]    0.010693 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000783 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013684 
_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]    0.019117 
_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 C5K A 1 308 301 C5K 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 27 HOH HOH . 
L 5 HOH A 2 402 19 HOH HOH . 
L 5 HOH A 3 403 5 HOH HOH . 
L 5 HOH A 4 404 39 HOH HOH . 
L 5 HOH A 5 405 14 HOH HOH . 
L 5 HOH A 6 406 9 HOH HOH . 
L 5 HOH A 7 407 52 HOH HOH . 
L 5 HOH A 8 408 50 HOH HOH . 
L 5 HOH A 9 409 36 HOH HOH . 
L 5 HOH A 10 410 45 HOH HOH . 
L 5 HOH A 11 411 56 HOH HOH . 
L 5 HOH A 12 412 43 HOH HOH . 
L 5 HOH A 13 413 17 HOH HOH . 
L 5 HOH A 14 414 33 HOH HOH . 
L 5 HOH A 15 415 61 HOH HOH . 
L 5 HOH A 16 416 55 HOH HOH . 
L 5 HOH A 17 417 1 HOH HOH . 
L 5 HOH A 18 418 48 HOH HOH . 
L 5 HOH A 19 419 20 HOH HOH . 
L 5 HOH A 20 420 12 HOH HOH . 
L 5 HOH A 21 421 49 HOH HOH . 
L 5 HOH A 22 422 62 HOH HOH . 
L 5 HOH A 23 423 51 HOH HOH . 
L 5 HOH A 24 424 44 HOH HOH . 
L 5 HOH A 25 425 35 HOH HOH . 
L 5 HOH A 26 426 18 HOH HOH . 
L 5 HOH A 27 427 42 HOH HOH . 
L 5 HOH A 28 428 23 HOH HOH . 
L 5 HOH A 29 429 2 HOH HOH . 
L 5 HOH A 30 430 7 HOH HOH . 
L 5 HOH A 31 431 22 HOH HOH . 
L 5 HOH A 32 432 31 HOH HOH . 
L 5 HOH A 33 433 16 HOH HOH . 
L 5 HOH A 34 434 57 HOH HOH . 
L 5 HOH A 35 435 29 HOH HOH . 
L 5 HOH A 36 436 10 HOH HOH . 
L 5 HOH A 37 437 53 HOH HOH . 
L 5 HOH A 38 438 32 HOH HOH . 
L 5 HOH A 39 439 21 HOH HOH . 
L 5 HOH A 40 440 3 HOH HOH . 
L 5 HOH A 41 441 41 HOH HOH . 
L 5 HOH A 42 442 13 HOH HOH . 
L 5 HOH A 43 443 59 HOH HOH . 
L 5 HOH A 44 444 26 HOH HOH . 
L 5 HOH A 45 445 25 HOH HOH . 
L 5 HOH A 46 446 54 HOH HOH . 
L 5 HOH A 47 447 47 HOH HOH . 
L 5 HOH A 48 448 8 HOH HOH . 
L 5 HOH A 49 449 11 HOH HOH . 
L 5 HOH A 50 450 24 HOH HOH . 
L 5 HOH A 51 451 40 HOH HOH . 
L 5 HOH A 52 452 28 HOH HOH . 
L 5 HOH A 53 453 4 HOH HOH . 
L 5 HOH A 54 454 60 HOH HOH . 
L 5 HOH A 55 455 58 HOH HOH . 
L 5 HOH A 56 456 46 HOH HOH . 
L 5 HOH A 57 457 30 HOH HOH . 
L 5 HOH A 58 458 34 HOH HOH . 
L 5 HOH A 59 459 63 HOH HOH . 
L 5 HOH A 60 460 6 HOH HOH . 
L 5 HOH A 61 461 38 HOH HOH . 
L 5 HOH A 62 462 15 HOH HOH . 
L 5 HOH A 63 463 37 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 -2.496 1.741 0.318 1 63.91 ? C1 NAG 303 A 1 
HETATM 2 C C2 NAG . . . D 2 -1.684 1.024 1.399 1 61.48 ? C2 NAG 303 A 1 
HETATM 3 C C3 NAG . . . D 2 -1.9 1.715 2.749 1 62.45 ? C3 NAG 303 A 1 
HETATM 4 C C4 NAG . . . D 2 -1.59 3.207 2.644 1 65.24 ? C4 NAG 303 A 1 
HETATM 5 C C5 NAG . . . D 2 -2.39 3.827 1.498 1 67.88 ? C5 NAG 303 A 1 
HETATM 6 C C6 NAG . . . D 2 -2.069 5.276 1.23 1 70.44 ? C6 NAG 303 A 1 
HETATM 7 C C7 NAG . . . D 2 -0.998 -1.324 1.522 1 50.28 ? C7 NAG 303 A 1 
HETATM 8 C C8 NAG . . . D 2 -1.444 -2.762 1.507 1 50.38 ? C8 NAG 303 A 1 
HETATM 9 N N2 NAG . . . D 2 -1.966 -0.406 1.49 1 52.25 ? N2 NAG 303 A 1 
HETATM 10 O O3 NAG . . . D 2 -1.029 1.126 3.708 1 61.62 ? O3 NAG 303 A 1 
HETATM 11 O O4 NAG . . . D 2 -1.945 3.845 3.867 1 66.71 ? O4 NAG 303 A 1 
HETATM 12 O O5 NAG . . . D 2 -2.128 3.122 0.274 1 66.25 ? O5 NAG 303 A 1 
HETATM 13 O O6 NAG . . . D 2 -3.184 5.892 0.605 1 75.23 ? O6 NAG 303 A 1 
HETATM 14 O O7 NAG . . . D 2 0.19 -1.009 1.501 1 49.61 ? O7 NAG 303 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           294 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#