data_5YJM
#
_model_server_result.job_id            GsXIVEATY1QYYXxceBePWA 
_model_server_result.datetime_utc      '2024-11-14 10:19:58' 
_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          5yjm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":301}' 
#
_entry.id    5YJM 
#
_exptl.entry_id    5YJM 
_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    2 
_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            5YJM 
_cell.length_a            75.089 
_cell.length_b            75.089 
_cell.length_c            49.75 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5YJM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        78 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43' 
#
_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 
_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 
#
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 30 A CYS 42 1_555 A SG CYS 46 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
disulf ? disulf2 A SG CYS 123 A CYS 136 1_555 A SG CYS 188 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? 
disulf ? disulf3 A SG CYS 154 A CYS 168 1_555 A SG CYS 167 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? 
covale ? covale1 A ND2 ASN 59 A ASN 72 1_555 B C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 ? 
covale ? covale2 A ND2 ASN 82 A ASN 95 1_555 C C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
metalc ? metalc1 A NE2 HIS 10 A HIS 25 1_555 D ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
metalc ? metalc2 A OE2 GLU 64 A GLU 77 1_555 D ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.847 ? 
metalc ? metalc3 A OE2 GLU 71 A GLU 84 1_555 D ZN ZN . A ZN 303 2_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
metalc ? metalc4 A NZ LYS 96 A LYS 109 1_555 D ZN ZN . A ZN 303 2_544 ? ? ? ? ? ? ? ? ? ? ? ? 1.746 ? 
#
_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 314 n n 
C1 O1 NAG sing 315 n n 
C1 O5 NAG sing 316 n n 
C1 H1 NAG sing 317 n n 
C2 C3 NAG sing 318 n n 
C2 N2 NAG sing 319 n n 
C2 H2 NAG sing 320 n n 
C3 C4 NAG sing 321 n n 
C3 O3 NAG sing 322 n n 
C3 H3 NAG sing 323 n n 
C4 C5 NAG sing 324 n n 
C4 O4 NAG sing 325 n n 
C4 H4 NAG sing 326 n n 
C5 C6 NAG sing 327 n n 
C5 O5 NAG sing 328 n n 
C5 H5 NAG sing 329 n n 
C6 O6 NAG sing 330 n n 
C6 H61 NAG sing 331 n n 
C6 H62 NAG sing 332 n n 
C7 C8 NAG sing 333 n n 
C7 N2 NAG sing 334 n n 
C7 O7 NAG doub 335 n n 
C8 H81 NAG sing 336 n n 
C8 H82 NAG sing 337 n n 
C8 H83 NAG sing 338 n n 
N2 HN2 NAG sing 339 n n 
O1 HO1 NAG sing 340 n n 
O3 HO3 NAG sing 341 n n 
O4 HO4 NAG sing 342 n n 
O6 HO6 NAG sing 343 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                     5YJM 
_atom_sites.fract_transf_matrix[1][1]    0.013318 
_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]    0.013318 
_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]    0.020101 
_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 1 301 301 NAG NAG . 
C 2 NAG A 1 302 302 NAG NAG . 
D 3 ZN A 1 303 303 ZN ZN . 
E 4 8W3 A 1 304 401 8W3 ASB . 
F 5 HOH A 1 401 34 HOH HOH . 
F 5 HOH A 2 402 78 HOH HOH . 
F 5 HOH A 3 403 52 HOH HOH . 
F 5 HOH A 4 404 45 HOH HOH . 
F 5 HOH A 5 405 16 HOH HOH . 
F 5 HOH A 6 406 59 HOH HOH . 
F 5 HOH A 7 407 4 HOH HOH . 
F 5 HOH A 8 408 56 HOH HOH . 
F 5 HOH A 9 409 17 HOH HOH . 
F 5 HOH A 10 410 20 HOH HOH . 
F 5 HOH A 11 411 42 HOH HOH . 
F 5 HOH A 12 412 67 HOH HOH . 
F 5 HOH A 13 413 3 HOH HOH . 
F 5 HOH A 14 414 60 HOH HOH . 
F 5 HOH A 15 415 77 HOH HOH . 
F 5 HOH A 16 416 68 HOH HOH . 
F 5 HOH A 17 417 24 HOH HOH . 
F 5 HOH A 18 418 43 HOH HOH . 
F 5 HOH A 19 419 27 HOH HOH . 
F 5 HOH A 20 420 30 HOH HOH . 
F 5 HOH A 21 421 10 HOH HOH . 
F 5 HOH A 22 422 9 HOH HOH . 
F 5 HOH A 23 423 35 HOH HOH . 
F 5 HOH A 24 424 6 HOH HOH . 
F 5 HOH A 25 425 11 HOH HOH . 
F 5 HOH A 26 426 47 HOH HOH . 
F 5 HOH A 27 427 8 HOH HOH . 
F 5 HOH A 28 428 19 HOH HOH . 
F 5 HOH A 29 429 50 HOH HOH . 
F 5 HOH A 30 430 53 HOH HOH . 
F 5 HOH A 31 431 84 HOH HOH . 
F 5 HOH A 32 432 15 HOH HOH . 
F 5 HOH A 33 433 29 HOH HOH . 
F 5 HOH A 34 434 1 HOH HOH . 
F 5 HOH A 35 435 87 HOH HOH . 
F 5 HOH A 36 436 58 HOH HOH . 
F 5 HOH A 37 437 51 HOH HOH . 
F 5 HOH A 38 438 70 HOH HOH . 
F 5 HOH A 39 439 12 HOH HOH . 
F 5 HOH A 40 440 44 HOH HOH . 
F 5 HOH A 41 441 49 HOH HOH . 
F 5 HOH A 42 442 55 HOH HOH . 
F 5 HOH A 43 443 14 HOH HOH . 
F 5 HOH A 44 444 48 HOH HOH . 
F 5 HOH A 45 445 2 HOH HOH . 
F 5 HOH A 46 446 25 HOH HOH . 
F 5 HOH A 47 447 64 HOH HOH . 
F 5 HOH A 48 448 40 HOH HOH . 
F 5 HOH A 49 449 37 HOH HOH . 
F 5 HOH A 50 450 13 HOH HOH . 
F 5 HOH A 51 451 32 HOH HOH . 
F 5 HOH A 52 452 33 HOH HOH . 
F 5 HOH A 53 453 7 HOH HOH . 
F 5 HOH A 54 454 23 HOH HOH . 
F 5 HOH A 55 455 63 HOH HOH . 
F 5 HOH A 56 456 71 HOH HOH . 
F 5 HOH A 57 457 5 HOH HOH . 
F 5 HOH A 58 458 36 HOH HOH . 
F 5 HOH A 59 459 31 HOH HOH . 
F 5 HOH A 60 460 21 HOH HOH . 
F 5 HOH A 61 461 81 HOH HOH . 
F 5 HOH A 62 462 65 HOH HOH . 
F 5 HOH A 63 463 74 HOH HOH . 
F 5 HOH A 64 464 38 HOH HOH . 
F 5 HOH A 65 465 86 HOH HOH . 
F 5 HOH A 66 466 88 HOH HOH . 
F 5 HOH A 67 467 66 HOH HOH . 
F 5 HOH A 68 468 28 HOH HOH . 
F 5 HOH A 69 469 73 HOH HOH . 
F 5 HOH A 70 470 18 HOH HOH . 
F 5 HOH A 71 471 57 HOH HOH . 
F 5 HOH A 72 472 72 HOH HOH . 
F 5 HOH A 73 473 22 HOH HOH . 
F 5 HOH A 74 474 80 HOH HOH . 
F 5 HOH A 75 475 76 HOH HOH . 
F 5 HOH A 76 476 39 HOH HOH . 
F 5 HOH A 77 477 26 HOH HOH . 
F 5 HOH A 78 478 83 HOH HOH . 
F 5 HOH A 79 479 79 HOH HOH . 
F 5 HOH A 80 480 75 HOH HOH . 
F 5 HOH A 81 481 46 HOH HOH . 
F 5 HOH A 82 482 69 HOH HOH . 
F 5 HOH A 83 483 41 HOH HOH . 
F 5 HOH A 84 484 54 HOH HOH . 
F 5 HOH A 85 485 62 HOH HOH . 
F 5 HOH A 86 486 85 HOH HOH . 
F 5 HOH A 87 487 61 HOH HOH . 
F 5 HOH A 88 488 82 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 . . . B 2 6.441 -23.45 9.428 1 38.05 ? C1 NAG 301 A 1 
HETATM 2 C C2 NAG . . . B 2 6.777 -22.464 10.508 1 41.97 ? C2 NAG 301 A 1 
HETATM 3 C C3 NAG . . . B 2 8.057 -21.739 10.162 1 43.27 ? C3 NAG 301 A 1 
HETATM 4 C C4 NAG . . . B 2 9.166 -22.771 10.025 1 44.97 ? C4 NAG 301 A 1 
HETATM 5 C C5 NAG . . . B 2 8.788 -23.748 8.898 1 42.35 ? C5 NAG 301 A 1 
HETATM 6 C C6 NAG . . . B 2 9.853 -24.743 8.491 1 41.48 ? C6 NAG 301 A 1 
HETATM 7 C C7 NAG . . . B 2 4.947 -21.067 11.385 1 43.34 ? C7 NAG 301 A 1 
HETATM 8 C C8 NAG . . . B 2 4.762 -21.835 12.658 1 44.51 ? C8 NAG 301 A 1 
HETATM 9 N N2 NAG . . . B 2 5.813 -21.391 10.436 1 41.46 ? N2 NAG 301 A 1 
HETATM 10 O O3 NAG . . . B 2 8.242 -20.735 11.17 1 47.38 ? O3 NAG 301 A 1 
HETATM 11 O O4 NAG . . . B 2 10.23 -22.023 9.528 1 45.86 ? O4 NAG 301 A 1 
HETATM 12 O O5 NAG . . . B 2 7.554 -24.388 9.297 1 39.94 ? O5 NAG 301 A 1 
HETATM 13 O O6 NAG . . . B 2 9.962 -25.454 9.738 1 45.72 ? O6 NAG 301 A 1 
HETATM 14 O O7 NAG . . . B 2 4.267 -20.076 11.123 1 47.97 ? O7 NAG 301 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           211 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           14 
#