data_8JD0 # _model_server_result.job_id 0aihG6rOt9BZv_uDEYl-EA _model_server_result.datetime_utc '2024-10-19 10:35:08' _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 8jd0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":1002}' # _entry.id 8JD0 # _exptl.entry_id 8JD0 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method syn _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 8JD0 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8JD0 _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 3 C N N ? 3 J 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 42 2 CYS 50 1_555 A SG CYS 84 2 CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 226 2 CYS 234 1_555 A SG CYS 510 2 CYS 518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 347 2 CYS 355 1_555 A SG CYS 354 2 CYS 362 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 392 2 CYS 400 1_555 A SG CYS 399 2 CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 A SG CYS 492 2 CYS 500 1_555 A SG CYS 511 2 CYS 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 A SG CYS 496 2 CYS 504 1_555 A SG CYS 514 2 CYS 522 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 A SG CYS 517 2 CYS 525 1_555 A SG CYS 529 2 CYS 537 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 A SG CYS 532 2 CYS 540 1_555 A SG CYS 545 2 CYS 553 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf9 A SG CYS 624 2 CYS 632 1_555 A SG CYS 713 2 CYS 721 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf10 B SG CYS 66 3 CYS 57 1_555 B SG CYS 108 3 CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf11 B SG CYS 249 3 CYS 240 1_555 B SG CYS 536 3 CYS 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf12 B SG CYS 370 3 CYS 361 1_555 B SG CYS 382 3 CYS 373 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf13 B SG CYS 421 3 CYS 412 1_555 B SG CYS 428 3 CYS 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf14 B SG CYS 518 3 CYS 509 1_555 B SG CYS 537 3 CYS 528 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf15 B SG CYS 522 3 CYS 513 1_555 B SG CYS 540 3 CYS 531 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf16 B SG CYS 543 3 CYS 534 1_555 B SG CYS 555 3 CYS 546 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf17 B SG CYS 558 3 CYS 549 1_555 B SG CYS 571 3 CYS 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf18 B SG CYS 650 3 CYS 641 1_555 B SG CYS 739 3 CYS 730 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A ND2 ASN 195 2 ASN 203 1_555 C C1 NAG . 2 NAG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 B ND2 ASN 218 3 ASN 209 1_555 J C1 NAG . 3 NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? # _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 365 n n C1 O1 NAG sing 366 n n C1 O5 NAG sing 367 n n C1 H1 NAG sing 368 n n C2 C3 NAG sing 369 n n C2 N2 NAG sing 370 n n C2 H2 NAG sing 371 n n C3 C4 NAG sing 372 n n C3 O3 NAG sing 373 n n C3 H3 NAG sing 374 n n C4 C5 NAG sing 375 n n C4 O4 NAG sing 376 n n C4 H4 NAG sing 377 n n C5 C6 NAG sing 378 n n C5 O5 NAG sing 379 n n C5 H5 NAG sing 380 n n C6 O6 NAG sing 381 n n C6 H61 NAG sing 382 n n C6 H62 NAG sing 383 n n C7 C8 NAG sing 384 n n C7 N2 NAG sing 385 n n C7 O7 NAG doub 386 n n C8 H81 NAG sing 387 n n C8 H82 NAG sing 388 n n C8 H83 NAG sing 389 n n N2 HN2 NAG sing 390 n n O1 HO1 NAG sing 391 n n O3 HO3 NAG sing 392 n n O4 HO4 NAG sing 393 n n O6 HO6 NAG sing 394 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 8JD0 _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 C 3 NAG 2 1 1101 2000 NAG NAG . D 4 J9R 2 1 1102 2101 J9R ABC . E 5 CLR 2 1 1103 4 CLR CLR . F 5 CLR 2 1 1104 6 CLR CLR . G 5 CLR 2 1 1105 7 CLR CLR . H 5 CLR 2 1 1106 10 CLR CLR . I 6 GLU 3 1 1001 901 GLU GLB . J 3 NAG 3 1 1002 2000 NAG NAG . K 5 CLR 3 1 1003 1 CLR CLR . L 5 CLR 3 1 1004 2 CLR CLR . M 5 CLR 3 1 1005 5 CLR CLR . N 5 CLR 3 1 1006 8 CLR CLR . O 5 CLR 3 1 1007 9 CLR CLR . # 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 . . . J 3 203.357 160.041 223.694 1 29.26 ? C1 NAG 1002 3 1 HETATM 2 C C2 NAG . . . J 3 204.014 158.749 224.175 1 30 ? C2 NAG 1002 3 1 HETATM 3 C C3 NAG . . . J 3 205.407 158.607 223.568 1 31.2 ? C3 NAG 1002 3 1 HETATM 4 C C4 NAG . . . J 3 205.342 158.73 222.052 1 30.83 ? C4 NAG 1002 3 1 HETATM 5 C C5 NAG . . . J 3 204.628 160.02 221.656 1 29.63 ? C5 NAG 1002 3 1 HETATM 6 C C6 NAG . . . J 3 204.419 160.147 220.165 1 30.14 ? C6 NAG 1002 3 1 HETATM 7 C C7 NAG . . . J 3 203.496 157.757 226.364 1 27.23 ? C7 NAG 1002 3 1 HETATM 8 C C8 NAG . . . J 3 202.742 156.706 225.606 1 29 ? C8 NAG 1002 3 1 HETATM 9 N N2 NAG . . . J 3 204.083 158.707 225.627 1 28.17 ? N2 NAG 1002 3 1 HETATM 10 O O3 NAG . . . J 3 205.957 157.346 223.931 1 35.11 ? O3 NAG 1002 3 1 HETATM 11 O O4 NAG . . . J 3 206.657 158.737 221.507 1 29.32 ? O4 NAG 1002 3 1 HETATM 12 O O5 NAG . . . J 3 203.327 160.062 222.261 1 29.37 ? O5 NAG 1002 3 1 HETATM 13 O O6 NAG . . . J 3 203.839 161.399 219.826 1 28.94 ? O6 NAG 1002 3 1 HETATM 14 O O7 NAG . . . J 3 203.571 157.747 227.589 1 25.58 ? O7 NAG 1002 3 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #