data_7LKZ # _model_server_result.job_id Ba0i4m3afqC7qOLheQnb6A _model_server_result.datetime_utc '2024-11-29 19:43:25' _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 7lkz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":2509}' # _entry.id 7LKZ # _exptl.entry_id 7LKZ _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 6 _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 7LKZ _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7LKZ _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 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,M,N,O,P,Q,R,S,T,U _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 ? 6 L N N ? 6 M N N ? 6 N N N ? 6 O N N ? 6 P N N ? 6 Q N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 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 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 4 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 5 ? 3 4 3 BMA BMA C1 O1 . O3 HO3 . sing 6 ? 3 5 3 BMA BMA C1 O1 . O6 HO6 . 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 2 n B NAG 1 B 1 NAG B 2 NAG 2 n B NAG 2 B 2 NAG B 3 NAG 2 n B BMA 3 B 3 BMA B 4 BMA 3 n C NAG 1 C 1 NAG B 8 NAG 3 n C NAG 2 C 2 NAG B 9 NAG 3 n C BMA 3 C 3 BMA B 10 BMA 3 n C BMA 4 C 4 BMA B 11 BMA 3 n C BMA 5 C 5 BMA B 12 BMA # 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 54 A CYS 54 1_555 A SG CYS 81 A CYS 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf2 A SG CYS 75 A CYS 75 1_555 A SG CYS 324 A CYS 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 370 A CYS 370 1_555 A SG CYS 519 A CYS 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 641 A CYS 641 1_555 A SG CYS 1490 A CYS 1490 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf5 A SG CYS 1444 A CYS 1444 1_555 A SG CYS 1455 A CYS 1455 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf6 A SG CYS 1488 A CYS 1488 1_555 A SG CYS 1502 A CYS 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? covale ? covale1 A ND2 ASN 98 A ASN 98 1_555 Q C1 NAG . A NAG 2514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 415 A ASN 415 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale3 A ND2 ASN 444 A ASN 444 1_555 L C1 NAG . A NAG 2509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 A ND2 ASN 1469 A ASN 1469 1_555 N C1 NAG . A NAG 2511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale5 A ND2 ASN 1529 A ASN 1529 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale6 A ND2 ASN 1588 A ASN 1588 1_555 O C1 NAG . A NAG 2512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 A ND2 ASN 1662 A ASN 1662 1_555 P C1 NAG . A NAG 2513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale8 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale9 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale10 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale11 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale12 C O3 BMA . C BMA 3 1_555 C C1 BMA . C BMA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale13 C O6 BMA . C BMA 3 1_555 C C1 BMA . C BMA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? metalc ? metalc1 A OG1 THR 970 A THR 970 1_555 S MG MG . A MG 2516 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? metalc ? metalc2 A OE1 GLN 2019 A GLN 2019 1_555 R MG MG . A MG 2515 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.544 ? metalc ? metalc3 R MG MG . A MG 2515 1_555 U O1G ATP . A ATP 2518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? metalc ? metalc4 R MG MG . A MG 2515 1_555 U O2G ATP . A ATP 2518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc5 R MG MG . A MG 2515 1_555 U O1B ATP . A ATP 2518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? metalc ? metalc6 R MG MG . A MG 2515 1_555 U O3B ATP . A ATP 2518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.988 ? metalc ? metalc7 S MG MG . A MG 2516 1_555 T O1B ATP . A ATP 2517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? metalc ? metalc8 S MG MG . A MG 2516 1_555 T O1G ATP . A ATP 2517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? # _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 432 n n C1 O1 NAG sing 433 n n C1 O5 NAG sing 434 n n C1 H1 NAG sing 435 n n C2 C3 NAG sing 436 n n C2 N2 NAG sing 437 n n C2 H2 NAG sing 438 n n C3 C4 NAG sing 439 n n C3 O3 NAG sing 440 n n C3 H3 NAG sing 441 n n C4 C5 NAG sing 442 n n C4 O4 NAG sing 443 n n C4 H4 NAG sing 444 n n C5 C6 NAG sing 445 n n C5 O5 NAG sing 446 n n C5 H5 NAG sing 447 n n C6 O6 NAG sing 448 n n C6 H61 NAG sing 449 n n C6 H62 NAG sing 450 n n C7 C8 NAG sing 451 n n C7 N2 NAG sing 452 n n C7 O7 NAG doub 453 n n C8 H81 NAG sing 454 n n C8 H82 NAG sing 455 n n C8 H83 NAG sing 456 n n N2 HN2 NAG sing 457 n n O1 HO1 NAG sing 458 n n O3 HO3 NAG sing 459 n n O4 HO4 NAG sing 460 n n O6 HO6 NAG sing 461 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 7LKZ _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 D 4 6OU A 1 2501 2501 6OU 6OU . E 4 6OU A 1 2502 2601 6OU 6OU . F 4 6OU A 1 2503 2701 6OU 6OU . G 5 POV A 1 2504 2901 POV POV . H 5 POV A 1 2505 3001 POV POV . I 5 POV A 1 2506 3101 POV POV . J 5 POV A 1 2507 3201 POV POV . K 5 POV A 1 2508 3301 POV POV . L 6 NAG A 1 2509 5 NAG NAG . M 6 NAG A 1 2510 6 NAG NAG . N 6 NAG A 1 2511 7 NAG NAG . O 6 NAG A 1 2512 13 NAG NAG . P 6 NAG A 1 2513 14 NAG NAG . Q 6 NAG A 1 2514 15 NAG NAG . R 7 MG A 1 2515 1 MG MG . S 7 MG A 1 2516 2 MG MG . T 8 ATP A 1 2517 2301 ATP ATP . U 8 ATP A 1 2518 3001 ATP ATP . # 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 . . . L 6 187.435 213.458 96.532 1 143.29 ? C1 NAG 2509 A 1 HETATM 2 C C2 NAG . . . L 6 186.495 214.023 95.47 1 143.29 ? C2 NAG 2509 A 1 HETATM 3 C C3 NAG . . . L 6 186.6 215.538 95.389 1 143.29 ? C3 NAG 2509 A 1 HETATM 4 C C4 NAG . . . L 6 186.431 216.138 96.776 1 143.29 ? C4 NAG 2509 A 1 HETATM 5 C C5 NAG . . . L 6 187.435 215.518 97.738 1 143.29 ? C5 NAG 2509 A 1 HETATM 6 C C6 NAG . . . L 6 187.276 216.1 99.138 1 143.29 ? C6 NAG 2509 A 1 HETATM 7 C C7 NAG . . . L 6 186.096 212.39 93.725 1 143.29 ? C7 NAG 2509 A 1 HETATM 8 C C8 NAG . . . L 6 184.606 212.551 93.7 1 143.29 ? C8 NAG 2509 A 1 HETATM 9 N N2 NAG . . . L 6 186.78 213.438 94.175 1 143.29 ? N2 NAG 2509 A 1 HETATM 10 O O3 NAG . . . L 6 185.578 216.039 94.521 1 143.29 ? O3 NAG 2509 A 1 HETATM 11 O O4 NAG . . . L 6 186.641 217.553 96.714 1 143.29 ? O4 NAG 2509 A 1 HETATM 12 O O5 NAG . . . L 6 187.26 214.103 97.795 1 143.29 ? O5 NAG 2509 A 1 HETATM 13 O O6 NAG . . . L 6 188.334 215.619 99.976 1 143.29 ? O6 NAG 2509 A 1 HETATM 14 O O7 NAG . . . L 6 186.646 211.362 93.364 1 143.29 ? O7 NAG 2509 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 35 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #