data_7EFP # _model_server_result.job_id m433DBGUrOVskEXggozoeA _model_server_result.datetime_utc '2024-11-21 09:29:17' _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 7efp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1001}' # _entry.id 7EFP # _exptl.entry_id 7EFP _exptl.method 'X-RAY DIFFRACTION' # _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 5 _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 7EFP _cell.length_a 139.596 _cell.length_b 139.596 _cell.length_c 155.645 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7EFP _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 3 C N N ? 3 D N N ? 3 E N N ? 3 F N N ? 3 G 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 328 A CYS 344 1_555 A SG CYS 345 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf2 A SG CYS 514 A CYS 530 1_555 A SG CYS 526 A CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf3 B SG CYS 17 B CYS 336 1_555 B SG CYS 42 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf4 B SG CYS 60 B CYS 379 1_555 B SG CYS 113 B CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? disulf ? disulf5 B SG CYS 72 B CYS 391 1_555 B SG CYS 206 B CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf6 B SG CYS 161 B CYS 480 1_555 B SG CYS 169 B CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? covale ? covale1 A ND2 ASN 37 A ASN 53 1_555 C C1 NAG . A NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? covale ? covale2 A ND2 ASN 74 A ASN 90 1_555 D C1 NAG . A NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale3 A ND2 ASN 87 A ASN 103 1_555 E C1 NAG . A NAG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale4 A ND2 ASN 530 A ASN 546 1_555 F C1 NAG . A NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale5 B ND2 ASN 24 B ASN 343 1_555 G C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? # _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 7EFP _atom_sites.fract_transf_matrix[1][1] 0.007164 _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] 0.007164 _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] 0.006425 _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 A 1 1001 1001 NAG NAG . D 3 NAG A 1 1002 1011 NAG NAG . E 3 NAG A 1 1003 1021 NAG NAG . F 3 NAG A 1 1004 1031 NAG NAG . G 3 NAG B 1 601 629 NAG NAG . H 4 HOH A 1 1101 23 HOH HOH . H 4 HOH A 2 1102 31 HOH HOH . H 4 HOH A 3 1103 6 HOH HOH . H 4 HOH A 4 1104 4 HOH HOH . H 4 HOH A 5 1105 2 HOH HOH . H 4 HOH A 6 1106 17 HOH HOH . H 4 HOH A 7 1107 8 HOH HOH . H 4 HOH A 8 1108 24 HOH HOH . H 4 HOH A 9 1109 39 HOH HOH . H 4 HOH A 10 1110 29 HOH HOH . H 4 HOH A 11 1111 12 HOH HOH . H 4 HOH A 12 1112 7 HOH HOH . H 4 HOH A 13 1113 1 HOH HOH . H 4 HOH A 14 1114 42 HOH HOH . H 4 HOH A 15 1115 30 HOH HOH . H 4 HOH A 16 1116 37 HOH HOH . H 4 HOH A 17 1117 10 HOH HOH . H 4 HOH A 18 1118 36 HOH HOH . H 4 HOH A 19 1119 21 HOH HOH . H 4 HOH A 20 1120 15 HOH HOH . H 4 HOH A 21 1121 50 HOH HOH . H 4 HOH A 22 1122 20 HOH HOH . H 4 HOH A 23 1123 25 HOH HOH . H 4 HOH A 24 1124 55 HOH HOH . H 4 HOH A 25 1125 33 HOH HOH . H 4 HOH A 26 1126 43 HOH HOH . H 4 HOH A 27 1127 45 HOH HOH . H 4 HOH A 28 1128 40 HOH HOH . H 4 HOH A 29 1129 11 HOH HOH . H 4 HOH A 30 1130 19 HOH HOH . H 4 HOH A 31 1131 34 HOH HOH . H 4 HOH A 32 1132 44 HOH HOH . H 4 HOH A 33 1133 48 HOH HOH . H 4 HOH A 34 1134 54 HOH HOH . H 4 HOH A 35 1135 57 HOH HOH . H 4 HOH A 36 1136 28 HOH HOH . H 4 HOH A 37 1137 22 HOH HOH . H 4 HOH A 38 1138 3 HOH HOH . H 4 HOH A 39 1139 14 HOH HOH . H 4 HOH A 40 1140 16 HOH HOH . H 4 HOH A 41 1141 56 HOH HOH . I 4 HOH B 1 701 13 HOH HOH . I 4 HOH B 2 702 41 HOH HOH . I 4 HOH B 3 703 52 HOH HOH . I 4 HOH B 4 704 26 HOH HOH . I 4 HOH B 5 705 38 HOH HOH . I 4 HOH B 6 706 53 HOH HOH . I 4 HOH B 7 707 27 HOH HOH . I 4 HOH B 8 708 47 HOH HOH . I 4 HOH B 9 709 51 HOH HOH . I 4 HOH B 10 710 32 HOH HOH . I 4 HOH B 11 711 46 HOH HOH . I 4 HOH B 12 712 58 HOH HOH . I 4 HOH B 13 713 5 HOH HOH . I 4 HOH B 14 714 35 HOH HOH . I 4 HOH B 15 715 18 HOH HOH . I 4 HOH B 16 716 9 HOH HOH . I 4 HOH B 17 717 49 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 . . . C 3 -58.071 -17.677 -39.015 1 85.64 ? C1 NAG 1001 A 1 HETATM 2 C C2 NAG . . . C 3 -58.304 -19.05 -39.653 1 88.38 ? C2 NAG 1001 A 1 HETATM 3 C C3 NAG . . . C 3 -59.689 -19.551 -39.244 1 97.35 ? C3 NAG 1001 A 1 HETATM 4 C C4 NAG . . . C 3 -59.796 -19.585 -37.721 1 102.37 ? C4 NAG 1001 A 1 HETATM 5 C C5 NAG . . . C 3 -59.522 -18.188 -37.158 1 98.98 ? C5 NAG 1001 A 1 HETATM 6 C C6 NAG . . . C 3 -59.558 -18.204 -35.634 1 106.98 ? C6 NAG 1001 A 1 HETATM 7 C C7 NAG . . . C 3 -57.184 -19.494 -41.861 1 78.63 ? C7 NAG 1001 A 1 HETATM 8 C C8 NAG . . . C 3 -57.133 -19.346 -43.381 1 75.23 ? C8 NAG 1001 A 1 HETATM 9 N N2 NAG . . . C 3 -58.192 -18.965 -41.121 1 81.18 ? N2 NAG 1001 A 1 HETATM 10 O O3 NAG . . . C 3 -59.951 -20.848 -39.801 1 90.02 ? O3 NAG 1001 A 1 HETATM 11 O O4 NAG . . . C 3 -61.089 -20.064 -37.315 1 105.28 ? O4 NAG 1001 A 1 HETATM 12 O O5 NAG . . . C 3 -58.241 -17.712 -37.591 1 87.57 ? O5 NAG 1001 A 1 HETATM 13 O O6 NAG . . . C 3 -59.166 -16.923 -35.126 1 110.52 ? O6 NAG 1001 A 1 HETATM 14 O O7 NAG . . . C 3 -56.3 -20.104 -41.271 1 74.1 ? O7 NAG 1001 A 1 HETATM 15 H H1 NAG . . . C 3 -58.779 -16.945 -39.436 1 102.53 ? H1 NAG 1001 A 1 HETATM 16 H H2 NAG . . . C 3 -57.558 -19.748 -39.218 1 105.82 ? H2 NAG 1001 A 1 HETATM 17 H H3 NAG . . . C 3 -60.435 -18.836 -39.626 1 116.58 ? H3 NAG 1001 A 1 HETATM 18 H H4 NAG . . . C 3 -59.032 -20.276 -37.33 1 122.61 ? H4 NAG 1001 A 1 HETATM 19 H H5 NAG . . . C 3 -60.302 -17.493 -37.508 1 118.54 ? H5 NAG 1001 A 1 HETATM 20 H H61 NAG . . . C 3 -58.88 -18.972 -35.256 1 128.14 ? H61 NAG 1001 A 1 HETATM 21 H H62 NAG . . . C 3 -60.567 -18.443 -35.292 1 128.14 ? H62 NAG 1001 A 1 HETATM 22 H H81 NAG . . . C 3 -57.95 -18.798 -43.789 1 90.04 ? H81 NAG 1001 A 1 HETATM 23 H H82 NAG . . . C 3 -57.133 -20.308 -43.828 1 90.04 ? H82 NAG 1001 A 1 HETATM 24 H H83 NAG . . . C 3 -56.239 -18.846 -43.656 1 90.04 ? H83 NAG 1001 A 1 HETATM 25 H HN2 NAG . . . C 3 -58.934 -18.456 -41.589 1 97.18 ? HN2 NAG 1001 A 1 HETATM 26 H HO3 NAG . . . C 3 -60.894 -21.049 -39.721 1 107.79 ? HO3 NAG 1001 A 1 HETATM 27 H HO4 NAG . . . C 3 -61.023 -20.464 -36.437 1 126.09 ? HO4 NAG 1001 A 1 HETATM 28 H HO6 NAG . . . C 3 -59.835 -16.605 -34.505 1 132.38 ? HO6 NAG 1001 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 28 #