data_7YGG # _model_server_result.job_id 98pQbQ0qyUYCfabGVhe2uQ _model_server_result.datetime_utc '2024-11-26 05:56:36' _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 7ygg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":201}' # _entry.id 7YGG # _exptl.entry_id 7YGG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 4 _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 7YGG _cell.length_a 53.58 _cell.length_b 99.64 _cell.length_c 138.93 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YGG _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,G,H,L,N 1 1 B,D,I,J,K,M,O 2 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 ? 4 F N N ? 4 G N N ? 4 I N N ? 4 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 25 A CYS 25 1_555 A SG CYS 91 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf2 B SG CYS 25 B CYS 25 1_555 B SG CYS 91 B CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 C SG CYS 23 C CYS 23 1_555 C SG CYS 96 C CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf4 D SG CYS 23 D CYS 23 1_555 D SG CYS 96 D CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? covale ? covale1 C C PCA 1 C PCA 1 1_555 C N LEU 2 C LEU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale2 C ND2 ASN 16 C ASN 16 1_555 G C1 NAG . C NAG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale3 C ND2 ASN 93 C ASN 93 1_555 F C1 NAG . C NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale4 D C PCA 1 D PCA 1 1_555 D N LEU 2 D LEU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale5 D ND2 ASN 16 D ASN 16 1_555 I C1 NAG . D NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale6 D ND2 ASN 93 D ASN 93 1_555 J C1 NAG . D NAG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? # _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 246 n n C1 O1 NAG sing 247 n n C1 O5 NAG sing 248 n n C1 H1 NAG sing 249 n n C2 C3 NAG sing 250 n n C2 N2 NAG sing 251 n n C2 H2 NAG sing 252 n n C3 C4 NAG sing 253 n n C3 O3 NAG sing 254 n n C3 H3 NAG sing 255 n n C4 C5 NAG sing 256 n n C4 O4 NAG sing 257 n n C4 H4 NAG sing 258 n n C5 C6 NAG sing 259 n n C5 O5 NAG sing 260 n n C5 H5 NAG sing 261 n n C6 O6 NAG sing 262 n n C6 H61 NAG sing 263 n n C6 H62 NAG sing 264 n n C7 C8 NAG sing 265 n n C7 N2 NAG sing 266 n n C7 O7 NAG doub 267 n n C8 H81 NAG sing 268 n n C8 H82 NAG sing 269 n n C8 H83 NAG sing 270 n n N2 HN2 NAG sing 271 n n O1 HO1 NAG sing 272 n n O3 HO3 NAG sing 273 n n O4 HO4 NAG sing 274 n n O6 HO6 NAG sing 275 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 7YGG _atom_sites.fract_transf_matrix[1][1] 0.018664 _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] 0.010036 _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] 0.007198 _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 E 3 EDO A 1 201 1 EDO EDO . F 4 NAG C 1 201 117 NAG NAG . G 4 NAG C 1 202 118 NAG NAG . H 3 EDO C 1 203 2 EDO EDO . I 4 NAG D 1 201 117 NAG NAG . J 4 NAG D 1 202 118 NAG NAG . K 3 EDO D 1 203 3 EDO EDO . L 5 HOH A 1 301 100 HOH HOH . L 5 HOH A 2 302 2 HOH HOH . L 5 HOH A 3 303 41 HOH HOH . L 5 HOH A 4 304 3 HOH HOH . L 5 HOH A 5 305 109 HOH HOH . L 5 HOH A 6 306 60 HOH HOH . L 5 HOH A 7 307 56 HOH HOH . L 5 HOH A 8 308 79 HOH HOH . L 5 HOH A 9 309 140 HOH HOH . L 5 HOH A 10 310 32 HOH HOH . L 5 HOH A 11 311 78 HOH HOH . L 5 HOH A 12 312 39 HOH HOH . L 5 HOH A 13 313 33 HOH HOH . L 5 HOH A 14 314 44 HOH HOH . L 5 HOH A 15 315 107 HOH HOH . L 5 HOH A 16 316 37 HOH HOH . L 5 HOH A 17 317 80 HOH HOH . L 5 HOH A 18 318 19 HOH HOH . L 5 HOH A 19 319 6 HOH HOH . L 5 HOH A 20 320 82 HOH HOH . L 5 HOH A 21 321 55 HOH HOH . L 5 HOH A 22 322 128 HOH HOH . L 5 HOH A 23 323 48 HOH HOH . L 5 HOH A 24 324 59 HOH HOH . L 5 HOH A 25 325 26 HOH HOH . L 5 HOH A 26 326 90 HOH HOH . L 5 HOH A 27 327 103 HOH HOH . L 5 HOH A 28 328 29 HOH HOH . L 5 HOH A 29 329 58 HOH HOH . L 5 HOH A 30 330 137 HOH HOH . L 5 HOH A 31 331 34 HOH HOH . L 5 HOH A 32 332 123 HOH HOH . L 5 HOH A 33 333 121 HOH HOH . L 5 HOH A 34 334 76 HOH HOH . L 5 HOH A 35 335 102 HOH HOH . L 5 HOH A 36 336 124 HOH HOH . L 5 HOH A 37 337 75 HOH HOH . L 5 HOH A 38 338 81 HOH HOH . M 5 HOH B 1 201 28 HOH HOH . M 5 HOH B 2 202 53 HOH HOH . M 5 HOH B 3 203 16 HOH HOH . M 5 HOH B 4 204 131 HOH HOH . M 5 HOH B 5 205 31 HOH HOH . M 5 HOH B 6 206 15 HOH HOH . M 5 HOH B 7 207 122 HOH HOH . M 5 HOH B 8 208 143 HOH HOH . M 5 HOH B 9 209 4 HOH HOH . M 5 HOH B 10 210 8 HOH HOH . M 5 HOH B 11 211 142 HOH HOH . M 5 HOH B 12 212 30 HOH HOH . M 5 HOH B 13 213 105 HOH HOH . M 5 HOH B 14 214 135 HOH HOH . M 5 HOH B 15 215 139 HOH HOH . M 5 HOH B 16 216 104 HOH HOH . M 5 HOH B 17 217 133 HOH HOH . M 5 HOH B 18 218 134 HOH HOH . N 5 HOH C 1 301 57 HOH HOH . N 5 HOH C 2 302 52 HOH HOH . N 5 HOH C 3 303 69 HOH HOH . N 5 HOH C 4 304 94 HOH HOH . N 5 HOH C 5 305 91 HOH HOH . N 5 HOH C 6 306 45 HOH HOH . N 5 HOH C 7 307 88 HOH HOH . N 5 HOH C 8 308 119 HOH HOH . N 5 HOH C 9 309 14 HOH HOH . N 5 HOH C 10 310 20 HOH HOH . N 5 HOH C 11 311 22 HOH HOH . N 5 HOH C 12 312 7 HOH HOH . N 5 HOH C 13 313 106 HOH HOH . N 5 HOH C 14 314 83 HOH HOH . N 5 HOH C 15 315 108 HOH HOH . N 5 HOH C 16 316 99 HOH HOH . N 5 HOH C 17 317 71 HOH HOH . N 5 HOH C 18 318 49 HOH HOH . N 5 HOH C 19 319 47 HOH HOH . N 5 HOH C 20 320 120 HOH HOH . N 5 HOH C 21 321 126 HOH HOH . N 5 HOH C 22 322 46 HOH HOH . N 5 HOH C 23 323 50 HOH HOH . N 5 HOH C 24 324 72 HOH HOH . N 5 HOH C 25 325 11 HOH HOH . N 5 HOH C 26 326 23 HOH HOH . N 5 HOH C 27 327 127 HOH HOH . N 5 HOH C 28 328 101 HOH HOH . N 5 HOH C 29 329 21 HOH HOH . N 5 HOH C 30 330 54 HOH HOH . N 5 HOH C 31 331 129 HOH HOH . N 5 HOH C 32 332 132 HOH HOH . N 5 HOH C 33 333 98 HOH HOH . N 5 HOH C 34 334 70 HOH HOH . N 5 HOH C 35 335 136 HOH HOH . N 5 HOH C 36 336 125 HOH HOH . N 5 HOH C 37 337 73 HOH HOH . N 5 HOH C 38 338 89 HOH HOH . N 5 HOH C 39 339 43 HOH HOH . N 5 HOH C 40 340 74 HOH HOH . N 5 HOH C 41 341 95 HOH HOH . N 5 HOH C 42 342 85 HOH HOH . N 5 HOH C 43 343 86 HOH HOH . N 5 HOH C 44 344 84 HOH HOH . N 5 HOH C 45 345 130 HOH HOH . N 5 HOH C 46 346 77 HOH HOH . O 5 HOH D 1 301 96 HOH HOH . O 5 HOH D 2 302 92 HOH HOH . O 5 HOH D 3 303 97 HOH HOH . O 5 HOH D 4 304 87 HOH HOH . O 5 HOH D 5 305 40 HOH HOH . O 5 HOH D 6 306 67 HOH HOH . O 5 HOH D 7 307 144 HOH HOH . O 5 HOH D 8 308 36 HOH HOH . O 5 HOH D 9 309 42 HOH HOH . O 5 HOH D 10 310 111 HOH HOH . O 5 HOH D 11 311 9 HOH HOH . O 5 HOH D 12 312 12 HOH HOH . O 5 HOH D 13 313 1 HOH HOH . O 5 HOH D 14 314 10 HOH HOH . O 5 HOH D 15 315 35 HOH HOH . O 5 HOH D 16 316 66 HOH HOH . O 5 HOH D 17 317 24 HOH HOH . O 5 HOH D 18 318 113 HOH HOH . O 5 HOH D 19 319 51 HOH HOH . O 5 HOH D 20 320 17 HOH HOH . O 5 HOH D 21 321 64 HOH HOH . O 5 HOH D 22 322 115 HOH HOH . O 5 HOH D 23 323 5 HOH HOH . O 5 HOH D 24 324 61 HOH HOH . O 5 HOH D 25 325 13 HOH HOH . O 5 HOH D 26 326 38 HOH HOH . O 5 HOH D 27 327 25 HOH HOH . O 5 HOH D 28 328 27 HOH HOH . O 5 HOH D 29 329 110 HOH HOH . O 5 HOH D 30 330 18 HOH HOH . O 5 HOH D 31 331 93 HOH HOH . O 5 HOH D 32 332 141 HOH HOH . O 5 HOH D 33 333 62 HOH HOH . O 5 HOH D 34 334 117 HOH HOH . O 5 HOH D 35 335 63 HOH HOH . O 5 HOH D 36 336 118 HOH HOH . O 5 HOH D 37 337 65 HOH HOH . O 5 HOH D 38 338 114 HOH HOH . O 5 HOH D 39 339 112 HOH HOH . O 5 HOH D 40 340 138 HOH HOH . O 5 HOH D 41 341 68 HOH HOH . O 5 HOH D 42 342 116 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 . . . I 4 -6.451 -1.171 34.371 1 60.6 ? C1 NAG 201 D 1 HETATM 2 C C2 NAG . . . I 4 -6.198 0.264 34.837 1 61.91 ? C2 NAG 201 D 1 HETATM 3 C C3 NAG . . . I 4 -7.278 0.727 35.812 1 63.49 ? C3 NAG 201 D 1 HETATM 4 C C4 NAG . . . I 4 -8.657 0.544 35.189 1 64.03 ? C4 NAG 201 D 1 HETATM 5 C C5 NAG . . . I 4 -8.843 -0.906 34.748 1 63.38 ? C5 NAG 201 D 1 HETATM 6 C C6 NAG . . . I 4 -10.187 -1.089 34.042 1 62.96 ? C6 NAG 201 D 1 HETATM 7 C C7 NAG . . . I 4 -3.826 0.905 34.872 1 59.19 ? C7 NAG 201 D 1 HETATM 8 C C8 NAG . . . I 4 -2.598 0.973 35.728 1 59.56 ? C8 NAG 201 D 1 HETATM 9 N N2 NAG . . . I 4 -4.893 0.376 35.472 1 60.91 ? N2 NAG 201 D 1 HETATM 10 O O3 NAG . . . I 4 -7.073 2.102 36.162 1 62.8 ? O3 NAG 201 D 1 HETATM 11 O O4 NAG . . . I 4 -9.665 0.918 36.136 1 63.91 ? O4 NAG 201 D 1 HETATM 12 O O5 NAG . . . I 4 -7.786 -1.288 33.859 1 62.5 ? O5 NAG 201 D 1 HETATM 13 O O6 NAG . . . I 4 -10.217 -2.323 33.315 1 61.83 ? O6 NAG 201 D 1 HETATM 14 O O7 NAG . . . I 4 -3.828 1.316 33.722 1 56.92 ? O7 NAG 201 D 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 14 #