data_7N8Q # _model_server_result.job_id GXNZg0mYbmFKR5pPIaxntA _model_server_result.datetime_utc '2024-10-20 00:29:36' _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 7n8q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":502}' # _entry.id 7N8Q # _exptl.entry_id 7N8Q _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 18 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 112.02 _cell.angle_gamma 90 _cell.entry_id 7N8Q _cell.length_a 99.182 _cell.length_b 82.664 _cell.length_c 111.899 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7N8Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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 tetrameric 4 author_and_software_defined_assembly 1 PISA trimeric 3 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,B,C,D,H,I,J,K,L,M,N,O,P,Z,AA,BA 1 1 E,F,G,Q,R,S,T,U,V,W,X,Y,CA,DA,EA 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 ? 5 H N N ? 5 I N N ? 5 J N N ? 5 K N N ? 5 L N N ? 5 M N N ? 5 N N N ? 5 O N N ? 5 P N N ? 5 Q N N ? 5 R N N ? 5 S N N ? 5 T N N ? 5 U N N ? 5 V N N ? 5 W N N ? 5 X N N ? 5 Y 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 13 G CYS 54 1_555 A SG CYS 33 G CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf2 A SG CYS 78 G CYS 119 1_555 A SG CYS 91 G CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf3 A SG CYS 104 G CYS 218 1_555 A SG CYS 133 G CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.887 ? disulf ? disulf4 A SG CYS 114 G CYS 228 1_555 A SG CYS 125 G CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf5 A SG CYS 182 G CYS 296 1_555 A SG CYS 201 G CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf6 A SG CYS 247 G CYS 378 1_555 A SG CYS 308 G CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf7 A SG CYS 254 G CYS 385 1_555 A SG CYS 281 G CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf8 A SG CYS 264 G CYS 395 1_555 A SG CYS 273 G CYS 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? disulf ? disulf9 B SG CYS 6 N CYS 6 1_555 B SG CYS 24 N CYS 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? disulf ? disulf10 B SG CYS 10 N CYS 10 1_555 B SG CYS 26 N CYS 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.93 ? disulf ? disulf11 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf12 C SG CYS 150 H CYS 140 1_555 C SG CYS 206 H CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf13 D SG CYS 23 L CYS 23 1_555 D SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf14 D SG CYS 134 L CYS 134 1_555 D SG CYS 194 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? disulf ? disulf15 E SG CYS 13 A CYS 54 1_555 E SG CYS 33 A CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf16 E SG CYS 78 A CYS 119 1_555 E SG CYS 91 A CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf17 E SG CYS 104 A CYS 218 1_555 E SG CYS 133 A CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? disulf ? disulf18 E SG CYS 114 A CYS 228 1_555 E SG CYS 125 A CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? disulf ? disulf19 E SG CYS 182 A CYS 296 1_555 E SG CYS 201 A CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? disulf ? disulf20 E SG CYS 247 A CYS 378 1_555 E SG CYS 308 A CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.871 ? disulf ? disulf21 E SG CYS 254 A CYS 385 1_555 E SG CYS 281 A CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf22 E SG CYS 264 A CYS 395 1_555 E SG CYS 273 A CYS 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf23 F SG CYS 22 C CYS 22 1_555 F SG CYS 96 C CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? disulf ? disulf24 F SG CYS 150 C CYS 140 1_555 F SG CYS 206 C CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf25 G SG CYS 23 D CYS 23 1_555 G SG CYS 88 D CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf26 G SG CYS 134 D CYS 134 1_555 G SG CYS 194 D CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale1 A ND2 ASN 120 G ASN 234 1_555 H C1 NAG . G NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale2 A ND2 ASN 127 G ASN 241 1_555 I C1 NAG . G NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale3 A ND2 ASN 148 G ASN 262 1_555 J C1 NAG . G NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale4 A ND2 ASN 162 G ASN 276 1_555 K C1 NAG . G NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale5 A ND2 ASN 175 G ASN 289 1_555 L C1 NAG . G NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.392 ? covale ? covale6 A ND2 ASN 181 G ASN 295 1_555 M C1 NAG . G NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.41 ? covale ? covale7 A ND2 ASN 204 G ASN 334 1_555 N C1 NAG . G NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale8 A ND2 ASN 255 G ASN 386 1_555 O C1 NAG . G NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale9 A ND2 ASN 311 G ASN 448 1_555 P C1 NAG . G NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale10 B C MPT 1 N MPT 1 1_555 B N ASN 2 N ASN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale11 B SG MPT 1 N MPT 1 1_555 B SG CYS 19 N CYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale12 B C ALA 20 N ALA 20 1_555 B N DPR 21 N DPR 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? covale ? covale13 B C DPR 21 N DPR 21 1_555 B N THR 22 N THR 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale14 B C THR 22 N THR 22 1_555 B N U2X 23 N U2X 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.353 ? covale ? covale15 B C U2X 23 N U2X 29 1_555 B N CYS 24 N CYS 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.263 ? covale ? covale16 B C VAL 27 N VAL 33 1_555 B N NH2 28 N NH2 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.28 ? covale ? covale17 E ND2 ASN 120 A ASN 234 1_555 Q C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale18 E ND2 ASN 127 A ASN 241 1_555 R C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale19 E ND2 ASN 148 A ASN 262 1_555 S C1 NAG . A NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale20 E ND2 ASN 162 A ASN 276 1_555 T C1 NAG . A NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale21 E ND2 ASN 175 A ASN 289 1_555 U C1 NAG . A NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale22 E ND2 ASN 181 A ASN 295 1_555 V C1 NAG . A NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.411 ? covale ? covale23 E ND2 ASN 204 A ASN 334 1_555 W C1 NAG . A NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale24 E ND2 ASN 255 A ASN 386 1_555 X C1 NAG . A NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale25 E ND2 ASN 261 A ASN 392 1_555 Y C1 NAG . A NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.315 ? # _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 265 n n C1 O1 NAG sing 266 n n C1 O5 NAG sing 267 n n C1 H1 NAG sing 268 n n C2 C3 NAG sing 269 n n C2 N2 NAG sing 270 n n C2 H2 NAG sing 271 n n C3 C4 NAG sing 272 n n C3 O3 NAG sing 273 n n C3 H3 NAG sing 274 n n C4 C5 NAG sing 275 n n C4 O4 NAG sing 276 n n C4 H4 NAG sing 277 n n C5 C6 NAG sing 278 n n C5 O5 NAG sing 279 n n C5 H5 NAG sing 280 n n C6 O6 NAG sing 281 n n C6 H61 NAG sing 282 n n C6 H62 NAG sing 283 n n C7 C8 NAG sing 284 n n C7 N2 NAG sing 285 n n C7 O7 NAG doub 286 n n C8 H81 NAG sing 287 n n C8 H82 NAG sing 288 n n C8 H83 NAG sing 289 n n N2 HN2 NAG sing 290 n n O1 HO1 NAG sing 291 n n O3 HO3 NAG sing 292 n n O4 HO4 NAG sing 293 n n O6 HO6 NAG sing 294 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 7N8Q _atom_sites.fract_transf_matrix[1][1] 0.010082 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004078 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012097 _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] 0.00964 _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 H 5 NAG G 1 501 501 NAG NAG . I 5 NAG G 1 502 502 NAG NAG . J 5 NAG G 1 503 503 NAG NAG . K 5 NAG G 1 504 504 NAG NAG . L 5 NAG G 1 505 505 NAG NAG . M 5 NAG G 1 506 506 NAG NAG . N 5 NAG G 1 507 507 NAG NAG . O 5 NAG G 1 508 508 NAG NAG . P 5 NAG G 1 509 510 NAG NAG . Q 5 NAG A 1 501 501 NAG NAG . R 5 NAG A 1 502 502 NAG NAG . S 5 NAG A 1 503 503 NAG NAG . T 5 NAG A 1 504 504 NAG NAG . U 5 NAG A 1 505 505 NAG NAG . V 5 NAG A 1 506 506 NAG NAG . W 5 NAG A 1 507 507 NAG NAG . X 5 NAG A 1 508 508 NAG NAG . Y 5 NAG A 1 509 509 NAG NAG . Z 6 HOH G 1 601 6 HOH HOH . Z 6 HOH G 2 602 5 HOH HOH . Z 6 HOH G 3 603 2 HOH HOH . Z 6 HOH G 4 604 3 HOH HOH . Z 6 HOH G 5 605 1 HOH HOH . AA 6 HOH H 1 301 7 HOH HOH . AA 6 HOH H 2 302 8 HOH HOH . AA 6 HOH H 3 303 9 HOH HOH . BA 6 HOH L 1 301 11 HOH HOH . BA 6 HOH L 2 302 10 HOH HOH . CA 6 HOH A 1 601 4 HOH HOH . CA 6 HOH A 2 602 15 HOH HOH . DA 6 HOH C 1 301 13 HOH HOH . EA 6 HOH D 1 301 12 HOH HOH . EA 6 HOH D 2 302 14 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 . . . R 5 13.326 -33.013 26.509 1 72.09 ? C1 NAG 502 A 1 HETATM 2 C C2 NAG . . . R 5 14.342 -32.357 25.575 1 75.38 ? C2 NAG 502 A 1 HETATM 3 C C3 NAG . . . R 5 14.583 -30.923 26.017 1 75.91 ? C3 NAG 502 A 1 HETATM 4 C C4 NAG . . . R 5 13.317 -30.119 25.808 1 76.25 ? C4 NAG 502 A 1 HETATM 5 C C5 NAG . . . R 5 12.141 -30.754 26.544 1 78.99 ? C5 NAG 502 A 1 HETATM 6 C C6 NAG . . . R 5 10.953 -30.996 25.623 1 81.58 ? C6 NAG 502 A 1 HETATM 7 C C7 NAG . . . R 5 15.752 -34.267 24.955 1 72.56 ? C7 NAG 502 A 1 HETATM 8 C C8 NAG . . . R 5 17.123 -34.871 25.033 1 70.17 ? C8 NAG 502 A 1 HETATM 9 N N2 NAG . . . R 5 15.603 -33.091 25.555 1 74.39 ? N2 NAG 502 A 1 HETATM 10 O O3 NAG . . . R 5 15.641 -30.366 25.243 1 78.84 ? O3 NAG 502 A 1 HETATM 11 O O4 NAG . . . R 5 13.503 -28.793 26.298 1 83.94 ? O4 NAG 502 A 1 HETATM 12 O O5 NAG . . . R 5 12.469 -32.016 27.166 1 77.72 ? O5 NAG 502 A 1 HETATM 13 O O6 NAG . . . R 5 9.802 -30.281 26.073 1 79.16 ? O6 NAG 502 A 1 HETATM 14 O O7 NAG . . . R 5 14.836 -34.81 24.373 1 82.37 ? O7 NAG 502 A 1 # _model_server_stats.io_time_ms 49 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #