data_6XCJ # _model_server_result.job_id LjS6IW9ikfMAnnrrpR6hfw _model_server_result.datetime_utc '2024-11-28 09:32:35' _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 6xcj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":503}' # _entry.id 6XCJ # _exptl.entry_id 6XCJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 9 _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 6XCJ _cell.length_a 138.52 _cell.length_b 122.1 _cell.length_c 53.4 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6XCJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,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 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 D N N ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 K N N ? 4 L 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 102 G CYS 218 1_555 A SG CYS 131 G CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 112 G CYS 228 1_555 A SG CYS 123 G CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf3 A SG CYS 180 G CYS 296 1_555 A SG CYS 199 G CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 A SG CYS 245 G CYS 377 1_555 A SG CYS 312 G CYS 444 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 A SG CYS 252 G CYS 384 1_555 A SG CYS 285 G CYS 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf6 B SG CYS 22 H CYS 22 1_555 B SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf7 B SG CYS 148 H CYS 148 1_555 B SG CYS 204 H CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf8 C SG CYS 23 L CYS 23 1_555 C SG CYS 94 L CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf9 C SG CYS 140 L CYS 140 1_555 C SG CYS 200 L CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? covale ? covale1 A ND2 ASN 114 G ASN 230 1_555 K C1 NAG . G NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale2 A ND2 ASN 125 G ASN 241 1_555 F C1 NAG . G NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale3 A ND2 ASN 146 G ASN 262 1_555 G C1 NAG . G NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale4 A ND2 ASN 160 G ASN 276 1_555 H C1 NAG . G NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale5 A ND2 ASN 173 G ASN 289 1_555 L C1 NAG . G NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale6 A ND2 ASN 202 G ASN 334 1_555 J C1 NAG . G NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale7 A ND2 ASN 207 G ASN 339 1_555 I C1 NAG . G NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale8 A ND2 ASN 253 G ASN 385 1_555 D C1 NAG . G NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale9 A ND2 ASN 259 G ASN 391 1_555 E C1 NAG . G NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? # _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 6XCJ _atom_sites.fract_transf_matrix[1][1] 0.007219 _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] 0.00819 _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] 0.018727 _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 NAG G 1 501 503 NAG NAG . E 4 NAG G 1 502 504 NAG NAG . F 4 NAG G 1 503 506 NAG NAG . G 4 NAG G 1 504 510 NAG NAG . H 4 NAG G 1 505 512 NAG NAG . I 4 NAG G 1 506 514 NAG NAG . J 4 NAG G 1 507 515 NAG NAG . K 4 NAG G 1 508 516 NAG NAG . L 4 NAG G 1 509 517 NAG NAG . M 5 HOH G 1 601 8 HOH HOH . M 5 HOH G 2 602 11 HOH HOH . M 5 HOH G 3 603 17 HOH HOH . N 5 HOH H 1 301 16 HOH HOH . N 5 HOH H 2 302 14 HOH HOH . N 5 HOH H 3 303 1 HOH HOH . N 5 HOH H 4 304 15 HOH HOH . N 5 HOH H 5 305 18 HOH HOH . N 5 HOH H 6 306 9 HOH HOH . N 5 HOH H 7 307 7 HOH HOH . N 5 HOH H 8 308 10 HOH HOH . N 5 HOH H 9 309 13 HOH HOH . O 5 HOH L 1 301 5 HOH HOH . O 5 HOH L 2 302 19 HOH HOH . O 5 HOH L 3 303 4 HOH HOH . O 5 HOH L 4 304 3 HOH HOH . O 5 HOH L 5 305 12 HOH HOH . O 5 HOH L 6 306 2 HOH HOH . O 5 HOH L 7 307 20 HOH HOH . O 5 HOH L 8 308 21 HOH HOH . O 5 HOH L 9 309 6 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 . . . F 4 41.034 -2.054 104.98 1 81.52 ? C1 NAG 503 G 1 HETATM 2 C C2 NAG . . . F 4 40.705 -3.546 104.89 1 82.24 ? C2 NAG 503 G 1 HETATM 3 C C3 NAG . . . F 4 41.622 -4.301 105.857 1 82.65 ? C3 NAG 503 G 1 HETATM 4 C C4 NAG . . . F 4 43.088 -3.991 105.565 1 82.84 ? C4 NAG 503 G 1 HETATM 5 C C5 NAG . . . F 4 43.305 -2.479 105.55 1 82.74 ? C5 NAG 503 G 1 HETATM 6 C C6 NAG . . . F 4 44.707 -2.074 105.142 1 83.13 ? C6 NAG 503 G 1 HETATM 7 C C7 NAG . . . F 4 38.622 -3.677 106.28 1 82.42 ? C7 NAG 503 G 1 HETATM 8 C C8 NAG . . . F 4 37.279 -4.34 106.375 1 82.34 ? C8 NAG 503 G 1 HETATM 9 N N2 NAG . . . F 4 39.306 -3.894 105.129 1 82.45 ? N2 NAG 503 G 1 HETATM 10 O O3 NAG . . . F 4 41.381 -5.702 105.749 1 82.63 ? O3 NAG 503 G 1 HETATM 11 O O4 NAG . . . F 4 43.915 -4.578 106.569 1 82.95 ? O4 NAG 503 G 1 HETATM 12 O O5 NAG . . . F 4 42.401 -1.876 104.606 1 82.09 ? O5 NAG 503 G 1 HETATM 13 O O6 NAG . . . F 4 45.672 -2.338 106.16 1 83.29 ? O6 NAG 503 G 1 HETATM 14 O O7 NAG . . . F 4 39.08 -3.001 107.198 1 82.41 ? O7 NAG 503 G 1 HETATM 15 H H2 NAG . . . F 4 40.962 -3.884 103.887 1 98.68 ? H2 NAG 503 G 1 HETATM 16 H H3 NAG . . . F 4 41.407 -3.99 106.878 1 99.18 ? H3 NAG 503 G 1 HETATM 17 H H4 NAG . . . F 4 43.323 -4.394 104.58 1 99.41 ? H4 NAG 503 G 1 HETATM 18 H H5 NAG . . . F 4 43.11 -2.074 106.542 1 99.29 ? H5 NAG 503 G 1 HETATM 19 H H61 NAG . . . F 4 44.754 -0.992 105.024 1 99.75 ? H61 NAG 503 G 1 HETATM 20 H H62 NAG . . . F 4 44.996 -2.521 104.192 1 99.75 ? H62 NAG 503 G 1 HETATM 21 H H81 NAG . . . F 4 36.735 -4.1 107.288 1 98.81 ? H81 NAG 503 G 1 HETATM 22 H H82 NAG . . . F 4 37.376 -5.425 106.356 1 98.81 ? H82 NAG 503 G 1 HETATM 23 H H83 NAG . . . F 4 36.638 -4.072 105.537 1 98.81 ? H83 NAG 503 G 1 HETATM 24 H HN2 NAG . . . F 4 38.832 -4.332 104.346 1 98.94 ? HN2 NAG 503 G 1 HETATM 25 H HO3 NAG . . . F 4 42.067 -6.142 106.317 1 99.16 ? HO3 NAG 503 G 1 HETATM 26 H HO4 NAG . . . F 4 44.821 -4.701 106.179 1 99.54 ? HO4 NAG 503 G 1 HETATM 27 H HO6 NAG . . . F 4 46.549 -2 105.842 1 99.94 ? HO6 NAG 503 G 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #