data_1NEZ # _model_server_result.job_id HBzQpRm-EpHRj9PxQvr7Bw _model_server_result.datetime_utc '2024-12-26 14:42:11' _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 1nez # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":2070}' # _entry.id 1NEZ # _exptl.entry_id 1NEZ _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 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 120 _cell.entry_id 1NEZ _cell.length_a 77.018 _cell.length_b 77.018 _cell.length_c 176.045 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NEZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 E N N ? 4 F N N ? 4 G N N ? 4 H 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 101 A CYS 101 1_555 A SG CYS 164 A CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.825 ? disulf ? disulf2 A SG CYS 203 A CYS 203 1_555 A SG CYS 259 A CYS 259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? disulf ? disulf3 B SG CYS 25 B CYS 25 1_555 B SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? disulf ? disulf4 C SG CYS 26 G CYS 26 1_555 C SG CYS 102 G CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.573 ? disulf ? disulf5 D SG CYS 26 H CYS 26 1_555 D SG CYS 102 H CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? covale ? covale1 C ND2 ASN 42 G ASN 42 1_555 E C1 NAG . G NAG 1042 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale2 C ND2 ASN 70 G ASN 70 1_555 F C1 NAG . G NAG 1070 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale3 D ND2 ASN 42 H ASN 42 1_555 G C1 NAG . H NAG 2042 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale4 D ND2 ASN 70 H ASN 70 1_555 H C1 NAG . H NAG 2070 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? # _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 1NEZ _atom_sites.fract_transf_matrix[1][1] 0.012984 _atom_sites.fract_transf_matrix[1][2] 0.007496 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014993 _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] 0.00568 _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 4 NAG G 1 1042 1042 NAG NAG . F 4 NAG G 1 1070 1070 NAG NAG . G 4 NAG H 1 2042 2042 NAG NAG . H 4 NAG H 1 2070 2070 NAG NAG . I 5 HOH A 1 275 1 HOH HOH . I 5 HOH A 2 276 3 HOH HOH . I 5 HOH A 3 277 4 HOH HOH . I 5 HOH A 4 278 7 HOH HOH . I 5 HOH A 5 279 8 HOH HOH . I 5 HOH A 6 280 9 HOH HOH . I 5 HOH A 7 281 14 HOH HOH . I 5 HOH A 8 282 15 HOH HOH . I 5 HOH A 9 283 18 HOH HOH . I 5 HOH A 10 284 19 HOH HOH . I 5 HOH A 11 285 21 HOH HOH . I 5 HOH A 12 286 23 HOH HOH . I 5 HOH A 13 287 25 HOH HOH . I 5 HOH A 14 288 29 HOH HOH . I 5 HOH A 15 289 30 HOH HOH . I 5 HOH A 16 290 31 HOH HOH . I 5 HOH A 17 291 32 HOH HOH . I 5 HOH A 18 292 34 HOH HOH . I 5 HOH A 19 293 39 HOH HOH . I 5 HOH A 20 294 45 HOH HOH . I 5 HOH A 21 295 46 HOH HOH . I 5 HOH A 22 296 47 HOH HOH . I 5 HOH A 23 297 48 HOH HOH . I 5 HOH A 24 298 49 HOH HOH . I 5 HOH A 25 299 52 HOH HOH . I 5 HOH A 26 300 53 HOH HOH . I 5 HOH A 27 301 54 HOH HOH . I 5 HOH A 28 302 57 HOH HOH . I 5 HOH A 29 303 59 HOH HOH . I 5 HOH A 30 304 61 HOH HOH . I 5 HOH A 31 305 62 HOH HOH . I 5 HOH A 32 306 63 HOH HOH . I 5 HOH A 33 307 66 HOH HOH . I 5 HOH A 34 308 67 HOH HOH . I 5 HOH A 35 309 69 HOH HOH . I 5 HOH A 36 310 77 HOH HOH . I 5 HOH A 37 311 78 HOH HOH . I 5 HOH A 38 312 79 HOH HOH . I 5 HOH A 39 313 82 HOH HOH . I 5 HOH A 40 314 84 HOH HOH . I 5 HOH A 41 315 87 HOH HOH . I 5 HOH A 42 316 91 HOH HOH . I 5 HOH A 43 317 93 HOH HOH . I 5 HOH A 44 318 94 HOH HOH . I 5 HOH A 45 319 96 HOH HOH . I 5 HOH A 46 320 97 HOH HOH . I 5 HOH A 47 321 98 HOH HOH . I 5 HOH A 48 322 101 HOH HOH . I 5 HOH A 49 323 103 HOH HOH . I 5 HOH A 50 324 107 HOH HOH . I 5 HOH A 51 325 110 HOH HOH . I 5 HOH A 52 326 118 HOH HOH . I 5 HOH A 53 327 119 HOH HOH . I 5 HOH A 54 328 120 HOH HOH . I 5 HOH A 55 329 121 HOH HOH . I 5 HOH A 56 330 123 HOH HOH . I 5 HOH A 57 331 126 HOH HOH . I 5 HOH A 58 332 131 HOH HOH . I 5 HOH A 59 333 132 HOH HOH . I 5 HOH A 60 334 134 HOH HOH . I 5 HOH A 61 335 138 HOH HOH . I 5 HOH A 62 336 141 HOH HOH . I 5 HOH A 63 337 147 HOH HOH . I 5 HOH A 64 338 148 HOH HOH . I 5 HOH A 65 339 151 HOH HOH . I 5 HOH A 66 340 152 HOH HOH . I 5 HOH A 67 341 155 HOH HOH . I 5 HOH A 68 342 158 HOH HOH . I 5 HOH A 69 343 160 HOH HOH . I 5 HOH A 70 344 161 HOH HOH . I 5 HOH A 71 345 162 HOH HOH . I 5 HOH A 72 346 164 HOH HOH . J 5 HOH B 1 100 16 HOH HOH . J 5 HOH B 2 101 20 HOH HOH . J 5 HOH B 3 102 38 HOH HOH . J 5 HOH B 4 103 58 HOH HOH . J 5 HOH B 5 104 70 HOH HOH . J 5 HOH B 6 105 85 HOH HOH . J 5 HOH B 7 106 90 HOH HOH . J 5 HOH B 8 107 109 HOH HOH . J 5 HOH B 9 108 113 HOH HOH . J 5 HOH B 10 109 124 HOH HOH . J 5 HOH B 11 110 125 HOH HOH . J 5 HOH B 12 111 133 HOH HOH . J 5 HOH B 13 112 139 HOH HOH . J 5 HOH B 14 113 140 HOH HOH . J 5 HOH B 15 114 149 HOH HOH . K 5 HOH G 1 1071 6 HOH HOH . K 5 HOH G 2 1072 10 HOH HOH . K 5 HOH G 3 1073 11 HOH HOH . K 5 HOH G 4 1074 12 HOH HOH . K 5 HOH G 5 1075 13 HOH HOH . K 5 HOH G 6 1076 22 HOH HOH . K 5 HOH G 7 1077 26 HOH HOH . K 5 HOH G 8 1078 27 HOH HOH . K 5 HOH G 9 1079 33 HOH HOH . K 5 HOH G 10 1080 36 HOH HOH . K 5 HOH G 11 1081 37 HOH HOH . K 5 HOH G 12 1082 43 HOH HOH . K 5 HOH G 13 1083 44 HOH HOH . K 5 HOH G 14 1084 50 HOH HOH . K 5 HOH G 15 1085 51 HOH HOH . K 5 HOH G 16 1086 55 HOH HOH . K 5 HOH G 17 1087 64 HOH HOH . K 5 HOH G 18 1088 65 HOH HOH . K 5 HOH G 19 1089 68 HOH HOH . K 5 HOH G 20 1090 71 HOH HOH . K 5 HOH G 21 1091 72 HOH HOH . K 5 HOH G 22 1092 73 HOH HOH . K 5 HOH G 23 1093 76 HOH HOH . K 5 HOH G 24 1094 81 HOH HOH . K 5 HOH G 25 1095 83 HOH HOH . K 5 HOH G 26 1096 89 HOH HOH . K 5 HOH G 27 1097 92 HOH HOH . K 5 HOH G 28 1098 95 HOH HOH . K 5 HOH G 29 1099 99 HOH HOH . K 5 HOH G 30 1100 100 HOH HOH . K 5 HOH G 31 1101 102 HOH HOH . K 5 HOH G 32 1102 104 HOH HOH . K 5 HOH G 33 1103 105 HOH HOH . K 5 HOH G 34 1104 106 HOH HOH . K 5 HOH G 35 1105 108 HOH HOH . K 5 HOH G 36 1106 111 HOH HOH . K 5 HOH G 37 1107 112 HOH HOH . K 5 HOH G 38 1108 114 HOH HOH . K 5 HOH G 39 1109 115 HOH HOH . K 5 HOH G 40 1110 116 HOH HOH . K 5 HOH G 41 1111 117 HOH HOH . K 5 HOH G 42 1112 122 HOH HOH . K 5 HOH G 43 1113 127 HOH HOH . K 5 HOH G 44 1114 129 HOH HOH . K 5 HOH G 45 1115 135 HOH HOH . K 5 HOH G 46 1116 144 HOH HOH . K 5 HOH G 47 1117 154 HOH HOH . K 5 HOH G 48 1118 156 HOH HOH . K 5 HOH G 49 1119 157 HOH HOH . K 5 HOH G 50 1120 159 HOH HOH . K 5 HOH G 51 1121 163 HOH HOH . L 5 HOH H 1 2071 2 HOH HOH . L 5 HOH H 2 2072 5 HOH HOH . L 5 HOH H 3 2073 17 HOH HOH . L 5 HOH H 4 2074 24 HOH HOH . L 5 HOH H 5 2075 28 HOH HOH . L 5 HOH H 6 2076 35 HOH HOH . L 5 HOH H 7 2077 40 HOH HOH . L 5 HOH H 8 2078 41 HOH HOH . L 5 HOH H 9 2079 42 HOH HOH . L 5 HOH H 10 2080 56 HOH HOH . L 5 HOH H 11 2081 60 HOH HOH . L 5 HOH H 12 2082 74 HOH HOH . L 5 HOH H 13 2083 75 HOH HOH . L 5 HOH H 14 2084 80 HOH HOH . L 5 HOH H 15 2085 86 HOH HOH . L 5 HOH H 16 2086 88 HOH HOH . L 5 HOH H 17 2087 128 HOH HOH . L 5 HOH H 18 2088 130 HOH HOH . L 5 HOH H 19 2089 136 HOH HOH . L 5 HOH H 20 2090 137 HOH HOH . L 5 HOH H 21 2091 142 HOH HOH . L 5 HOH H 22 2092 143 HOH HOH . L 5 HOH H 23 2093 145 HOH HOH . L 5 HOH H 24 2094 146 HOH HOH . L 5 HOH H 25 2095 150 HOH HOH . L 5 HOH H 26 2096 153 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 . . . H 4 29.452 2.609 -353.037 1 84.16 ? C1 NAG 2070 H 1 HETATM 2 C C2 NAG . . . H 4 29.728 3.17 -354.456 1 85.43 ? C2 NAG 2070 H 1 HETATM 3 C C3 NAG . . . H 4 30.184 4.646 -354.428 1 83.79 ? C3 NAG 2070 H 1 HETATM 4 C C4 NAG . . . H 4 29.277 5.492 -353.539 1 82.79 ? C4 NAG 2070 H 1 HETATM 5 C C5 NAG . . . H 4 29.206 4.839 -352.163 1 84.08 ? C5 NAG 2070 H 1 HETATM 6 C C6 NAG . . . H 4 28.361 5.623 -351.172 1 84.7 ? C6 NAG 2070 H 1 HETATM 7 C C7 NAG . . . H 4 31.938 2.149 -354.645 1 85.31 ? C7 NAG 2070 H 1 HETATM 8 C C8 NAG . . . H 4 33.013 3.194 -354.914 1 84.5 ? C8 NAG 2070 H 1 HETATM 9 N N2 NAG . . . H 4 30.721 2.358 -355.155 1 85.12 ? N2 NAG 2070 H 1 HETATM 10 O O3 NAG . . . H 4 30.157 5.171 -355.746 1 89.27 ? O3 NAG 2070 H 1 HETATM 11 O O4 NAG . . . H 4 29.789 6.819 -353.433 1 76.93 ? O4 NAG 2070 H 1 HETATM 12 O O5 NAG . . . H 4 28.627 3.519 -352.285 1 84.72 ? O5 NAG 2070 H 1 HETATM 13 O O6 NAG . . . H 4 27.078 5.035 -351.004 1 86.08 ? O6 NAG 2070 H 1 HETATM 14 O O7 NAG . . . H 4 32.224 1.143 -353.991 1 85.22 ? O7 NAG 2070 H 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #