data_2B5I # _model_server_result.job_id 2S3602ivAwsXp9p3EDzXgg _model_server_result.datetime_utc '2024-11-01 05:39:59' _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 2b5i # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":400}' # _entry.id 2B5I # _exptl.entry_id 2B5I _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 116.32 _cell.angle_gamma 90 _cell.entry_id 2B5I _cell.length_a 113.913 _cell.length_b 87.709 _cell.length_c 130.177 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2B5I _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 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 ? 6 G N N ? 6 H N N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 5 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 5 n E NAG 1 E 1 NAG X 100 NAG 5 n E NAG 2 E 2 NAG X 101 NAG 5 n F NAG 1 F 1 NAG X 200 NAG 5 n F NAG 2 F 2 NAG X 201 NAG # 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 58 A CYS 58 1_555 A SG CYS 105 A CYS 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 B SG CYS 10 B CYS 10 1_555 B SG CYS 20 B CYS 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? disulf ? disulf3 B SG CYS 33 B CYS 33 1_555 B SG CYS 84 B CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf4 B SG CYS 48 B CYS 48 1_555 B SG CYS 60 B CYS 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf5 C SG CYS 7 C CYS 40 1_555 C SG CYS 17 C CYS 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf6 C SG CYS 47 C CYS 80 1_555 C SG CYS 60 C CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf7 C SG CYS 127 C CYS 160 1_555 C SG CYS 176 C CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf8 D SG CYS 3 D CYS 3 1_555 D SG CYS 147 D CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf9 D SG CYS 28 D CYS 28 1_555 D SG CYS 59 D CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf10 D SG CYS 30 D CYS 30 1_555 D SG CYS 61 D CYS 61 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf11 D SG CYS 46 D CYS 46 1_555 D SG CYS 104 D CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf12 D SG CYS 131 D CYS 131 1_555 D SG CYS 163 D CYS 163 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 B ND2 ASN 123 B ASN 123 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale2 C ND2 ASN 16 C ASN 49 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale3 C ND2 ASN 29 C ASN 62 1_555 G C1 NAG . C NAG 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale4 C ND2 ASN 104 C ASN 137 1_555 H C1 NAG . C NAG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale5 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale6 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? # _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_ _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 2B5I _atom_sites.fract_transf_matrix[1][1] 0.008779 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004343 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011401 _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] 0.008571 _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 G 6 NAG C 1 300 300 NAG NAG . H 6 NAG C 1 400 400 NAG NAG . I 7 HOH A 1 134 2 HOH HOH . I 7 HOH A 2 135 6 HOH HOH . I 7 HOH A 3 136 10 HOH HOH . I 7 HOH A 4 137 18 HOH HOH . I 7 HOH A 5 138 25 HOH HOH . I 7 HOH A 6 139 32 HOH HOH . I 7 HOH A 7 140 38 HOH HOH . I 7 HOH A 8 141 48 HOH HOH . I 7 HOH A 9 142 50 HOH HOH . I 7 HOH A 10 143 63 HOH HOH . I 7 HOH A 11 144 77 HOH HOH . I 7 HOH A 12 145 81 HOH HOH . I 7 HOH A 13 146 83 HOH HOH . I 7 HOH A 14 147 87 HOH HOH . I 7 HOH A 15 148 98 HOH HOH . I 7 HOH A 16 149 99 HOH HOH . I 7 HOH A 17 150 101 HOH HOH . I 7 HOH A 18 151 104 HOH HOH . I 7 HOH A 19 152 113 HOH HOH . I 7 HOH A 20 153 124 HOH HOH . I 7 HOH A 21 154 129 HOH HOH . I 7 HOH A 22 155 130 HOH HOH . I 7 HOH A 23 156 140 HOH HOH . I 7 HOH A 24 157 169 HOH HOH . J 7 HOH B 1 217 4 HOH HOH . J 7 HOH B 2 218 5 HOH HOH . J 7 HOH B 3 219 7 HOH HOH . J 7 HOH B 4 220 8 HOH HOH . J 7 HOH B 5 221 9 HOH HOH . J 7 HOH B 6 222 13 HOH HOH . J 7 HOH B 7 223 15 HOH HOH . J 7 HOH B 8 224 17 HOH HOH . J 7 HOH B 9 225 21 HOH HOH . J 7 HOH B 10 226 22 HOH HOH . J 7 HOH B 11 227 23 HOH HOH . J 7 HOH B 12 228 24 HOH HOH . J 7 HOH B 13 229 26 HOH HOH . J 7 HOH B 14 230 27 HOH HOH . J 7 HOH B 15 231 29 HOH HOH . J 7 HOH B 16 232 30 HOH HOH . J 7 HOH B 17 233 31 HOH HOH . J 7 HOH B 18 234 33 HOH HOH . J 7 HOH B 19 235 35 HOH HOH . J 7 HOH B 20 236 37 HOH HOH . J 7 HOH B 21 237 39 HOH HOH . J 7 HOH B 22 238 40 HOH HOH . J 7 HOH B 23 239 45 HOH HOH . J 7 HOH B 24 240 46 HOH HOH . J 7 HOH B 25 241 47 HOH HOH . J 7 HOH B 26 242 49 HOH HOH . J 7 HOH B 27 243 51 HOH HOH . J 7 HOH B 28 244 52 HOH HOH . J 7 HOH B 29 245 55 HOH HOH . J 7 HOH B 30 246 59 HOH HOH . J 7 HOH B 31 247 62 HOH HOH . J 7 HOH B 32 248 65 HOH HOH . J 7 HOH B 33 249 68 HOH HOH . J 7 HOH B 34 250 69 HOH HOH . J 7 HOH B 35 251 72 HOH HOH . J 7 HOH B 36 252 74 HOH HOH . J 7 HOH B 37 253 84 HOH HOH . J 7 HOH B 38 254 85 HOH HOH . J 7 HOH B 39 255 86 HOH HOH . J 7 HOH B 40 256 90 HOH HOH . J 7 HOH B 41 257 91 HOH HOH . J 7 HOH B 42 258 94 HOH HOH . J 7 HOH B 43 259 95 HOH HOH . J 7 HOH B 44 260 96 HOH HOH . J 7 HOH B 45 261 106 HOH HOH . J 7 HOH B 46 262 108 HOH HOH . J 7 HOH B 47 263 111 HOH HOH . J 7 HOH B 48 264 114 HOH HOH . J 7 HOH B 49 265 115 HOH HOH . J 7 HOH B 50 266 116 HOH HOH . J 7 HOH B 51 267 117 HOH HOH . J 7 HOH B 52 268 119 HOH HOH . J 7 HOH B 53 269 121 HOH HOH . J 7 HOH B 54 270 122 HOH HOH . J 7 HOH B 55 271 125 HOH HOH . J 7 HOH B 56 272 127 HOH HOH . J 7 HOH B 57 273 128 HOH HOH . J 7 HOH B 58 274 132 HOH HOH . J 7 HOH B 59 275 133 HOH HOH . J 7 HOH B 60 276 139 HOH HOH . J 7 HOH B 61 277 141 HOH HOH . J 7 HOH B 62 278 142 HOH HOH . J 7 HOH B 63 279 143 HOH HOH . J 7 HOH B 64 280 144 HOH HOH . J 7 HOH B 65 281 146 HOH HOH . J 7 HOH B 66 282 148 HOH HOH . J 7 HOH B 67 283 149 HOH HOH . J 7 HOH B 68 284 151 HOH HOH . J 7 HOH B 69 285 152 HOH HOH . J 7 HOH B 70 286 160 HOH HOH . J 7 HOH B 71 287 161 HOH HOH . J 7 HOH B 72 288 164 HOH HOH . J 7 HOH B 73 289 166 HOH HOH . J 7 HOH B 74 290 167 HOH HOH . J 7 HOH B 75 291 168 HOH HOH . J 7 HOH B 76 292 171 HOH HOH . K 7 HOH C 1 401 1 HOH HOH . K 7 HOH C 2 402 3 HOH HOH . K 7 HOH C 3 403 11 HOH HOH . K 7 HOH C 4 404 12 HOH HOH . K 7 HOH C 5 405 14 HOH HOH . K 7 HOH C 6 406 16 HOH HOH . K 7 HOH C 7 407 19 HOH HOH . K 7 HOH C 8 408 20 HOH HOH . K 7 HOH C 9 409 28 HOH HOH . K 7 HOH C 10 410 34 HOH HOH . K 7 HOH C 11 411 36 HOH HOH . K 7 HOH C 12 412 41 HOH HOH . K 7 HOH C 13 413 42 HOH HOH . K 7 HOH C 14 414 43 HOH HOH . K 7 HOH C 15 415 44 HOH HOH . K 7 HOH C 16 416 53 HOH HOH . K 7 HOH C 17 417 54 HOH HOH . K 7 HOH C 18 418 56 HOH HOH . K 7 HOH C 19 419 57 HOH HOH . K 7 HOH C 20 420 58 HOH HOH . K 7 HOH C 21 421 60 HOH HOH . K 7 HOH C 22 422 61 HOH HOH . K 7 HOH C 23 423 64 HOH HOH . K 7 HOH C 24 424 66 HOH HOH . K 7 HOH C 25 425 67 HOH HOH . K 7 HOH C 26 426 70 HOH HOH . K 7 HOH C 27 427 71 HOH HOH . K 7 HOH C 28 428 73 HOH HOH . K 7 HOH C 29 429 75 HOH HOH . K 7 HOH C 30 430 76 HOH HOH . K 7 HOH C 31 431 79 HOH HOH . K 7 HOH C 32 432 80 HOH HOH . K 7 HOH C 33 433 82 HOH HOH . K 7 HOH C 34 434 88 HOH HOH . K 7 HOH C 35 435 92 HOH HOH . K 7 HOH C 36 436 93 HOH HOH . K 7 HOH C 37 437 97 HOH HOH . K 7 HOH C 38 438 100 HOH HOH . K 7 HOH C 39 439 102 HOH HOH . K 7 HOH C 40 440 103 HOH HOH . K 7 HOH C 41 441 107 HOH HOH . K 7 HOH C 42 442 109 HOH HOH . K 7 HOH C 43 443 112 HOH HOH . K 7 HOH C 44 444 118 HOH HOH . K 7 HOH C 45 445 120 HOH HOH . K 7 HOH C 46 446 123 HOH HOH . K 7 HOH C 47 447 126 HOH HOH . K 7 HOH C 48 448 131 HOH HOH . K 7 HOH C 49 449 134 HOH HOH . K 7 HOH C 50 450 135 HOH HOH . K 7 HOH C 51 451 136 HOH HOH . K 7 HOH C 52 452 137 HOH HOH . K 7 HOH C 53 453 147 HOH HOH . K 7 HOH C 54 454 150 HOH HOH . K 7 HOH C 55 455 153 HOH HOH . K 7 HOH C 56 456 154 HOH HOH . K 7 HOH C 57 457 157 HOH HOH . K 7 HOH C 58 458 158 HOH HOH . K 7 HOH C 59 459 159 HOH HOH . K 7 HOH C 60 460 162 HOH HOH . K 7 HOH C 61 461 163 HOH HOH . K 7 HOH C 62 462 165 HOH HOH . K 7 HOH C 63 463 170 HOH HOH . L 7 HOH D 1 218 78 HOH HOH . L 7 HOH D 2 219 89 HOH HOH . L 7 HOH D 3 220 105 HOH HOH . L 7 HOH D 4 221 110 HOH HOH . L 7 HOH D 5 222 138 HOH HOH . L 7 HOH D 6 223 145 HOH HOH . L 7 HOH D 7 224 155 HOH HOH . L 7 HOH D 8 225 156 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 6 -28.591 -13.167 39.424 1 76.06 ? C1 NAG 400 C 1 HETATM 2 C C2 NAG . . . H 6 -28.896 -11.864 38.67 1 79.95 ? C2 NAG 400 C 1 HETATM 3 C C3 NAG . . . H 6 -30.126 -11.976 37.767 1 80.51 ? C3 NAG 400 C 1 HETATM 4 C C4 NAG . . . H 6 -30.034 -13.227 36.897 1 80.28 ? C4 NAG 400 C 1 HETATM 5 C C5 NAG . . . H 6 -29.764 -14.456 37.781 1 79.1 ? C5 NAG 400 C 1 HETATM 6 C C6 NAG . . . H 6 -29.712 -15.776 37.001 1 79.07 ? C6 NAG 400 C 1 HETATM 7 C C7 NAG . . . H 6 -28.248 -9.734 39.606 1 82.28 ? C7 NAG 400 C 1 HETATM 8 C C8 NAG . . . H 6 -28.697 -8.496 38.888 1 82.69 ? C8 NAG 400 C 1 HETATM 9 N N2 NAG . . . H 6 -29.088 -10.764 39.597 1 81.57 ? N2 NAG 400 C 1 HETATM 10 O O3 NAG . . . H 6 -30.247 -10.829 36.949 1 81.48 ? O3 NAG 400 C 1 HETATM 11 O O4 NAG . . . H 6 -31.228 -13.345 36.153 1 80.59 ? O4 NAG 400 C 1 HETATM 12 O O5 NAG . . . H 6 -28.552 -14.249 38.495 1 77.9 ? O5 NAG 400 C 1 HETATM 13 O O6 NAG . . . H 6 -28.637 -15.803 36.087 1 78.98 ? O6 NAG 400 C 1 HETATM 14 O O7 NAG . . . H 6 -27.154 -9.778 40.165 1 82.96 ? O7 NAG 400 C 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #