data_6DXZ # _model_server_result.job_id d9MgNdC8fkLsqppRy1HKzw _model_server_result.datetime_utc '2024-12-02 12:19:01' _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 6dxz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":202}' # _entry.id 6DXZ # _exptl.entry_id 6DXZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _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 90 _cell.angle_gamma 90 _cell.entry_id 6DXZ _cell.length_a 159.143 _cell.length_b 159.143 _cell.length_c 159.143 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DXZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 212 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 3 C N N ? 3 D 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 covale ? covale1 A ND2 ASN 19 A ASN 39 1_555 C C1 NAG . A NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 89 A ASN 109 1_555 D C1 NAG . A NAG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? metalc ? metalc1 A O ARG 35 A ARG 55 1_555 E K K . A K 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.741 ? metalc ? metalc2 A O TYR 37 A TYR 57 1_555 E K K . A K 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.196 ? metalc ? metalc3 E K K . A K 203 1_555 K O HOH . A HOH 329 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.958 ? # _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 274 n n C1 O1 NAG sing 275 n n C1 O5 NAG sing 276 n n C1 H1 NAG sing 277 n n C2 C3 NAG sing 278 n n C2 N2 NAG sing 279 n n C2 H2 NAG sing 280 n n C3 C4 NAG sing 281 n n C3 O3 NAG sing 282 n n C3 H3 NAG sing 283 n n C4 C5 NAG sing 284 n n C4 O4 NAG sing 285 n n C4 H4 NAG sing 286 n n C5 C6 NAG sing 287 n n C5 O5 NAG sing 288 n n C5 H5 NAG sing 289 n n C6 O6 NAG sing 290 n n C6 H61 NAG sing 291 n n C6 H62 NAG sing 292 n n C7 C8 NAG sing 293 n n C7 N2 NAG sing 294 n n C7 O7 NAG doub 295 n n C8 H81 NAG sing 296 n n C8 H82 NAG sing 297 n n C8 H83 NAG sing 298 n n N2 HN2 NAG sing 299 n n O1 HO1 NAG sing 300 n n O3 HO3 NAG sing 301 n n O4 HO4 NAG sing 302 n n O6 HO6 NAG sing 303 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 6DXZ _atom_sites.fract_transf_matrix[1][1] 0.006284 _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] 0.006284 _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] 0.006284 _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 C 3 NAG A 1 201 1 NAG NAG . D 3 NAG A 1 202 2 NAG NAG . E 4 K A 1 203 1 K K . F 5 TRT A 1 204 1 TRT TRT . G 5 TRT A 1 205 2 TRT TRT . H 6 27L A 1 206 1 27L 27L . I 7 WTF B 1 401 1 WTF WTF . J 8 TON B 1 402 1 TON TON . K 9 HOH A 1 301 9 HOH HOH . K 9 HOH A 2 302 38 HOH HOH . K 9 HOH A 3 303 10 HOH HOH . K 9 HOH A 4 304 6 HOH HOH . K 9 HOH A 5 305 146 HOH HOH . K 9 HOH A 6 306 13 HOH HOH . K 9 HOH A 7 307 60 HOH HOH . K 9 HOH A 8 308 110 HOH HOH . K 9 HOH A 9 309 56 HOH HOH . K 9 HOH A 10 310 20 HOH HOH . K 9 HOH A 11 311 153 HOH HOH . K 9 HOH A 12 312 39 HOH HOH . K 9 HOH A 13 313 126 HOH HOH . K 9 HOH A 14 314 59 HOH HOH . K 9 HOH A 15 315 55 HOH HOH . K 9 HOH A 16 316 23 HOH HOH . K 9 HOH A 17 317 118 HOH HOH . K 9 HOH A 18 318 64 HOH HOH . K 9 HOH A 19 319 19 HOH HOH . K 9 HOH A 20 320 72 HOH HOH . K 9 HOH A 21 321 117 HOH HOH . K 9 HOH A 22 322 22 HOH HOH . K 9 HOH A 23 323 101 HOH HOH . K 9 HOH A 24 324 21 HOH HOH . K 9 HOH A 25 325 32 HOH HOH . K 9 HOH A 26 326 74 HOH HOH . K 9 HOH A 27 327 92 HOH HOH . K 9 HOH A 28 328 121 HOH HOH . K 9 HOH A 29 329 67 HOH HOH . K 9 HOH A 30 330 115 HOH HOH . K 9 HOH A 31 331 80 HOH HOH . K 9 HOH A 32 332 154 HOH HOH . K 9 HOH A 33 333 82 HOH HOH . K 9 HOH A 34 334 144 HOH HOH . K 9 HOH A 35 335 155 HOH HOH . K 9 HOH A 36 336 54 HOH HOH . K 9 HOH A 37 337 104 HOH HOH . K 9 HOH A 38 338 150 HOH HOH . K 9 HOH A 39 339 137 HOH HOH . K 9 HOH A 40 340 89 HOH HOH . K 9 HOH A 41 341 142 HOH HOH . K 9 HOH A 42 342 112 HOH HOH . K 9 HOH A 43 343 95 HOH HOH . K 9 HOH A 44 344 124 HOH HOH . K 9 HOH A 45 345 134 HOH HOH . K 9 HOH A 46 346 143 HOH HOH . K 9 HOH A 47 347 27 HOH HOH . K 9 HOH A 48 348 111 HOH HOH . K 9 HOH A 49 349 102 HOH HOH . K 9 HOH A 50 350 152 HOH HOH . K 9 HOH A 51 351 100 HOH HOH . K 9 HOH A 52 352 145 HOH HOH . L 9 HOH B 1 501 160 HOH HOH . L 9 HOH B 2 502 3 HOH HOH . L 9 HOH B 3 503 2 HOH HOH . L 9 HOH B 4 504 61 HOH HOH . L 9 HOH B 5 505 5 HOH HOH . L 9 HOH B 6 506 34 HOH HOH . L 9 HOH B 7 507 68 HOH HOH . L 9 HOH B 8 508 83 HOH HOH . L 9 HOH B 9 509 16 HOH HOH . L 9 HOH B 10 510 37 HOH HOH . L 9 HOH B 11 511 1 HOH HOH . L 9 HOH B 12 512 36 HOH HOH . L 9 HOH B 13 513 4 HOH HOH . L 9 HOH B 14 514 15 HOH HOH . L 9 HOH B 15 515 7 HOH HOH . L 9 HOH B 16 516 11 HOH HOH . L 9 HOH B 17 517 120 HOH HOH . L 9 HOH B 18 518 44 HOH HOH . L 9 HOH B 19 519 46 HOH HOH . L 9 HOH B 20 520 75 HOH HOH . L 9 HOH B 21 521 132 HOH HOH . L 9 HOH B 22 522 78 HOH HOH . L 9 HOH B 23 523 24 HOH HOH . L 9 HOH B 24 524 70 HOH HOH . L 9 HOH B 25 525 105 HOH HOH . L 9 HOH B 26 526 114 HOH HOH . L 9 HOH B 27 527 17 HOH HOH . L 9 HOH B 28 528 93 HOH HOH . L 9 HOH B 29 529 41 HOH HOH . L 9 HOH B 30 530 25 HOH HOH . L 9 HOH B 31 531 33 HOH HOH . L 9 HOH B 32 532 8 HOH HOH . L 9 HOH B 33 533 43 HOH HOH . L 9 HOH B 34 534 71 HOH HOH . L 9 HOH B 35 535 88 HOH HOH . L 9 HOH B 36 536 50 HOH HOH . L 9 HOH B 37 537 90 HOH HOH . L 9 HOH B 38 538 87 HOH HOH . L 9 HOH B 39 539 99 HOH HOH . L 9 HOH B 40 540 79 HOH HOH . L 9 HOH B 41 541 49 HOH HOH . L 9 HOH B 42 542 57 HOH HOH . L 9 HOH B 43 543 148 HOH HOH . L 9 HOH B 44 544 91 HOH HOH . L 9 HOH B 45 545 147 HOH HOH . L 9 HOH B 46 546 30 HOH HOH . L 9 HOH B 47 547 26 HOH HOH . L 9 HOH B 48 548 42 HOH HOH . L 9 HOH B 49 549 28 HOH HOH . L 9 HOH B 50 550 52 HOH HOH . L 9 HOH B 51 551 35 HOH HOH . L 9 HOH B 52 552 14 HOH HOH . L 9 HOH B 53 553 129 HOH HOH . L 9 HOH B 54 554 103 HOH HOH . L 9 HOH B 55 555 29 HOH HOH . L 9 HOH B 56 556 106 HOH HOH . L 9 HOH B 57 557 151 HOH HOH . L 9 HOH B 58 558 97 HOH HOH . L 9 HOH B 59 559 12 HOH HOH . L 9 HOH B 60 560 122 HOH HOH . L 9 HOH B 61 561 123 HOH HOH . L 9 HOH B 62 562 85 HOH HOH . L 9 HOH B 63 563 31 HOH HOH . L 9 HOH B 64 564 77 HOH HOH . L 9 HOH B 65 565 69 HOH HOH . L 9 HOH B 66 566 140 HOH HOH . L 9 HOH B 67 567 45 HOH HOH . L 9 HOH B 68 568 128 HOH HOH . L 9 HOH B 69 569 127 HOH HOH . L 9 HOH B 70 570 62 HOH HOH . L 9 HOH B 71 571 63 HOH HOH . L 9 HOH B 72 572 58 HOH HOH . L 9 HOH B 73 573 53 HOH HOH . L 9 HOH B 74 574 73 HOH HOH . L 9 HOH B 75 575 65 HOH HOH . L 9 HOH B 76 576 156 HOH HOH . L 9 HOH B 77 577 18 HOH HOH . L 9 HOH B 78 578 157 HOH HOH . L 9 HOH B 79 579 40 HOH HOH . L 9 HOH B 80 580 94 HOH HOH . L 9 HOH B 81 581 86 HOH HOH . L 9 HOH B 82 582 66 HOH HOH . L 9 HOH B 83 583 139 HOH HOH . L 9 HOH B 84 584 149 HOH HOH . L 9 HOH B 85 585 81 HOH HOH . L 9 HOH B 86 586 133 HOH HOH . L 9 HOH B 87 587 119 HOH HOH . L 9 HOH B 88 588 141 HOH HOH . L 9 HOH B 89 589 138 HOH HOH . L 9 HOH B 90 590 159 HOH HOH . L 9 HOH B 91 591 136 HOH HOH . L 9 HOH B 92 592 76 HOH HOH . L 9 HOH B 93 593 98 HOH HOH . L 9 HOH B 94 594 47 HOH HOH . L 9 HOH B 95 595 130 HOH HOH . L 9 HOH B 96 596 116 HOH HOH . L 9 HOH B 97 597 48 HOH HOH . L 9 HOH B 98 598 125 HOH HOH . L 9 HOH B 99 599 84 HOH HOH . L 9 HOH B 100 600 158 HOH HOH . L 9 HOH B 101 601 135 HOH HOH . L 9 HOH B 102 602 113 HOH HOH . L 9 HOH B 103 603 96 HOH HOH . L 9 HOH B 104 604 131 HOH HOH . L 9 HOH B 105 605 108 HOH HOH . L 9 HOH B 106 606 109 HOH HOH . L 9 HOH B 107 607 107 HOH HOH . L 9 HOH B 108 608 51 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 . . . D 3 -28.177 11.303 66.093 1 145.02 ? C1 NAG 202 A 1 HETATM 2 C C2 NAG . . . D 3 -27.19 11.623 67.214 1 142.68 ? C2 NAG 202 A 1 HETATM 3 C C3 NAG . . . D 3 -27.939 11.848 68.523 1 144.29 ? C3 NAG 202 A 1 HETATM 4 C C4 NAG . . . D 3 -29.035 12.889 68.338 1 148.49 ? C4 NAG 202 A 1 HETATM 5 C C5 NAG . . . D 3 -29.926 12.527 67.151 1 150.66 ? C5 NAG 202 A 1 HETATM 6 C C6 NAG . . . D 3 -30.946 13.595 66.831 1 133.45 ? C6 NAG 202 A 1 HETATM 7 C C7 NAG . . . D 3 -25.004 10.592 66.779 1 132.04 ? C7 NAG 202 A 1 HETATM 8 C C8 NAG . . . D 3 -24.119 9.41 67.037 1 104.99 ? C8 NAG 202 A 1 HETATM 9 N N2 NAG . . . D 3 -26.207 10.562 67.363 1 123.71 ? N2 NAG 202 A 1 HETATM 10 O O3 NAG . . . D 3 -27.02 12.283 69.518 1 123.78 ? O3 NAG 202 A 1 HETATM 11 O O4 NAG . . . D 3 -29.836 12.96 69.512 1 129.66 ? O4 NAG 202 A 1 HETATM 12 O O5 NAG . . . D 3 -29.125 12.356 65.973 1 157.12 ? O5 NAG 202 A 1 HETATM 13 O O6 NAG . . . D 3 -32.162 13.03 66.364 1 139.78 ? O6 NAG 202 A 1 HETATM 14 O O7 NAG . . . D 3 -24.648 11.53 66.074 1 131.77 ? O7 NAG 202 A 1 HETATM 15 H H1 NAG . . . D 3 -28.644 10.472 66.303 1 174.11 ? H1 NAG 202 A 1 HETATM 16 H H2 NAG . . . D 3 -26.723 12.449 66.986 1 171.31 ? H2 NAG 202 A 1 HETATM 17 H H3 NAG . . . D 3 -28.347 11.007 68.806 1 173.24 ? H3 NAG 202 A 1 HETATM 18 H H4 NAG . . . D 3 -28.621 13.756 68.17 1 178.28 ? H4 NAG 202 A 1 HETATM 19 H H5 NAG . . . D 3 -30.388 11.69 67.346 1 180.88 ? H5 NAG 202 A 1 HETATM 20 H H61 NAG . . . D 3 -30.584 14.185 66.143 1 160.23 ? H61 NAG 202 A 1 HETATM 21 H H62 NAG . . . D 3 -31.125 14.116 67.637 1 160.23 ? H62 NAG 202 A 1 HETATM 22 H H81 NAG . . . D 3 -24.554 8.6 66.711 1 126.08 ? H81 NAG 202 A 1 HETATM 23 H H82 NAG . . . D 3 -23.956 9.328 67.996 1 126.08 ? H82 NAG 202 A 1 HETATM 24 H H83 NAG . . . D 3 -23.269 9.532 66.573 1 126.08 ? H83 NAG 202 A 1 HETATM 25 H HN2 NAG . . . D 3 -26.421 9.842 67.881 1 148.54 ? HN2 NAG 202 A 1 HETATM 26 H HO3 NAG . . . D 3 -26.192 12.096 69.259 1 148.62 ? HO3 NAG 202 A 1 HETATM 27 H HO4 NAG . . . D 3 -29.772 13.772 69.865 1 155.69 ? HO4 NAG 202 A 1 HETATM 28 H HO6 NAG . . . D 3 -32.435 13.468 65.642 1 167.83 ? HO6 NAG 202 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 561 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 28 #