data_9HML # _model_server_result.job_id A9DfCjhl-DR0P91UdtfbMw _model_server_result.datetime_utc '2025-07-07 22:41:18' _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 9hml # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":400}' # _entry.id 9HML # _exptl.entry_id 9HML _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 1 _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 9HML _cell.length_a 97.171 _cell.length_b 97.171 _cell.length_c 109.202 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9HML _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _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 FUC _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 O6 _pdbx_entity_branch_link.leaving_atom_id_2 HO6 _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 4 n D NAG 1 D 1 NAG B 300 NAG 4 n D FUC 2 D 2 FUC B 301 FUC # 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 67 A CYS 65 1_555 A SG CYS 79 A CYS 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf2 B SG CYS 25 B CYS 49 1_555 B SG CYS 76 B CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 B SG CYS 125 B CYS 149 1_555 B SG CYS 174 B CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 C SG CYS 22 C CYS 22 1_555 C SG CYS 95 C CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale1 B ND2 ASN 43 B ASN 67 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale2 B ND2 ASN 60 B ASN 84 1_555 E C1 NAG . B NAG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale3 D O6 NAG . D NAG 1 1_555 D C1 FUC . D FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? # _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 260 n n C1 O1 NAG sing 261 n n C1 O5 NAG sing 262 n n C1 H1 NAG sing 263 n n C2 C3 NAG sing 264 n n C2 N2 NAG sing 265 n n C2 H2 NAG sing 266 n n C3 C4 NAG sing 267 n n C3 O3 NAG sing 268 n n C3 H3 NAG sing 269 n n C4 C5 NAG sing 270 n n C4 O4 NAG sing 271 n n C4 H4 NAG sing 272 n n C5 C6 NAG sing 273 n n C5 O5 NAG sing 274 n n C5 H5 NAG sing 275 n n C6 O6 NAG sing 276 n n C6 H61 NAG sing 277 n n C6 H62 NAG sing 278 n n C7 C8 NAG sing 279 n n C7 N2 NAG sing 280 n n C7 O7 NAG doub 281 n n C8 H81 NAG sing 282 n n C8 H82 NAG sing 283 n n C8 H83 NAG sing 284 n n N2 HN2 NAG sing 285 n n O1 HO1 NAG sing 286 n n O3 HO3 NAG sing 287 n n O4 HO4 NAG sing 288 n n O6 HO6 NAG sing 289 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 9HML _atom_sites.fract_transf_matrix[1][1] 0.010291 _atom_sites.fract_transf_matrix[1][2] 0.005942 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011883 _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] 0.009157 _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 5 NAG B 1 400 400 NAG NAG . F 6 HOH A 1 201 10 HOH HOH . F 6 HOH A 2 202 66 HOH HOH . F 6 HOH A 3 203 3 HOH HOH . F 6 HOH A 4 204 1 HOH HOH . F 6 HOH A 5 205 105 HOH HOH . F 6 HOH A 6 206 133 HOH HOH . F 6 HOH A 7 207 63 HOH HOH . F 6 HOH A 8 208 136 HOH HOH . F 6 HOH A 9 209 68 HOH HOH . F 6 HOH A 10 210 12 HOH HOH . F 6 HOH A 11 211 7 HOH HOH . F 6 HOH A 12 212 107 HOH HOH . F 6 HOH A 13 213 67 HOH HOH . F 6 HOH A 14 214 6 HOH HOH . F 6 HOH A 15 215 2 HOH HOH . F 6 HOH A 16 216 129 HOH HOH . F 6 HOH A 17 217 104 HOH HOH . F 6 HOH A 18 218 65 HOH HOH . F 6 HOH A 19 219 141 HOH HOH . F 6 HOH A 20 220 15 HOH HOH . F 6 HOH A 21 221 131 HOH HOH . F 6 HOH A 22 222 4 HOH HOH . F 6 HOH A 23 223 8 HOH HOH . F 6 HOH A 24 224 139 HOH HOH . F 6 HOH A 25 225 69 HOH HOH . F 6 HOH A 26 226 100 HOH HOH . F 6 HOH A 27 227 140 HOH HOH . F 6 HOH A 28 228 86 HOH HOH . F 6 HOH A 29 229 130 HOH HOH . F 6 HOH A 30 230 134 HOH HOH . F 6 HOH A 31 231 147 HOH HOH . F 6 HOH A 32 232 132 HOH HOH . F 6 HOH A 33 233 118 HOH HOH . F 6 HOH A 34 234 135 HOH HOH . F 6 HOH A 35 235 11 HOH HOH . F 6 HOH A 36 236 120 HOH HOH . G 6 HOH B 1 501 126 HOH HOH . G 6 HOH B 2 502 47 HOH HOH . G 6 HOH B 3 503 61 HOH HOH . G 6 HOH B 4 504 37 HOH HOH . G 6 HOH B 5 505 51 HOH HOH . G 6 HOH B 6 506 127 HOH HOH . G 6 HOH B 7 507 26 HOH HOH . G 6 HOH B 8 508 74 HOH HOH . G 6 HOH B 9 509 99 HOH HOH . G 6 HOH B 10 510 62 HOH HOH . G 6 HOH B 11 511 32 HOH HOH . G 6 HOH B 12 512 91 HOH HOH . G 6 HOH B 13 513 60 HOH HOH . G 6 HOH B 14 514 25 HOH HOH . G 6 HOH B 15 515 89 HOH HOH . G 6 HOH B 16 516 42 HOH HOH . G 6 HOH B 17 517 34 HOH HOH . G 6 HOH B 18 518 44 HOH HOH . G 6 HOH B 19 519 19 HOH HOH . G 6 HOH B 20 520 14 HOH HOH . G 6 HOH B 21 521 48 HOH HOH . G 6 HOH B 22 522 35 HOH HOH . G 6 HOH B 23 523 28 HOH HOH . G 6 HOH B 24 524 30 HOH HOH . G 6 HOH B 25 525 17 HOH HOH . G 6 HOH B 26 526 49 HOH HOH . G 6 HOH B 27 527 64 HOH HOH . G 6 HOH B 28 528 22 HOH HOH . G 6 HOH B 29 529 33 HOH HOH . G 6 HOH B 30 530 159 HOH HOH . G 6 HOH B 31 531 155 HOH HOH . G 6 HOH B 32 532 137 HOH HOH . G 6 HOH B 33 533 38 HOH HOH . G 6 HOH B 34 534 43 HOH HOH . G 6 HOH B 35 535 70 HOH HOH . G 6 HOH B 36 536 97 HOH HOH . G 6 HOH B 37 537 149 HOH HOH . G 6 HOH B 38 538 73 HOH HOH . G 6 HOH B 39 539 5 HOH HOH . G 6 HOH B 40 540 13 HOH HOH . G 6 HOH B 41 541 27 HOH HOH . G 6 HOH B 42 542 36 HOH HOH . G 6 HOH B 43 543 94 HOH HOH . G 6 HOH B 44 544 18 HOH HOH . G 6 HOH B 45 545 46 HOH HOH . G 6 HOH B 46 546 50 HOH HOH . G 6 HOH B 47 547 20 HOH HOH . G 6 HOH B 48 548 29 HOH HOH . G 6 HOH B 49 549 156 HOH HOH . G 6 HOH B 50 550 31 HOH HOH . G 6 HOH B 51 551 87 HOH HOH . G 6 HOH B 52 552 158 HOH HOH . G 6 HOH B 53 553 90 HOH HOH . G 6 HOH B 54 554 9 HOH HOH . G 6 HOH B 55 555 117 HOH HOH . G 6 HOH B 56 556 58 HOH HOH . G 6 HOH B 57 557 93 HOH HOH . G 6 HOH B 58 558 16 HOH HOH . G 6 HOH B 59 559 96 HOH HOH . G 6 HOH B 60 560 72 HOH HOH . G 6 HOH B 61 561 78 HOH HOH . G 6 HOH B 62 562 88 HOH HOH . G 6 HOH B 63 563 92 HOH HOH . G 6 HOH B 64 564 45 HOH HOH . G 6 HOH B 65 565 157 HOH HOH . G 6 HOH B 66 566 138 HOH HOH . G 6 HOH B 67 567 95 HOH HOH . G 6 HOH B 68 568 123 HOH HOH . G 6 HOH B 69 569 148 HOH HOH . G 6 HOH B 70 570 116 HOH HOH . H 6 HOH C 1 201 23 HOH HOH . H 6 HOH C 2 202 84 HOH HOH . H 6 HOH C 3 203 21 HOH HOH . H 6 HOH C 4 204 40 HOH HOH . H 6 HOH C 5 205 113 HOH HOH . H 6 HOH C 6 206 98 HOH HOH . H 6 HOH C 7 207 103 HOH HOH . H 6 HOH C 8 208 54 HOH HOH . H 6 HOH C 9 209 55 HOH HOH . H 6 HOH C 10 210 39 HOH HOH . H 6 HOH C 11 211 24 HOH HOH . H 6 HOH C 12 212 111 HOH HOH . H 6 HOH C 13 213 144 HOH HOH . H 6 HOH C 14 214 75 HOH HOH . H 6 HOH C 15 215 101 HOH HOH . H 6 HOH C 16 216 85 HOH HOH . H 6 HOH C 17 217 57 HOH HOH . H 6 HOH C 18 218 76 HOH HOH . H 6 HOH C 19 219 151 HOH HOH . H 6 HOH C 20 220 152 HOH HOH . H 6 HOH C 21 221 102 HOH HOH . H 6 HOH C 22 222 121 HOH HOH . H 6 HOH C 23 223 110 HOH HOH . H 6 HOH C 24 224 108 HOH HOH . H 6 HOH C 25 225 80 HOH HOH . H 6 HOH C 26 226 79 HOH HOH . H 6 HOH C 27 227 53 HOH HOH . H 6 HOH C 28 228 109 HOH HOH . H 6 HOH C 29 229 56 HOH HOH . H 6 HOH C 30 230 150 HOH HOH . H 6 HOH C 31 231 143 HOH HOH . H 6 HOH C 32 232 142 HOH HOH . H 6 HOH C 33 233 112 HOH HOH . H 6 HOH C 34 234 115 HOH HOH . H 6 HOH C 35 235 41 HOH HOH . H 6 HOH C 36 236 81 HOH HOH . H 6 HOH C 37 237 52 HOH HOH . H 6 HOH C 38 238 71 HOH HOH . H 6 HOH C 39 239 125 HOH HOH . H 6 HOH C 40 240 145 HOH HOH . H 6 HOH C 41 241 119 HOH HOH . H 6 HOH C 42 242 83 HOH HOH . H 6 HOH C 43 243 154 HOH HOH . H 6 HOH C 44 244 59 HOH HOH . H 6 HOH C 45 245 77 HOH HOH . H 6 HOH C 46 246 153 HOH HOH . H 6 HOH C 47 247 146 HOH HOH . H 6 HOH C 48 248 122 HOH HOH . H 6 HOH C 49 249 106 HOH HOH . H 6 HOH C 50 250 82 HOH HOH . H 6 HOH C 51 251 124 HOH HOH . H 6 HOH C 52 252 128 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 . . . E 5 -8.432 -23.152 3.24 1 70.14 ? C1 NAG 400 B 1 HETATM 2 C C2 NAG . . . E 5 -9.474 -22.184 3.797 1 71.49 ? C2 NAG 400 B 1 HETATM 3 C C3 NAG . . . E 5 -9.416 -22.165 5.326 1 72.12 ? C3 NAG 400 B 1 HETATM 4 C C4 NAG . . . E 5 -9.49 -23.584 5.889 1 71.87 ? C4 NAG 400 B 1 HETATM 5 C C5 NAG . . . E 5 -8.44 -24.478 5.232 1 71.52 ? C5 NAG 400 B 1 HETATM 6 C C6 NAG . . . E 5 -8.53 -25.918 5.67 1 71.69 ? C6 NAG 400 B 1 HETATM 7 C C7 NAG . . . E 5 -10.242 -20.145 2.689 1 72.48 ? C7 NAG 400 B 1 HETATM 8 C C8 NAG . . . E 5 -9.83 -18.858 2.037 1 72.33 ? C8 NAG 400 B 1 HETATM 9 N N2 NAG . . . E 5 -9.261 -20.857 3.244 1 71.94 ? N2 NAG 400 B 1 HETATM 10 O O3 NAG . . . E 5 -10.531 -21.435 5.826 1 72.8 ? O3 NAG 400 B 1 HETATM 11 O O4 NAG . . . E 5 -9.281 -23.56 7.297 1 71.94 ? O4 NAG 400 B 1 HETATM 12 O O5 NAG . . . E 5 -8.631 -24.453 3.806 1 70.9 ? O5 NAG 400 B 1 HETATM 13 O O6 NAG . . . E 5 -9.822 -26.452 5.407 1 72.21 ? O6 NAG 400 B 1 HETATM 14 O O7 NAG . . . E 5 -11.422 -20.493 2.765 1 72.9 ? O7 NAG 400 B 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 14 #