data_6BIN # _model_server_result.job_id c8KH-RPC_qXhLQzeTwNu2A _model_server_result.datetime_utc '2024-12-04 06:58:24' _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 6bin # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":201}' # _entry.id 6BIN # _exptl.entry_id 6BIN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method nat _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 6BIN _cell.length_a 67.35 _cell.length_b 183.71 _cell.length_c 77.19 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6BIN _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall 'C 2c 2' _symmetry.space_group_name_H-M 'C 2 2 21' # _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 _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 ? 5 E N N ? 5 F N 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 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 4 n D NAG 1 D 1 NAG A 182 NAG 4 n D NAG 2 D 2 NAG A 183 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 107 A CYS 107 1_555 A SG CYS 163 A CYS 163 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 C SG CYS 17 B CYS 15 1_555 C SG CYS 81 B CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 C SG CYS 119 B CYS 117 1_555 C SG CYS 175 B CYS 173 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A ND2 ASN 78 A ASN 78 1_555 E C1 NAG . A NAG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.469 ? covale ? covale2 A ND2 ASN 118 A ASN 118 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.477 ? covale ? covale3 B C MET 3 C MET 3 1_555 B N CIR 4 C CIR 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.309 ? covale ? covale4 B C CIR 4 C CIR 4 1_555 B N ALA 5 C ALA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.305 ? covale ? covale5 C ND2 ASN 21 B ASN 19 1_555 F C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.572 ? covale ? covale6 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.491 ? # _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 261 n n C1 O1 NAG sing 262 n n C1 O5 NAG sing 263 n n C1 H1 NAG sing 264 n n C2 C3 NAG sing 265 n n C2 N2 NAG sing 266 n n C2 H2 NAG sing 267 n n C3 C4 NAG sing 268 n n C3 O3 NAG sing 269 n n C3 H3 NAG sing 270 n n C4 C5 NAG sing 271 n n C4 O4 NAG sing 272 n n C4 H4 NAG sing 273 n n C5 C6 NAG sing 274 n n C5 O5 NAG sing 275 n n C5 H5 NAG sing 276 n n C6 O6 NAG sing 277 n n C6 H61 NAG sing 278 n n C6 H62 NAG sing 279 n n C7 C8 NAG sing 280 n n C7 N2 NAG sing 281 n n C7 O7 NAG doub 282 n n C8 H81 NAG sing 283 n n C8 H82 NAG sing 284 n n C8 H83 NAG sing 285 n n N2 HN2 NAG sing 286 n n O1 HO1 NAG sing 287 n n O3 HO3 NAG sing 288 n n O4 HO4 NAG sing 289 n n O6 HO6 NAG sing 290 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 6BIN _atom_sites.fract_transf_matrix[1][1] 0.014848 _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] 0.005443 _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] 0.012955 _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 A 1 203 184 NAG NAG . F 5 NAG B 1 201 191 NAG NAG . G 6 HOH A 1 301 80 HOH HOH . G 6 HOH A 2 302 13 HOH HOH . G 6 HOH A 3 303 126 HOH HOH . G 6 HOH A 4 304 46 HOH HOH . G 6 HOH A 5 305 3 HOH HOH . G 6 HOH A 6 306 124 HOH HOH . G 6 HOH A 7 307 11 HOH HOH . G 6 HOH A 8 308 17 HOH HOH . G 6 HOH A 9 309 39 HOH HOH . G 6 HOH A 10 310 60 HOH HOH . G 6 HOH A 11 311 56 HOH HOH . G 6 HOH A 12 312 117 HOH HOH . G 6 HOH A 13 313 34 HOH HOH . G 6 HOH A 14 314 23 HOH HOH . G 6 HOH A 15 315 86 HOH HOH . G 6 HOH A 16 316 40 HOH HOH . G 6 HOH A 17 317 16 HOH HOH . G 6 HOH A 18 318 10 HOH HOH . G 6 HOH A 19 319 79 HOH HOH . G 6 HOH A 20 320 27 HOH HOH . G 6 HOH A 21 321 2 HOH HOH . G 6 HOH A 22 322 33 HOH HOH . G 6 HOH A 23 323 38 HOH HOH . G 6 HOH A 24 324 91 HOH HOH . G 6 HOH A 25 325 93 HOH HOH . G 6 HOH A 26 326 98 HOH HOH . G 6 HOH A 27 327 49 HOH HOH . G 6 HOH A 28 328 61 HOH HOH . G 6 HOH A 29 329 25 HOH HOH . G 6 HOH A 30 330 120 HOH HOH . G 6 HOH A 31 331 115 HOH HOH . G 6 HOH A 32 332 45 HOH HOH . G 6 HOH A 33 333 9 HOH HOH . G 6 HOH A 34 334 42 HOH HOH . G 6 HOH A 35 335 137 HOH HOH . G 6 HOH A 36 336 19 HOH HOH . G 6 HOH A 37 337 1 HOH HOH . G 6 HOH A 38 338 99 HOH HOH . G 6 HOH A 39 339 72 HOH HOH . G 6 HOH A 40 340 52 HOH HOH . G 6 HOH A 41 341 47 HOH HOH . G 6 HOH A 42 342 121 HOH HOH . G 6 HOH A 43 343 138 HOH HOH . G 6 HOH A 44 344 157 HOH HOH . G 6 HOH A 45 345 101 HOH HOH . G 6 HOH A 46 346 12 HOH HOH . G 6 HOH A 47 347 144 HOH HOH . G 6 HOH A 48 348 135 HOH HOH . G 6 HOH A 49 349 83 HOH HOH . G 6 HOH A 50 350 111 HOH HOH . G 6 HOH A 51 351 30 HOH HOH . G 6 HOH A 52 352 44 HOH HOH . G 6 HOH A 53 353 119 HOH HOH . G 6 HOH A 54 354 14 HOH HOH . G 6 HOH A 55 355 112 HOH HOH . G 6 HOH A 56 356 43 HOH HOH . G 6 HOH A 57 357 78 HOH HOH . G 6 HOH A 58 358 41 HOH HOH . G 6 HOH A 59 359 68 HOH HOH . G 6 HOH A 60 360 54 HOH HOH . G 6 HOH A 61 361 20 HOH HOH . G 6 HOH A 62 362 103 HOH HOH . G 6 HOH A 63 363 62 HOH HOH . G 6 HOH A 64 364 114 HOH HOH . G 6 HOH A 65 365 77 HOH HOH . H 6 HOH C 1 101 139 HOH HOH . H 6 HOH C 2 102 59 HOH HOH . H 6 HOH C 3 103 8 HOH HOH . I 6 HOH B 1 301 70 HOH HOH . I 6 HOH B 2 302 35 HOH HOH . I 6 HOH B 3 303 7 HOH HOH . I 6 HOH B 4 304 58 HOH HOH . I 6 HOH B 5 305 48 HOH HOH . I 6 HOH B 6 306 71 HOH HOH . I 6 HOH B 7 307 127 HOH HOH . I 6 HOH B 8 308 22 HOH HOH . I 6 HOH B 9 309 28 HOH HOH . I 6 HOH B 10 310 36 HOH HOH . I 6 HOH B 11 311 4 HOH HOH . I 6 HOH B 12 312 37 HOH HOH . I 6 HOH B 13 313 118 HOH HOH . I 6 HOH B 14 314 129 HOH HOH . I 6 HOH B 15 315 51 HOH HOH . I 6 HOH B 16 316 156 HOH HOH . I 6 HOH B 17 317 57 HOH HOH . I 6 HOH B 18 318 149 HOH HOH . I 6 HOH B 19 319 88 HOH HOH . I 6 HOH B 20 320 15 HOH HOH . I 6 HOH B 21 321 69 HOH HOH . I 6 HOH B 22 322 89 HOH HOH . I 6 HOH B 23 323 53 HOH HOH . I 6 HOH B 24 324 55 HOH HOH . I 6 HOH B 25 325 125 HOH HOH . I 6 HOH B 26 326 50 HOH HOH . I 6 HOH B 27 327 131 HOH HOH . I 6 HOH B 28 328 64 HOH HOH . I 6 HOH B 29 329 92 HOH HOH . I 6 HOH B 30 330 152 HOH HOH . I 6 HOH B 31 331 29 HOH HOH . I 6 HOH B 32 332 150 HOH HOH . I 6 HOH B 33 333 153 HOH HOH . I 6 HOH B 34 334 18 HOH HOH . I 6 HOH B 35 335 32 HOH HOH . I 6 HOH B 36 336 63 HOH HOH . I 6 HOH B 37 337 146 HOH HOH . I 6 HOH B 38 338 134 HOH HOH . I 6 HOH B 39 339 81 HOH HOH . I 6 HOH B 40 340 142 HOH HOH . I 6 HOH B 41 341 143 HOH HOH . I 6 HOH B 42 342 113 HOH HOH . I 6 HOH B 43 343 141 HOH HOH . I 6 HOH B 44 344 96 HOH HOH . I 6 HOH B 45 345 136 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 5 40.521 0.991 -18.89 1 70.07 ? C1 NAG 201 B 1 HETATM 2 C C2 NAG . . . F 5 40.87 1.07 -20.374 1 67.9 ? C2 NAG 201 B 1 HETATM 3 C C3 NAG . . . F 5 41.254 -0.326 -20.854 1 69.98 ? C3 NAG 201 B 1 HETATM 4 C C4 NAG . . . F 5 42.38 -0.888 -19.998 1 71.57 ? C4 NAG 201 B 1 HETATM 5 C C5 NAG . . . F 5 41.997 -0.847 -18.521 1 71.28 ? C5 NAG 201 B 1 HETATM 6 C C6 NAG . . . F 5 43.136 -1.253 -17.609 1 68.61 ? C6 NAG 201 B 1 HETATM 7 C C7 NAG . . . F 5 39.907 2.184 -22.311 1 75.44 ? C7 NAG 201 B 1 HETATM 8 C C8 NAG . . . F 5 38.653 2.599 -23.02 1 60.13 ? C8 NAG 201 B 1 HETATM 9 N N2 NAG . . . F 5 39.746 1.575 -21.144 1 72.01 ? N2 NAG 201 B 1 HETATM 10 O O3 NAG . . . F 5 41.645 -0.261 -22.222 1 77.32 ? O3 NAG 201 B 1 HETATM 11 O O4 NAG . . . F 5 42.67 -2.227 -20.385 1 65.58 ? O4 NAG 201 B 1 HETATM 12 O O5 NAG . . . F 5 41.628 0.49 -18.163 1 66.71 ? O5 NAG 201 B 1 HETATM 13 O O6 NAG . . . F 5 43.581 -2.558 -17.9 1 91.02 ? O6 NAG 201 B 1 HETATM 14 O O7 NAG . . . F 5 41.019 2.389 -22.782 1 79.97 ? O7 NAG 201 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #