data_3LB6 # _model_server_result.job_id QRNysCtG11n183CLaa-CVA _model_server_result.datetime_utc '2024-12-23 07:44:11' _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 3lb6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":501}' # _entry.id 3LB6 # _exptl.entry_id 3LB6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _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 96.77 _cell.angle_gamma 90 _cell.entry_id 3LB6 _cell.length_a 73.37 _cell.length_b 86.57 _cell.length_c 166.788 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LB6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,I,J 1 1 C,D,G,H,K,L 2 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 G 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 48 A CYS 29 1_555 A SG CYS 76 A CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf2 A SG CYS 64 A CYS 45 1_555 A SG CYS 90 A CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 B SG CYS 65 C CYS 65 1_555 B SG CYS 113 C CYS 113 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? disulf ? disulf4 B SG CYS 145 C CYS 145 1_555 B SG CYS 155 C CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf5 B SG CYS 184 C CYS 184 1_555 B SG CYS 197 C CYS 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 B SG CYS 269 C CYS 269 1_555 B SG CYS 316 C CYS 316 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 C SG CYS 48 B CYS 29 1_555 C SG CYS 76 B CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf8 C SG CYS 64 B CYS 45 1_555 C SG CYS 90 B CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf9 D SG CYS 65 D CYS 65 1_555 D SG CYS 113 D CYS 113 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf10 D SG CYS 145 D CYS 145 1_555 D SG CYS 155 D CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf11 D SG CYS 184 D CYS 184 1_555 D SG CYS 197 D CYS 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf12 D SG CYS 269 D CYS 269 1_555 D SG CYS 316 D CYS 316 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf13 D SG CYS 305 D CYS 305 1_555 D SG CYS 330 D CYS 330 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? covale ? covale1 B C ALA 103 C ALA 103 1_555 B N MLY 104 C MLY 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale2 B C MLY 104 C MLY 104 1_555 B N ILE 105 C ILE 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale3 B C THR 138 C THR 138 1_555 B N MLY 139 C MLY 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale4 B C MLY 139 C MLY 139 1_555 B N VAL 140 C VAL 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale5 B ND2 ASN 215 C ASN 215 1_555 E C1 NAG . C NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale6 C C THR 107 B THR 88 1_555 C N MLY 108 B MLY 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale7 C C MLY 108 B MLY 89 1_555 C N ILE 109 B ILE 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale8 D C TRP 81 D TRP 81 1_555 D N MLY 82 D MLY 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale9 D C MLY 82 D MLY 82 1_555 D N THR 83 D THR 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? covale ? covale10 D C ASN 98 D ASN 98 1_555 D N MLY 99 D MLY 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale11 D C MLY 99 D MLY 99 1_555 D N GLY 100 D GLY 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale12 D ND2 ASN 215 D ASN 215 1_555 G C1 NAG . D NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? metalc ? metalc1 I O HOH . A HOH 114 1_555 F CA CA . C CA 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.874 ? metalc ? metalc2 B OD1 ASP 93 C ASP 93 1_555 F CA CA . C CA 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.777 ? metalc ? metalc3 F CA CA . C CA 381 1_555 J O HOH . C HOH 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? metalc ? metalc4 F CA CA . C CA 381 1_555 J O HOH . C HOH 384 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.871 ? metalc ? metalc5 D OD1 ASP 93 D ASP 93 1_555 H CA CA . D CA 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.92 ? metalc ? metalc6 H CA CA . D CA 381 1_555 L O HOH . D HOH 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.71 ? metalc ? metalc7 H CA CA . D CA 381 1_555 L O HOH . D HOH 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.793 ? metalc ? metalc8 H CA CA . D CA 381 1_555 L O HOH . D HOH 390 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.85 ? # _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 266 n n C1 O1 NAG sing 267 n n C1 O5 NAG sing 268 n n C1 H1 NAG sing 269 n n C2 C3 NAG sing 270 n n C2 N2 NAG sing 271 n n C2 H2 NAG sing 272 n n C3 C4 NAG sing 273 n n C3 O3 NAG sing 274 n n C3 H3 NAG sing 275 n n C4 C5 NAG sing 276 n n C4 O4 NAG sing 277 n n C4 H4 NAG sing 278 n n C5 C6 NAG sing 279 n n C5 O5 NAG sing 280 n n C5 H5 NAG sing 281 n n C6 O6 NAG sing 282 n n C6 H61 NAG sing 283 n n C6 H62 NAG sing 284 n n C7 C8 NAG sing 285 n n C7 N2 NAG sing 286 n n C7 O7 NAG doub 287 n n C8 H81 NAG sing 288 n n C8 H82 NAG sing 289 n n C8 H83 NAG sing 290 n n N2 HN2 NAG sing 291 n n O1 HO1 NAG sing 292 n n O3 HO3 NAG sing 293 n n O4 HO4 NAG sing 294 n n O6 HO6 NAG sing 295 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 3LB6 _atom_sites.fract_transf_matrix[1][1] 0.01363 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001617 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011551 _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] 0.006038 _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 C 1 501 501 NAG NAG . F 6 CA C 1 381 1 CA CA . G 5 NAG D 1 501 501 NAG NAG . H 6 CA D 1 381 1 CA CA . I 7 HOH A 1 114 1 HOH HOH . I 7 HOH A 2 115 2 HOH HOH . I 7 HOH A 3 116 4 HOH HOH . I 7 HOH A 4 117 5 HOH HOH . I 7 HOH A 5 118 6 HOH HOH . I 7 HOH A 6 119 27 HOH HOH . I 7 HOH A 7 120 30 HOH HOH . J 7 HOH C 1 382 3 HOH HOH . J 7 HOH C 2 383 26 HOH HOH . J 7 HOH C 3 384 29 HOH HOH . J 7 HOH C 4 385 31 HOH HOH . K 7 HOH B 1 114 11 HOH HOH . K 7 HOH B 2 115 12 HOH HOH . K 7 HOH B 3 116 13 HOH HOH . K 7 HOH B 4 117 21 HOH HOH . L 7 HOH D 1 382 7 HOH HOH . L 7 HOH D 2 383 8 HOH HOH . L 7 HOH D 3 384 9 HOH HOH . L 7 HOH D 4 385 10 HOH HOH . L 7 HOH D 5 386 14 HOH HOH . L 7 HOH D 6 387 15 HOH HOH . L 7 HOH D 7 388 16 HOH HOH . L 7 HOH D 8 389 17 HOH HOH . L 7 HOH D 9 390 18 HOH HOH . L 7 HOH D 10 391 19 HOH HOH . L 7 HOH D 11 392 20 HOH HOH . L 7 HOH D 12 393 22 HOH HOH . L 7 HOH D 13 394 23 HOH HOH . L 7 HOH D 14 395 24 HOH HOH . L 7 HOH D 15 396 25 HOH HOH . L 7 HOH D 16 397 28 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 . . . G 5 54.444 -57.208 22.57 1 78.67 ? C1 NAG 501 D 1 HETATM 2 C C2 NAG . . . G 5 55.646 -58.111 22.298 1 79.81 ? C2 NAG 501 D 1 HETATM 3 C C3 NAG . . . G 5 55.371 -59.368 21.473 1 79.7 ? C3 NAG 501 D 1 HETATM 4 C C4 NAG . . . G 5 53.953 -59.903 21.642 1 80.88 ? C4 NAG 501 D 1 HETATM 5 C C5 NAG . . . G 5 52.96 -58.749 21.592 1 81.35 ? C5 NAG 501 D 1 HETATM 6 C C6 NAG . . . G 5 51.522 -59.254 21.633 1 79.81 ? C6 NAG 501 D 1 HETATM 7 C C7 NAG . . . G 5 57.294 -56.369 22.285 1 83.56 ? C7 NAG 501 D 1 HETATM 8 C C8 NAG . . . G 5 57.882 -55.252 21.467 1 81.08 ? C8 NAG 501 D 1 HETATM 9 N N2 NAG . . . G 5 56.636 -57.309 21.615 1 81.89 ? N2 NAG 501 D 1 HETATM 10 O O3 NAG . . . G 5 56.278 -60.377 21.858 1 80.12 ? O3 NAG 501 D 1 HETATM 11 O O4 NAG . . . G 5 53.661 -60.874 20.653 1 82.13 ? O4 NAG 501 D 1 HETATM 12 O O5 NAG . . . G 5 53.212 -57.892 22.686 1 83.16 ? O5 NAG 501 D 1 HETATM 13 O O6 NAG . . . G 5 51.371 -60.17 22.694 1 78.79 ? O6 NAG 501 D 1 HETATM 14 O O7 NAG . . . G 5 57.419 -56.404 23.516 1 84.49 ? O7 NAG 501 D 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 14 #