data_6AH4 # _model_server_result.job_id eOXC2eqSvIM5VggqxcXh8A _model_server_result.datetime_utc '2024-11-16 08:55:27' _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 6ah4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":401}' # _entry.id 6AH4 # _exptl.entry_id 6AH4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 8 _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 6AH4 _cell.length_a 110.903 _cell.length_b 142.5 _cell.length_c 325.336 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6AH4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _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,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z _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 ? 4 L N N ? 4 M N N ? 4 P N N ? 4 Q N N ? 4 R N N ? 4 V N N ? 4 W N N ? 4 X N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _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 GLC _pdbx_entity_branch_link.comp_id_2 GLC _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 2 n D GLC 1 D 1 GLC A 406 MAL 2 n D GLC 2 D 2 GLC A 406 MAL 2 n E GLC 1 E 1 GLC A 407 MAL 2 n E GLC 2 E 2 GLC A 407 MAL 2 n F GLC 1 F 1 GLC B 406 MAL 2 n F GLC 2 F 2 GLC B 406 MAL 2 n G GLC 1 G 1 GLC B 407 MAL 2 n G GLC 2 G 2 GLC B 407 MAL 2 n H GLC 1 H 1 GLC C 406 MAL 2 n H GLC 2 H 2 GLC C 406 MAL 2 n I GLC 1 I 1 GLC C 407 MAL 2 n I GLC 2 I 2 GLC C 407 MAL # 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 106 A CYS 107 1_555 A SG CYS 152 A CYS 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf2 A SG CYS 115 A CYS 116 1_555 A SG CYS 136 A CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 A SG CYS 121 A CYS 122 1_555 A SG CYS 146 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf4 A SG CYS 202 A CYS 203 1_555 A SG CYS 212 A CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? disulf ? disulf5 A SG CYS 246 A CYS 247 1_555 A SG CYS 255 A CYS 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf6 B SG CYS 106 B CYS 107 1_555 B SG CYS 152 B CYS 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf7 B SG CYS 115 B CYS 116 1_555 B SG CYS 136 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 B SG CYS 121 B CYS 122 1_555 B SG CYS 146 B CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf9 B SG CYS 202 B CYS 203 1_555 B SG CYS 212 B CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf10 B SG CYS 246 B CYS 247 1_555 B SG CYS 255 B CYS 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf11 C SG CYS 106 C CYS 107 1_555 C SG CYS 152 C CYS 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf12 C SG CYS 115 C CYS 116 1_555 C SG CYS 136 C CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf13 C SG CYS 121 C CYS 122 1_555 C SG CYS 146 C CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf14 C SG CYS 202 C CYS 203 1_555 C SG CYS 212 C CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf15 C SG CYS 246 C CYS 247 1_555 C SG CYS 255 C CYS 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? covale ? covale1 A ND2 ASN 169 A ASN 170 1_555 L C1 NAG . A NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? covale ? covale2 A ND2 ASN 193 A ASN 194 1_555 M C1 NAG . A NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale3 B ND2 ASN 169 B ASN 170 1_555 P C1 NAG . B NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale4 B ND2 ASN 193 B ASN 194 1_555 Q C1 NAG . B NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale5 B ND2 ASN 289 B ASN 290 1_555 R C1 NAG . B NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale6 C ND2 ASN 169 C ASN 170 1_555 V C1 NAG . C NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale7 C ND2 ASN 193 C ASN 194 1_555 W C1 NAG . C NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale8 C ND2 ASN 289 C ASN 290 1_555 X C1 NAG . C NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale9 D O4 GLC . D GLC 1 1_555 D C1 GLC . D GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 sing covale ? covale10 E O4 GLC . E GLC 1 1_555 E C1 GLC . E GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 sing covale ? covale11 F O4 GLC . F GLC 1 1_555 F C1 GLC . F GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 sing covale ? covale12 G O4 GLC . G GLC 1 1_555 G C1 GLC . G GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.408 sing covale ? covale13 H O4 GLC . H GLC 1 1_555 H C1 GLC . H GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 sing covale ? covale14 I O4 GLC . I GLC 1 1_555 I C1 GLC . I GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.415 sing metalc ? metalc1 A OD2 ASP 157 A ASP 158 1_555 O CA CA . A CA 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? metalc ? metalc2 J O1G ATP . A ATP 401 1_555 U CA CA . B CA 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.992 ? metalc ? metalc3 J O3G ATP . A ATP 401 1_555 U CA CA . B CA 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.893 ? metalc ? metalc4 K O1G ATP . A ATP 402 1_555 O CA CA . A CA 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? metalc ? metalc5 B OD2 ASP 157 B ASP 158 1_555 U CA CA . B CA 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.833 ? metalc ? metalc6 T O3G ATP . B ATP 407 1_555 Z CA CA . C CA 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.097 ? metalc ? metalc7 C OD2 ASP 157 C ASP 158 1_555 Z CA CA . C CA 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? # _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 317 n n C1 O1 NAG sing 318 n n C1 O5 NAG sing 319 n n C1 H1 NAG sing 320 n n C2 C3 NAG sing 321 n n C2 N2 NAG sing 322 n n C2 H2 NAG sing 323 n n C3 C4 NAG sing 324 n n C3 O3 NAG sing 325 n n C3 H3 NAG sing 326 n n C4 C5 NAG sing 327 n n C4 O4 NAG sing 328 n n C4 H4 NAG sing 329 n n C5 C6 NAG sing 330 n n C5 O5 NAG sing 331 n n C5 H5 NAG sing 332 n n C6 O6 NAG sing 333 n n C6 H61 NAG sing 334 n n C6 H62 NAG sing 335 n n C7 C8 NAG sing 336 n n C7 N2 NAG sing 337 n n C7 O7 NAG doub 338 n n C8 H81 NAG sing 339 n n C8 H82 NAG sing 340 n n C8 H83 NAG sing 341 n n N2 HN2 NAG sing 342 n n O1 HO1 NAG sing 343 n n O3 HO3 NAG sing 344 n n O4 HO4 NAG sing 345 n n O6 HO6 NAG sing 346 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 6AH4 _atom_sites.fract_transf_matrix[1][1] 0.009017 _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] 0.007018 _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] 0.003074 _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 J 3 ATP A 1 401 401 ATP ATP . K 3 ATP A 1 402 401 ATP ATP . L 4 NAG A 1 403 402 NAG NAG . M 4 NAG A 1 404 403 NAG NAG . N 5 EDO A 1 407 408 EDO EDO . O 6 CA A 1 408 3 CA CA . P 4 NAG B 1 401 402 NAG NAG . Q 4 NAG B 1 402 403 NAG NAG . R 4 NAG B 1 403 404 NAG NAG . S 5 EDO B 1 406 408 EDO EDO . T 3 ATP B 1 407 401 ATP ATP . U 6 CA B 1 408 2 CA CA . V 4 NAG C 1 401 402 NAG NAG . W 4 NAG C 1 402 403 NAG NAG . X 4 NAG C 1 403 404 NAG NAG . Y 5 EDO C 1 406 408 EDO EDO . Z 6 CA C 1 407 1 CA CA . # 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 . . . P 4 228.347 70.636 337.378 1 201.43 ? C1 NAG 401 B 1 HETATM 2 C C2 NAG . . . P 4 228.402 71.056 335.899 1 187.22 ? C2 NAG 401 B 1 HETATM 3 C C3 NAG . . . P 4 229.294 72.287 335.731 1 196.81 ? C3 NAG 401 B 1 HETATM 4 C C4 NAG . . . P 4 228.877 73.4 336.685 1 208.22 ? C4 NAG 401 B 1 HETATM 5 C C5 NAG . . . P 4 228.83 72.869 338.116 1 214.79 ? C5 NAG 401 B 1 HETATM 6 C C6 NAG . . . P 4 228.355 73.89 339.128 1 209.12 ? C6 NAG 401 B 1 HETATM 7 C C7 NAG . . . P 4 228.073 69.178 334.35 1 195.54 ? C7 NAG 401 B 1 HETATM 8 C C8 NAG . . . P 4 228.75 68.125 333.524 1 169.74 ? C8 NAG 401 B 1 HETATM 9 N N2 NAG . . . P 4 228.883 69.973 335.058 1 177.75 ? N2 NAG 401 B 1 HETATM 10 O O3 NAG . . . P 4 229.225 72.74 334.385 1 195.44 ? O3 NAG 401 B 1 HETATM 11 O O4 NAG . . . P 4 229.814 74.469 336.616 1 209.96 ? O4 NAG 401 B 1 HETATM 12 O O5 NAG . . . P 4 227.928 71.755 338.185 1 215.26 ? O5 NAG 401 B 1 HETATM 13 O O6 NAG . . . P 4 227.024 73.634 339.558 1 194.73 ? O6 NAG 401 B 1 HETATM 14 O O7 NAG . . . P 4 226.845 69.299 334.382 1 212.16 ? O7 NAG 401 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #