data_6AH5 # _model_server_result.job_id vlPCfkabGquq2XJzrx8cmw _model_server_result.datetime_utc '2024-11-16 10:56:40' _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 6ah5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"S","auth_seq_id":401}' # _entry.id 6AH5 # _exptl.entry_id 6AH5 _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 6AH5 _cell.length_a 110.531 _cell.length_b 139.436 _cell.length_c 323.963 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6AH5 _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 _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 H N N ? 4 I N N ? 4 M N N ? 4 N N N ? 4 O N N ? 4 S N N ? 4 T N N ? 4 U 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 C 406 MAL 2 n F GLC 2 F 2 GLC C 406 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 A SG CYS 115 A CYS 116 1_555 A SG CYS 136 A CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf3 A SG CYS 121 A CYS 122 1_555 A SG CYS 146 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf4 A SG CYS 202 A CYS 203 1_555 A SG CYS 212 A CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf5 A SG CYS 246 A CYS 247 1_555 A SG CYS 255 A CYS 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf6 B SG CYS 106 B CYS 107 1_555 B SG CYS 152 B CYS 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf7 B SG CYS 115 B CYS 116 1_555 B SG CYS 136 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 B SG CYS 121 B CYS 122 1_555 B SG CYS 146 B CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf9 B SG CYS 202 B CYS 203 1_555 B SG CYS 212 B CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf10 B SG CYS 246 B CYS 247 1_555 B SG CYS 255 B CYS 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf11 C SG CYS 106 C CYS 107 1_555 C SG CYS 152 C CYS 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf12 C SG CYS 115 C CYS 116 1_555 C SG CYS 136 C CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf13 C SG CYS 121 C CYS 122 1_555 C SG CYS 146 C CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf14 C SG CYS 202 C CYS 203 1_555 C SG CYS 212 C CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf15 C SG CYS 246 C CYS 247 1_555 C SG CYS 255 C CYS 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 169 A ASN 170 1_555 H C1 NAG . A NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale2 A ND2 ASN 193 A ASN 194 1_555 I C1 NAG . A NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale3 B ND2 ASN 169 B ASN 170 1_555 M C1 NAG . B NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale4 B ND2 ASN 193 B ASN 194 1_555 N C1 NAG . B NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale5 B ND2 ASN 289 B ASN 290 1_555 O C1 NAG . B NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.467 ? covale ? covale6 C ND2 ASN 169 C ASN 170 1_555 S C1 NAG . C NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale7 C ND2 ASN 193 C ASN 194 1_555 T C1 NAG . C NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale8 C ND2 ASN 289 C ASN 290 1_555 U C1 NAG . C NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale9 D O4 GLC . D GLC 1 1_555 D C1 GLC . D GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 sing covale ? covale10 E O4 GLC . E GLC 1 1_555 E C1 GLC . E GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 sing covale ? covale11 F O4 GLC . F GLC 1 1_555 F C1 GLC . F GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.411 sing metalc ? metalc1 A OD2 ASP 157 A ASP 158 1_555 L MG MG . A MG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc2 G O1G ATP . A ATP 401 1_555 L MG MG . A MG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc3 K O1G ATP . A ATP 407 1_555 R MG MG . B MG 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? metalc ? metalc4 B OD2 ASP 157 B ASP 158 1_555 R MG MG . B MG 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.713 ? metalc ? metalc5 Q O3G ATP . B ATP 405 1_555 W MG MG . C MG 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.684 ? metalc ? metalc6 C OD2 ASP 157 C ASP 158 1_555 W MG MG . C MG 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? # _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 6AH5 _atom_sites.fract_transf_matrix[1][1] 0.009047 _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] 0.007172 _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] 0.003087 _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 G 3 ATP A 1 401 401 ATP ATP . H 4 NAG A 1 402 402 NAG NAG . I 4 NAG A 1 403 403 NAG NAG . J 5 EDO A 1 406 408 EDO EDO . K 3 ATP A 1 407 401 ATP ATP . L 6 MG A 1 408 3 MG MG . M 4 NAG B 1 401 402 NAG NAG . N 4 NAG B 1 402 403 NAG NAG . O 4 NAG B 1 403 404 NAG NAG . P 5 EDO B 1 404 408 EDO EDO . Q 3 ATP B 1 405 401 ATP ATP . R 6 MG B 1 406 2 MG MG . S 4 NAG C 1 401 402 NAG NAG . T 4 NAG C 1 402 403 NAG NAG . U 4 NAG C 1 403 404 NAG NAG . V 5 EDO C 1 405 408 EDO EDO . W 6 MG C 1 406 1 MG MG . # 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 . . . S 4 199.5 32.983 358.732 1 230.62 ? C1 NAG 401 C 1 HETATM 2 C C2 NAG . . . S 4 198.51 34.133 358.511 1 239.46 ? C2 NAG 401 C 1 HETATM 3 C C3 NAG . . . S 4 197.336 34.037 359.506 1 247.74 ? C3 NAG 401 C 1 HETATM 4 C C4 NAG . . . S 4 196.71 32.645 359.466 1 249.2 ? C4 NAG 401 C 1 HETATM 5 C C5 NAG . . . S 4 197.768 31.532 359.545 1 244.49 ? C5 NAG 401 C 1 HETATM 6 C C6 NAG . . . S 4 197.208 30.171 359.201 1 248 ? C6 NAG 401 C 1 HETATM 7 C C7 NAG . . . S 4 198.896 36.427 357.748 1 228.9 ? C7 NAG 401 C 1 HETATM 8 C C8 NAG . . . S 4 199.635 37.714 357.99 1 203.52 ? C8 NAG 401 C 1 HETATM 9 N N2 NAG . . . S 4 199.166 35.429 358.601 1 232.58 ? N2 NAG 401 C 1 HETATM 10 O O3 NAG . . . S 4 196.333 35.024 359.241 1 235.23 ? O3 NAG 401 C 1 HETATM 11 O O4 NAG . . . S 4 195.787 32.52 360.544 1 243.54 ? O4 NAG 401 C 1 HETATM 12 O O5 NAG . . . S 4 198.83 31.754 358.604 1 231.72 ? O5 NAG 401 C 1 HETATM 13 O O6 NAG . . . S 4 197.469 29.829 357.843 1 246.85 ? O6 NAG 401 C 1 HETATM 14 O O7 NAG . . . S 4 198.082 36.294 356.812 1 222.01 ? O7 NAG 401 C 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #