data_8ST4 # _model_server_result.job_id JnEssQefuBwjAtRYPAPnlg _model_server_result.datetime_utc '2024-11-08 13:49:31' _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 8st4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":703}' # _entry.id 8ST4 # _exptl.entry_id 8ST4 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 6 _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 8ST4 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8ST4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details undecameric _pdbx_struct_assembly.oligomeric_count 11 _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,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA _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 ? _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 ? 6 O N N ? 6 P N N ? 6 Q N N ? 6 T N N ? 6 U N N ? 6 V N N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 5 3 2 BMA NAG C1 O1 . O4 HO4 . 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 5 n L NAG 1 L 1 NAG B 701 NAG 5 n L NAG 2 L 2 NAG B 702 NAG 5 n L BMA 3 L 3 BMA B 703 BMA 5 n M NAG 1 M 1 NAG C 701 NAG 5 n M NAG 2 M 2 NAG C 702 NAG 5 n M BMA 3 M 3 BMA C 703 BMA 5 n N NAG 1 N 1 NAG E 701 NAG 5 n N NAG 2 N 2 NAG E 702 NAG 5 n N BMA 3 N 3 BMA E 703 BMA # 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 135 A CYS 135 1_555 A SG CYS 149 A CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf2 A SG CYS 199 A CYS 199 1_555 A SG CYS 200 A CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf3 B SG CYS 130 B CYS 130 1_555 B SG CYS 144 B CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 C SG CYS 130 C CYS 130 1_555 C SG CYS 144 C CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf5 D SG CYS 135 D CYS 135 1_555 D SG CYS 149 D CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf6 D SG CYS 199 D CYS 199 1_555 D SG CYS 200 D CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf7 E SG CYS 130 E CYS 130 1_555 E SG CYS 144 E CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf8 F SG CYS 42 F CYS 23 1_555 F SG CYS 112 F CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf9 F SG CYS 158 F CYS 139 1_555 F SG CYS 218 F CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf10 G SG CYS 41 G CYS 23 1_555 G SG CYS 115 G CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf11 G SG CYS 165 G CYS 147 1_555 G SG CYS 220 G CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf12 H SG CYS 42 H CYS 23 1_555 H SG CYS 112 H CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf13 H SG CYS 158 H CYS 139 1_555 H SG CYS 218 H CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf14 I SG CYS 41 I CYS 23 1_555 I SG CYS 115 I CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf15 I SG CYS 165 I CYS 147 1_555 I SG CYS 220 I CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf16 J SG CYS 42 J CYS 23 1_555 J SG CYS 112 J CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf17 J SG CYS 158 J CYS 139 1_555 J SG CYS 218 J CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf18 K SG CYS 41 K CYS 23 1_555 K SG CYS 115 K CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf19 K SG CYS 165 K CYS 147 1_555 K SG CYS 220 K CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 31 A ASN 31 1_555 O C1 NAG . A NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale2 A ND2 ASN 81 A ASN 81 1_555 P C1 NAG . A NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 ? covale ? covale3 A ND2 ASN 148 A ASN 148 1_555 Q C1 NAG . A NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale4 B ND2 ASN 143 B ASN 143 1_555 L C1 NAG . L NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale5 C ND2 ASN 143 C ASN 143 1_555 M C1 NAG . M NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale6 D ND2 ASN 31 D ASN 31 1_555 T C1 NAG . D NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale7 D ND2 ASN 81 D ASN 81 1_555 U C1 NAG . D NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale8 D ND2 ASN 148 D ASN 148 1_555 V C1 NAG . D NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale9 E ND2 ASN 143 E ASN 143 1_555 N C1 NAG . N NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale10 L O4 NAG . L NAG 1 1_555 L C1 NAG . L NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale11 L O4 NAG . L NAG 2 1_555 L C1 BMA . L BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale12 M O4 NAG . M NAG 1 1_555 M C1 NAG . M NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale13 M O4 NAG . M NAG 2 1_555 M C1 BMA . M BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale14 N O4 NAG . N NAG 1 1_555 N C1 NAG . N NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale15 N O4 NAG . N NAG 2 1_555 N C1 BMA . N BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? # _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 286 n n C1 O1 NAG sing 287 n n C1 O5 NAG sing 288 n n C1 H1 NAG sing 289 n n C2 C3 NAG sing 290 n n C2 N2 NAG sing 291 n n C2 H2 NAG sing 292 n n C3 C4 NAG sing 293 n n C3 O3 NAG sing 294 n n C3 H3 NAG sing 295 n n C4 C5 NAG sing 296 n n C4 O4 NAG sing 297 n n C4 H4 NAG sing 298 n n C5 C6 NAG sing 299 n n C5 O5 NAG sing 300 n n C5 H5 NAG sing 301 n n C6 O6 NAG sing 302 n n C6 H61 NAG sing 303 n n C6 H62 NAG sing 304 n n C7 C8 NAG sing 305 n n C7 N2 NAG sing 306 n n C7 O7 NAG doub 307 n n C8 H81 NAG sing 308 n n C8 H82 NAG sing 309 n n C8 H83 NAG sing 310 n n N2 HN2 NAG sing 311 n n O1 HO1 NAG sing 312 n n O3 HO3 NAG sing 313 n n O4 HO4 NAG sing 314 n n O6 HO6 NAG sing 315 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 8ST4 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 O 6 NAG A 1 701 701 NAG NAG . P 6 NAG A 1 702 702 NAG NAG . Q 6 NAG A 1 703 704 NAG NAG . R 7 ACH A 1 704 803 ACH ACH . S 8 NA B 1 501 707 NA NA . T 6 NAG D 1 701 701 NAG NAG . U 6 NAG D 1 702 702 NAG NAG . V 6 NAG D 1 703 704 NAG NAG . W 7 ACH D 1 704 803 ACH ACH . X 9 HOH A 1 801 801 HOH HOH . Y 9 HOH B 1 601 802 HOH HOH . Y 9 HOH B 2 602 801 HOH HOH . Z 9 HOH C 1 801 801 HOH HOH . AA 9 HOH D 1 801 802 HOH HOH . AA 9 HOH D 2 802 801 HOH HOH . BA 9 HOH E 1 801 801 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 . . . Q 6 194.375 166.705 169.774 1 13.54 ? C1 NAG 703 A 1 HETATM 2 C C2 NAG . . . Q 6 195.578 167.251 169.011 1 12.41 ? C2 NAG 703 A 1 HETATM 3 C C3 NAG . . . Q 6 196.802 167.294 169.92 1 22.2 ? C3 NAG 703 A 1 HETATM 4 C C4 NAG . . . Q 6 196.489 168.05 171.204 1 22.39 ? C4 NAG 703 A 1 HETATM 5 C C5 NAG . . . Q 6 195.24 167.477 171.864 1 24.63 ? C5 NAG 703 A 1 HETATM 6 C C6 NAG . . . Q 6 194.797 168.258 173.079 1 24.8 ? C6 NAG 703 A 1 HETATM 7 C C7 NAG . . . Q 6 195.28 166.674 166.642 1 16.9 ? C7 NAG 703 A 1 HETATM 8 C C8 NAG . . . Q 6 195.695 165.757 165.532 1 13.54 ? C8 NAG 703 A 1 HETATM 9 N N2 NAG . . . Q 6 195.855 166.453 167.828 1 11.54 ? N2 NAG 703 A 1 HETATM 10 O O3 NAG . . . Q 6 197.875 167.926 169.233 1 27.23 ? O3 NAG 703 A 1 HETATM 11 O O4 NAG . . . Q 6 197.582 167.928 172.106 1 25.92 ? O4 NAG 703 A 1 HETATM 12 O O5 NAG . . . Q 6 194.147 167.497 170.935 1 16.67 ? O5 NAG 703 A 1 HETATM 13 O O6 NAG . . . Q 6 193.995 169.373 172.716 1 21.09 ? O6 NAG 703 A 1 HETATM 14 O O7 NAG . . . Q 6 194.46 167.568 166.474 1 21.48 ? O7 NAG 703 A 1 HETATM 15 H H2 NAG . . . Q 6 195.376 168.164 168.731 1 14.32 ? H2 NAG 703 A 1 HETATM 16 H H3 NAG . . . Q 6 197.062 166.381 170.145 1 15.42 ? H3 NAG 703 A 1 HETATM 17 H H4 NAG . . . Q 6 196.343 168.992 170.997 1 15.42 ? H4 NAG 703 A 1 HETATM 18 H H5 NAG . . . Q 6 195.416 166.554 172.128 1 16.18 ? H5 NAG 703 A 1 HETATM 19 H H61 NAG . . . Q 6 195.585 168.575 173.56 1 16.62 ? H61 NAG 703 A 1 HETATM 20 H H62 NAG . . . Q 6 194.281 167.672 173.664 1 16.57 ? H62 NAG 703 A 1 HETATM 21 H H81 NAG . . . Q 6 195.203 165.985 164.721 1 14.68 ? H81 NAG 703 A 1 HETATM 22 H H82 NAG . . . Q 6 195.5 164.834 165.783 1 13.95 ? H82 NAG 703 A 1 HETATM 23 H H83 NAG . . . Q 6 196.653 165.854 165.371 1 15.09 ? H83 NAG 703 A 1 HETATM 24 H HN2 NAG . . . Q 6 196.461 165.775 167.896 1 14.69 ? HN2 NAG 703 A 1 HETATM 25 H HO3 NAG . . . Q 6 198.542 168.075 169.8 1 17.13 ? HO3 NAG 703 A 1 HETATM 26 H HO4 NAG . . . Q 6 197.561 168.598 172.689 1 17.25 ? HO4 NAG 703 A 1 HETATM 27 H HO6 NAG . . . Q 6 193.488 169.16 172.019 1 15.4 ? HO6 NAG 703 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 92 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #