data_8VCR # _model_server_result.job_id -hLacHSwnMmrUudgdgW0Fg _model_server_result.datetime_utc '2024-10-11 20:31:04' _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 8vcr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":1303}' # _entry.id 8VCR # _exptl.entry_id 8VCR _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 15 _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 8VCR _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VCR _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 nonameric _pdbx_struct_assembly.oligomeric_count 9 _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 _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 ? 5 M N N ? 5 N N N ? 5 O N N ? 5 P N N ? 5 Q N N ? 5 R N N ? 5 S N N ? 5 T N N ? 5 U N N ? 5 V N N ? 5 W N N ? 5 X N N ? 5 Y N N ? 5 Z N N ? 5 AA 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 J NAG 1 I 1 NAG I 1 NAG 4 n J NAG 2 I 2 NAG I 2 NAG 4 n K NAG 1 J 1 NAG J 1 NAG 4 n K NAG 2 J 2 NAG J 2 NAG 4 n L NAG 1 K 1 NAG K 1 NAG 4 n L NAG 2 K 2 NAG K 2 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 34 A CYS 704 1_555 H SG CYS 120 B CYS 790 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? disulf ? disulf2 A SG CYS 68 A CYS 738 1_555 A SG CYS 90 A CYS 760 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 A SG CYS 73 A CYS 743 1_555 A SG CYS 79 A CYS 749 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 A SG CYS 120 A CYS 790 1_555 I SG CYS 34 C CYS 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf5 A SG CYS 170 A CYS 840 1_555 A SG CYS 181 A CYS 851 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 A SG CYS 362 A CYS 1032 1_555 A SG CYS 373 A CYS 1043 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf7 A SG CYS 412 A CYS 1082 1_555 A SG CYS 456 A CYS 1126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf8 B SG CYS 22 D CYS 22 1_555 B SG CYS 97 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf9 B SG CYS 105 D CYS 100 1_555 B SG CYS 110 D CYS 100 1_555 ? ? ? E ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf10 C SG CYS 22 E CYS 22 1_555 C SG CYS 97 E CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf11 C SG CYS 105 E CYS 100 1_555 C SG CYS 110 E CYS 100 1_555 ? ? ? E ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf12 D SG CYS 23 F CYS 23 1_555 D SG CYS 88 F CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf13 E SG CYS 23 G CYS 23 1_555 E SG CYS 88 G CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf14 F SG CYS 22 H CYS 22 1_555 F SG CYS 97 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf15 F SG CYS 105 H CYS 100 1_555 F SG CYS 110 H CYS 100 1_555 ? ? ? E ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf16 G SG CYS 23 L CYS 23 1_555 G SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf17 H SG CYS 34 B CYS 704 1_555 I SG CYS 120 C CYS 790 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? disulf ? disulf18 H SG CYS 68 B CYS 738 1_555 H SG CYS 90 B CYS 760 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf19 H SG CYS 73 B CYS 743 1_555 H SG CYS 79 B CYS 749 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf20 H SG CYS 170 B CYS 840 1_555 H SG CYS 181 B CYS 851 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf21 H SG CYS 362 B CYS 1032 1_555 H SG CYS 373 B CYS 1043 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf22 H SG CYS 412 B CYS 1082 1_555 H SG CYS 456 B CYS 1126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf23 I SG CYS 68 C CYS 738 1_555 I SG CYS 90 C CYS 760 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf24 I SG CYS 73 C CYS 743 1_555 I SG CYS 79 C CYS 749 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf25 I SG CYS 170 C CYS 840 1_555 I SG CYS 181 C CYS 851 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf26 I SG CYS 362 C CYS 1032 1_555 I SG CYS 373 C CYS 1043 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf27 I SG CYS 412 C CYS 1082 1_555 I SG CYS 456 C CYS 1126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? covale ? covale1 A ND2 ASN 39 A ASN 709 1_555 M C1 NAG . A NAG 1301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale2 A ND2 ASN 47 A ASN 717 1_555 N C1 NAG . A NAG 1302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale3 A ND2 ASN 131 A ASN 801 1_555 J C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale4 A ND2 ASN 428 A ASN 1098 1_555 O C1 NAG . A NAG 1303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 A ND2 ASN 464 A ASN 1134 1_555 P C1 NAG . A NAG 1304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale6 B ND2 ASN 31 D ASN 31 1_555 Q C1 NAG . D NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale7 C ND2 ASN 31 E ASN 31 1_555 R C1 NAG . E NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale8 F ND2 ASN 31 H ASN 31 1_555 S C1 NAG . H NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale9 H ND2 ASN 39 B ASN 709 1_555 T C1 NAG . B NAG 1301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale10 H ND2 ASN 47 B ASN 717 1_555 U C1 NAG . B NAG 1302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale11 H ND2 ASN 131 B ASN 801 1_555 K C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale12 H ND2 ASN 428 B ASN 1098 1_555 V C1 NAG . B NAG 1303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale13 H ND2 ASN 464 B ASN 1134 1_555 W C1 NAG . B NAG 1304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale14 I ND2 ASN 39 C ASN 709 1_555 X C1 NAG . C NAG 1301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale15 I ND2 ASN 47 C ASN 717 1_555 Y C1 NAG . C NAG 1302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale16 I ND2 ASN 131 C ASN 801 1_555 L C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale17 I ND2 ASN 428 C ASN 1098 1_555 Z C1 NAG . C NAG 1303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale18 I ND2 ASN 464 C ASN 1134 1_555 AA C1 NAG . C NAG 1304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale19 J O4 NAG . I NAG 1 1_555 J C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale20 K O4 NAG . J NAG 1 1_555 K C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale21 L O4 NAG . K NAG 1 1_555 L C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? # _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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG sing 264 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 8VCR _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 M 5 NAG A 1 1301 1148 NAG NAG . N 5 NAG A 1 1302 1149 NAG NAG . O 5 NAG A 1 1303 1152 NAG NAG . P 5 NAG A 1 1304 1153 NAG NAG . Q 5 NAG D 1 301 114 NAG NAG . R 5 NAG E 1 301 114 NAG NAG . S 5 NAG H 1 301 114 NAG NAG . T 5 NAG B 1 1301 1148 NAG NAG . U 5 NAG B 1 1302 1149 NAG NAG . V 5 NAG B 1 1303 1152 NAG NAG . W 5 NAG B 1 1304 1153 NAG NAG . X 5 NAG C 1 1301 1148 NAG NAG . Y 5 NAG C 1 1302 1149 NAG NAG . Z 5 NAG C 1 1303 1152 NAG NAG . AA 5 NAG C 1 1304 1153 NAG NAG . # 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 . . . V 5 267.807 230.903 319.84 1 63.73 ? C1 NAG 1303 B 1 HETATM 2 C C2 NAG . . . V 5 269.068 230.139 320.238 1 63.73 ? C2 NAG 1303 B 1 HETATM 3 C C3 NAG . . . V 5 269.337 230.3 321.731 1 63.73 ? C3 NAG 1303 B 1 HETATM 4 C C4 NAG . . . V 5 269.384 231.774 322.107 1 63.73 ? C4 NAG 1303 B 1 HETATM 5 C C5 NAG . . . V 5 268.101 232.461 321.655 1 63.73 ? C5 NAG 1303 B 1 HETATM 6 C C6 NAG . . . V 5 268.121 233.954 321.889 1 63.73 ? C6 NAG 1303 B 1 HETATM 7 C C7 NAG . . . V 5 269.851 228.104 319.12 1 63.73 ? C7 NAG 1303 B 1 HETATM 8 C C8 NAG . . . V 5 269.591 226.65 318.868 1 63.73 ? C8 NAG 1303 B 1 HETATM 9 N N2 NAG . . . V 5 268.96 228.732 319.892 1 63.73 ? N2 NAG 1303 B 1 HETATM 10 O O3 NAG . . . V 5 270.572 229.673 322.057 1 63.73 ? O3 NAG 1303 B 1 HETATM 11 O O4 NAG . . . V 5 269.529 231.921 323.515 1 63.73 ? O4 NAG 1303 B 1 HETATM 12 O O5 NAG . . . V 5 267.925 232.271 320.244 1 63.73 ? O5 NAG 1303 B 1 HETATM 13 O O6 NAG . . . V 5 268.655 234.645 320.769 1 63.73 ? O6 NAG 1303 B 1 HETATM 14 O O7 NAG . . . V 5 270.82 228.684 318.642 1 63.73 ? O7 NAG 1303 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #