data_3VWK # _model_server_result.job_id 3i7fbo_9sQ5l_SNnkaNlVQ _model_server_result.datetime_utc '2024-11-23 23:02:16' _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 3vwk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 3VWK # _exptl.entry_id 3VWK _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 90 _cell.angle_gamma 90 _cell.entry_id 3VWK _cell.length_a 144.27 _cell.length_b 177.26 _cell.length_c 83.75 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VWK _symmetry.cell_setting ? _symmetry.Int_Tables_number 21 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? 5 E N N ? 5 F 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 103 A CYS 102 1_555 A SG CYS 167 A CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf2 A SG CYS 207 A CYS 206 1_555 A SG CYS 262 A CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf3 B SG CYS 25 B CYS 25 1_555 B SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf4 C SG CYS 24 C CYS 22 1_555 C SG CYS 91 C CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 C SG CYS 138 C CYS 139 1_555 C SG CYS 188 C CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf6 C SG CYS 163 C CYS 164 1_555 D SG CYS 173 D CYS 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 D SG CYS 24 D CYS 23 1_555 D SG CYS 92 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf8 D SG CYS 147 D CYS 148 1_555 D SG CYS 212 D CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 21 A ASN 20 1_555 E C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale2 A ND2 ASN 43 A ASN 42 1_555 F C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? metalc ? metalc1 D OD1 ASP 31 D ASP 30 1_555 H MG MG . D MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.761 ? # _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 394 n n C1 O1 NAG sing 395 n n C1 O5 NAG sing 396 n n C1 H1 NAG sing 397 n n C2 C3 NAG sing 398 n n C2 N2 NAG sing 399 n n C2 H2 NAG sing 400 n n C3 C4 NAG sing 401 n n C3 O3 NAG sing 402 n n C3 H3 NAG sing 403 n n C4 C5 NAG sing 404 n n C4 O4 NAG sing 405 n n C4 H4 NAG sing 406 n n C5 C6 NAG sing 407 n n C5 O5 NAG sing 408 n n C5 H5 NAG sing 409 n n C6 O6 NAG sing 410 n n C6 H61 NAG sing 411 n n C6 H62 NAG sing 412 n n C7 C8 NAG sing 413 n n C7 N2 NAG sing 414 n n C7 O7 NAG doub 415 n n C8 H81 NAG sing 416 n n C8 H82 NAG sing 417 n n C8 H83 NAG sing 418 n n N2 HN2 NAG sing 419 n n O1 HO1 NAG sing 420 n n O3 HO3 NAG sing 421 n n O4 HO4 NAG sing 422 n n O6 HO6 NAG sing 423 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 3VWK _atom_sites.fract_transf_matrix[1][1] 0.006931 _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] 0.005641 _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] 0.01194 _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 A 1 301 400 NAG NAG . F 5 NAG A 1 302 314 NAG NAG . G 6 4GH A 1 303 601 4GH 4GH . H 7 MG D 1 301 1 MG MG . I 8 HOH A 1 401 10 HOH HOH . I 8 HOH A 2 402 14 HOH HOH . I 8 HOH A 3 403 15 HOH HOH . I 8 HOH A 4 404 24 HOH HOH . I 8 HOH A 5 405 25 HOH HOH . I 8 HOH A 6 406 30 HOH HOH . I 8 HOH A 7 407 50 HOH HOH . I 8 HOH A 8 408 51 HOH HOH . J 8 HOH B 1 101 6 HOH HOH . J 8 HOH B 2 102 28 HOH HOH . J 8 HOH B 3 103 38 HOH HOH . J 8 HOH B 4 104 41 HOH HOH . J 8 HOH B 5 105 42 HOH HOH . J 8 HOH B 6 106 49 HOH HOH . K 8 HOH C 1 301 27 HOH HOH . K 8 HOH C 2 302 39 HOH HOH . L 8 HOH D 1 401 3 HOH HOH . L 8 HOH D 2 402 16 HOH HOH . L 8 HOH D 3 403 20 HOH HOH . L 8 HOH D 4 404 36 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 . . . E 5 12.146 -40.278 36.58 1 66.58 ? C1 NAG 301 A 1 HETATM 2 C C2 NAG . . . E 5 11.304 -39.047 36.242 1 72.53 ? C2 NAG 301 A 1 HETATM 3 C C3 NAG . . . E 5 9.937 -39.422 35.671 1 74.17 ? C3 NAG 301 A 1 HETATM 4 C C4 NAG . . . E 5 10.12 -40.39 34.503 1 74.33 ? C4 NAG 301 A 1 HETATM 5 C C5 NAG . . . E 5 10.973 -41.571 34.957 1 73.09 ? C5 NAG 301 A 1 HETATM 6 C C6 NAG . . . E 5 11.165 -42.586 33.827 1 74.17 ? C6 NAG 301 A 1 HETATM 7 C C7 NAG . . . E 5 12.003 -37.146 37.551 1 76.73 ? C7 NAG 301 A 1 HETATM 8 C C8 NAG . . . E 5 12.101 -36.567 38.938 1 76.82 ? C8 NAG 301 A 1 HETATM 9 N N2 NAG . . . E 5 11.179 -38.186 37.407 1 75.58 ? N2 NAG 301 A 1 HETATM 10 O O3 NAG . . . E 5 9.271 -38.249 35.244 1 74.97 ? O3 NAG 301 A 1 HETATM 11 O O4 NAG . . . E 5 8.882 -40.844 33.979 1 74.48 ? O4 NAG 301 A 1 HETATM 12 O O5 NAG . . . E 5 12.229 -41.105 35.432 1 70.27 ? O5 NAG 301 A 1 HETATM 13 O O6 NAG . . . E 5 11.787 -41.976 32.713 1 74.83 ? O6 NAG 301 A 1 HETATM 14 O O7 NAG . . . E 5 12.664 -36.682 36.61 1 76.07 ? O7 NAG 301 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 248 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #