data_3SBK # _model_server_result.job_id YHVRd6N8OihjWMY26bAbHg _model_server_result.datetime_utc '2024-12-26 18:30:13' _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 3sbk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 3SBK # _exptl.entry_id 3SBK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 1 _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 120 _cell.entry_id 3SBK _cell.length_a 77.233 _cell.length_b 77.233 _cell.length_c 168.433 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3SBK _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 7 A CYS 22 1_555 A SG CYS 139 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 28 A CYS 42 1_555 A SG CYS 44 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf3 A SG CYS 76 A CYS 91 1_555 A SG CYS 232 A CYS 245 1_555 ? ? ? E ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf4 A SG CYS 120 A CYS 136 1_555 A SG CYS 186 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf5 A SG CYS 150 A CYS 168 1_555 A SG CYS 165 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf6 A SG CYS 176 A CYS 191 1_555 A SG CYS 201 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? covale ? covale1 A NE2 HIS 43 A HIS 57 1_555 C C3 0G6 . A 0G6 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.469 ? covale ? covale2 A OG SER 180 A SER 195 1_555 C C2 0G6 . A 0G6 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale3 A ND2 ASN 227 A ASN 245 1_555 B C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? # _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 303 n n C1 O1 NAG sing 304 n n C1 O5 NAG sing 305 n n C1 H1 NAG sing 306 n n C2 C3 NAG sing 307 n n C2 N2 NAG sing 308 n n C2 H2 NAG sing 309 n n C3 C4 NAG sing 310 n n C3 O3 NAG sing 311 n n C3 H3 NAG sing 312 n n C4 C5 NAG sing 313 n n C4 O4 NAG sing 314 n n C4 H4 NAG sing 315 n n C5 C6 NAG sing 316 n n C5 O5 NAG sing 317 n n C5 H5 NAG sing 318 n n C6 O6 NAG sing 319 n n C6 H61 NAG sing 320 n n C6 H62 NAG sing 321 n n C7 C8 NAG sing 322 n n C7 N2 NAG sing 323 n n C7 O7 NAG doub 324 n n C8 H81 NAG sing 325 n n C8 H82 NAG sing 326 n n C8 H83 NAG sing 327 n n N2 HN2 NAG sing 328 n n O1 HO1 NAG sing 329 n n O3 HO3 NAG sing 330 n n O4 HO4 NAG sing 331 n n O6 HO6 NAG sing 332 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 3SBK _atom_sites.fract_transf_matrix[1][1] 0.012948 _atom_sites.fract_transf_matrix[1][2] 0.007475 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014951 _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] 0.005937 _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 B 2 NAG A 1 301 301 NAG NAG . C 3 0G6 A 1 302 301 0G6 DPN . D 4 HOH A 1 1 1 HOH HOH . D 4 HOH A 2 3 3 HOH HOH . D 4 HOH A 3 4 4 HOH HOH . D 4 HOH A 4 5 5 HOH HOH . D 4 HOH A 5 6 6 HOH HOH . D 4 HOH A 6 7 7 HOH HOH . D 4 HOH A 7 8 8 HOH HOH . D 4 HOH A 8 9 9 HOH HOH . D 4 HOH A 9 10 10 HOH HOH . D 4 HOH A 10 11 11 HOH HOH . D 4 HOH A 11 12 12 HOH HOH . D 4 HOH A 12 13 13 HOH HOH . D 4 HOH A 13 14 14 HOH HOH . D 4 HOH A 14 15 15 HOH HOH . D 4 HOH A 15 246 16 HOH HOH . D 4 HOH A 16 247 17 HOH HOH . D 4 HOH A 17 248 18 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 . . . B 2 20.196 -8.815 -4.418 1 75.43 ? C1 NAG 301 A 1 HETATM 2 C C2 NAG . . . B 2 20.831 -8.317 -3.105 1 78.24 ? C2 NAG 301 A 1 HETATM 3 C C3 NAG . . . B 2 22.338 -8.596 -3.115 1 78.24 ? C3 NAG 301 A 1 HETATM 4 C C4 NAG . . . B 2 22.689 -10.04 -3.479 1 77.93 ? C4 NAG 301 A 1 HETATM 5 C C5 NAG . . . B 2 21.486 -10.887 -3.923 1 77.51 ? C5 NAG 301 A 1 HETATM 6 C C6 NAG . . . B 2 20.885 -11.687 -2.773 1 75.52 ? C6 NAG 301 A 1 HETATM 7 C C7 NAG . . . B 2 20.196 -5.85 -3.227 1 81.22 ? C7 NAG 301 A 1 HETATM 8 C C8 NAG . . . B 2 19.844 -4.674 -2.35 1 81.21 ? C8 NAG 301 A 1 HETATM 9 N N2 NAG . . . B 2 20.461 -6.994 -2.588 1 78.93 ? N2 NAG 301 A 1 HETATM 10 O O3 NAG . . . B 2 22.872 -8.336 -1.831 1 79.22 ? O3 NAG 301 A 1 HETATM 11 O O4 NAG . . . B 2 23.713 -10.038 -4.457 1 77.47 ? O4 NAG 301 A 1 HETATM 12 O O5 NAG . . . B 2 20.431 -10.213 -4.598 1 77.15 ? O5 NAG 301 A 1 HETATM 13 O O6 NAG . . . B 2 21.818 -12.717 -2.526 1 74.27 ? O6 NAG 301 A 1 HETATM 14 O O7 NAG . . . B 2 20.225 -5.712 -4.455 1 81.71 ? O7 NAG 301 A 1 # _model_server_stats.io_time_ms 47 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #