data_3C09 # _model_server_result.job_id YvvVC-dyaIbn0qH8e9fc3Q _model_server_result.datetime_utc '2024-11-26 15:24:35' _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 3c09 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":3281}' # _entry.id 3C09 # _exptl.entry_id 3C09 _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 10 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 117.49 _cell.angle_gamma 90 _cell.entry_id 3C09 _cell.length_a 141.073 _cell.length_b 205.035 _cell.length_c 81.577 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3C09 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? trimeric 3 author_defined_assembly 1 ? trimeric 3 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,F,O,P,Q,R,S 1 1 C,D,E,G,H,I,J,K,L,M,N 2 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 G N N ? 4 H N N ? 4 K N N ? 4 L N N ? 4 M N N ? 4 N N N ? 4 O N N ? 4 P N N ? 4 R N N ? 4 S 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 23 L CYS 23 1_555 A SG CYS 87 L CYS 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? disulf ? disulf2 A SG CYS 133 L CYS 133 1_555 A SG CYS 193 L CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.79 ? disulf ? disulf3 B SG CYS 22 H CYS 22 1_555 B SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? disulf ? disulf4 B SG CYS 148 H CYS 148 1_555 B SG CYS 204 H CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? disulf ? disulf5 C SG CYS 7 A CYS 313 1_555 C SG CYS 32 A CYS 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? disulf ? disulf6 C SG CYS 140 A CYS 446 1_555 C SG CYS 169 A CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.899 ? disulf ? disulf7 C SG CYS 180 A CYS 486 1_555 C SG CYS 193 A CYS 499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.929 ? disulf ? disulf8 D SG CYS 23 B CYS 23 1_555 D SG CYS 87 B CYS 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? disulf ? disulf9 E SG CYS 22 C CYS 22 1_555 E SG CYS 96 C CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? disulf ? disulf10 E SG CYS 148 C CYS 148 1_555 E SG CYS 204 C CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? disulf ? disulf11 F SG CYS 7 D CYS 313 1_555 F SG CYS 32 D CYS 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? disulf ? disulf12 F SG CYS 140 D CYS 446 1_555 F SG CYS 169 D CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.648 ? disulf ? disulf13 F SG CYS 180 D CYS 486 1_555 F SG CYS 193 D CYS 499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.794 ? # _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 283 n n C1 O1 NAG sing 284 n n C1 O5 NAG sing 285 n n C1 H1 NAG sing 286 n n C2 C3 NAG sing 287 n n C2 N2 NAG sing 288 n n C2 H2 NAG sing 289 n n C3 C4 NAG sing 290 n n C3 O3 NAG sing 291 n n C3 H3 NAG sing 292 n n C4 C5 NAG sing 293 n n C4 O4 NAG sing 294 n n C4 H4 NAG sing 295 n n C5 C6 NAG sing 296 n n C5 O5 NAG sing 297 n n C5 H5 NAG sing 298 n n C6 O6 NAG sing 299 n n C6 H61 NAG sing 300 n n C6 H62 NAG sing 301 n n C7 C8 NAG sing 302 n n C7 N2 NAG sing 303 n n C7 O7 NAG doub 304 n n C8 H81 NAG sing 305 n n C8 H82 NAG sing 306 n n C8 H83 NAG sing 307 n n N2 HN2 NAG sing 308 n n O1 HO1 NAG sing 309 n n O3 HO3 NAG sing 310 n n O4 HO4 NAG sing 311 n n O6 HO6 NAG sing 312 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 3C09 _atom_sites.fract_transf_matrix[1][1] 0.007089 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003688 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004877 _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] 0.013819 _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 4 NAG A 1 3281 3281 NAG NAG . H 4 NAG A 1 3282 3282 NAG NAG . I 5 BMA A 1 3283 3283 BMA BMA . J 6 MAN A 1 3284 3284 MAN MAN . K 4 NAG A 1 3371 3371 NAG NAG . L 4 NAG A 1 3891 3891 NAG NAG . M 4 NAG A 1 4201 4201 NAG NAG . N 4 NAG A 1 4202 4202 NAG NAG . O 4 NAG D 1 3281 3281 NAG NAG . P 4 NAG D 1 3282 3282 NAG NAG . Q 5 BMA D 1 3283 3283 BMA BMA . R 4 NAG D 1 3371 3371 NAG NAG . S 4 NAG D 1 3891 3891 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 . . . G 4 -13.608 -56.579 -37.81 1 34.81 ? C1 NAG 3281 A 1 HETATM 2 C C2 NAG . . . G 4 -12.238 -56.193 -37.325 1 36.79 ? C2 NAG 3281 A 1 HETATM 3 C C3 NAG . . . G 4 -12.162 -56.58 -35.859 1 35.91 ? C3 NAG 3281 A 1 HETATM 4 C C4 NAG . . . G 4 -13.372 -56.008 -35.107 1 33.98 ? C4 NAG 3281 A 1 HETATM 5 C C5 NAG . . . G 4 -14.679 -55.907 -35.888 1 33.96 ? C5 NAG 3281 A 1 HETATM 6 C C6 NAG . . . G 4 -15.597 -54.832 -35.312 1 35.46 ? C6 NAG 3281 A 1 HETATM 7 C C7 NAG . . . G 4 -10.961 -56.196 -39.352 1 41.8 ? C7 NAG 3281 A 1 HETATM 8 C C8 NAG . . . G 4 -9.853 -56.794 -40.17 1 42.42 ? C8 NAG 3281 A 1 HETATM 9 N N2 NAG . . . G 4 -11.225 -56.776 -38.177 1 39.99 ? N2 NAG 3281 A 1 HETATM 10 O O3 NAG . . . G 4 -10.967 -56.068 -35.296 1 37 ? O3 NAG 3281 A 1 HETATM 11 O O4 NAG . . . G 4 -13.636 -56.81 -33.989 1 31.29 ? O4 NAG 3281 A 1 HETATM 12 O O5 NAG . . . G 4 -14.428 -55.605 -37.237 1 34.05 ? O5 NAG 3281 A 1 HETATM 13 O O6 NAG . . . G 4 -15.354 -54.621 -33.933 1 36.58 ? O6 NAG 3281 A 1 HETATM 14 O O7 NAG . . . G 4 -11.583 -55.214 -39.774 1 42.23 ? O7 NAG 3281 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 33 _model_server_stats.query_time_ms 404 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 14 #