data_5DF0 # _model_server_result.job_id Cqmu9BtoGcWQuqAnaPnUVg _model_server_result.datetime_utc '2024-11-24 01:27:03' _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 5df0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":605}' # _entry.id 5DF0 # _exptl.entry_id 5DF0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.274 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2R,3aR,5R,6R,7R,7aR)-5-(hydroxymethyl)-2-methylhexahydro-3aH-pyrano[3,2-d][1,3]thiazole-6,7-diol _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 5DF0 _cell.length_a 96.712 _cell.length_b 112.766 _cell.length_c 129.591 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DF0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,I,J,K,S 1 1 B,L,M,N,O,P,Q,R,T 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 P 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 106 A CYS 106 1_555 A SG CYS 111 A CYS 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 185 A CYS 185 1_555 A SG CYS 208 A CYS 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 B SG CYS 106 B CYS 106 1_555 B SG CYS 111 B CYS 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 B SG CYS 185 B CYS 185 1_555 B SG CYS 208 B CYS 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 F C1 SN5 . A SN5 604 1_555 G O4 58Y . A 58Y 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale2 B ND2 ASN 444 B ASN 444 1_555 N C1 NAG . B NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale3 O C1 SN5 . B SN5 604 1_555 P O4 58Y . B 58Y 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? # _chem_comp.formula 'C8 H15 N O4 S' _chem_comp.formula_weight 221.274 _chem_comp.id 58Y _chem_comp.mon_nstd_flag . _chem_comp.name (2R,3aR,5R,6R,7R,7aR)-5-(hydroxymethyl)-2-methylhexahydro-3aH-pyrano[3,2-d][1,3]thiazole-6,7-diol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 C8 C7 58Y sing 1 n n C7 S1 58Y sing 2 n n C7 N2 58Y sing 3 n n S1 C1 58Y sing 4 n n N2 C2 58Y sing 5 n n C1 C2 58Y sing 6 n n C1 O5 58Y sing 7 n n C2 C3 58Y sing 8 n n O5 C5 58Y sing 9 n n C5 C4 58Y sing 10 n n C5 C6 58Y sing 11 n n C3 C4 58Y sing 12 n n C3 O3 58Y sing 13 n n C4 O4 58Y sing 14 n n C6 O6 58Y sing 15 n n C1 H1 58Y sing 16 n n C2 H2 58Y sing 17 n n C3 H3 58Y sing 18 n n C4 H4 58Y sing 19 n n C5 H5 58Y sing 20 n n C6 H6 58Y sing 21 n n C6 H7 58Y sing 22 n n C7 H8 58Y sing 23 n n C8 H9 58Y sing 24 n n C8 H10 58Y sing 25 n n C8 H11 58Y sing 26 n n N2 H12 58Y sing 27 n n O3 H14 58Y sing 28 n n O4 H15 58Y sing 29 n n O6 H16 58Y sing 30 n n # _atom_sites.entry_id 5DF0 _atom_sites.fract_transf_matrix[1][1] 0.01034 _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] 0.008868 _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] 0.007717 _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 C 2 NAG A 1 601 546 NAG NAG . D 2 NAG A 1 602 547 NAG NAG . E 2 NAG A 1 603 550 NAG NAG . F 3 SN5 A 1 604 561 SN5 SN5 . G 4 58Y A 1 605 560 58Y NGT . H 5 CL A 1 606 554 CL CL . I 6 SO4 A 1 607 766 SO4 SO4 . J 6 SO4 A 1 608 767 SO4 SO4 . K 6 SO4 A 1 609 768 SO4 SO4 . L 2 NAG B 1 601 550 NAG NAG . M 2 NAG B 1 602 552 NAG NAG . N 2 NAG B 1 603 553 NAG NAG . O 3 SN5 B 1 604 561 SN5 SN5 . P 4 58Y B 1 605 560 58Y NGT . Q 6 SO4 B 1 606 901 SO4 SO4 . R 6 SO4 B 1 607 902 SO4 SO4 . S 7 HOH A 1 701 616 HOH HOH . S 7 HOH A 2 702 609 HOH HOH . S 7 HOH A 3 703 717 HOH HOH . S 7 HOH A 4 704 765 HOH HOH . T 7 HOH B 1 701 565 HOH HOH . T 7 HOH B 2 702 577 HOH HOH . T 7 HOH B 3 703 900 HOH HOH . T 7 HOH B 4 704 684 HOH HOH . T 7 HOH B 5 705 774 HOH HOH . T 7 HOH B 6 706 639 HOH HOH . T 7 HOH B 7 707 750 HOH HOH . T 7 HOH B 8 708 877 HOH HOH . T 7 HOH B 9 709 736 HOH HOH . T 7 HOH B 10 710 702 HOH HOH . T 7 HOH B 11 711 641 HOH HOH . T 7 HOH B 12 712 854 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 58Y . . . G 4 -113.285 16.376 298.222 1 24.11 ? C1 58Y 605 A 1 HETATM 2 C C2 58Y . . . G 4 -112.293 17.148 298.891 1 24.99 ? C2 58Y 605 A 1 HETATM 3 C C3 58Y . . . G 4 -111.09 16.362 299.192 1 28.26 ? C3 58Y 605 A 1 HETATM 4 C C4 58Y . . . G 4 -111.349 14.99 299.827 1 29.53 ? C4 58Y 605 A 1 HETATM 5 C C5 58Y . . . G 4 -112.559 14.24 299.251 1 29.98 ? C5 58Y 605 A 1 HETATM 6 C C6 58Y . . . G 4 -112.978 13.091 300.223 1 30.26 ? C6 58Y 605 A 1 HETATM 7 C C7 58Y . . . G 4 -112.121 17.732 296.463 1 21.55 ? C7 58Y 605 A 1 HETATM 8 C C8 58Y . . . G 4 -110.902 17.673 295.512 1 19.23 ? C8 58Y 605 A 1 HETATM 9 N N2 58Y . . . G 4 -111.718 18.206 297.781 1 23.74 ? N2 58Y 605 A 1 HETATM 10 S S1 58Y . . . G 4 -112.723 16.252 296.709 1 29.14 ? S1 58Y 605 A 1 HETATM 11 O O3 58Y . . . G 4 -110.259 17.143 300.082 1 40.19 ? O3 58Y 605 A 1 HETATM 12 O O4 58Y . . . G 4 -111.449 15.109 301.234 1 30.81 ? O4 58Y 605 A 1 HETATM 13 O O5 58Y . . . G 4 -113.635 15.005 299.047 1 26 ? O5 58Y 605 A 1 HETATM 14 O O6 58Y . . . G 4 -114.273 13.382 300.698 1 30.67 ? O6 58Y 605 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 229 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #