data_5WT4 # _model_server_result.job_id OBbtA0EZV5yYc24PU-k9Qw _model_server_result.datetime_utc '2024-11-23 21:05:43' _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 5wt4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 5WT4 # _exptl.entry_id 5WT4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 352.301 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)-L-CYSTEINE _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 90 _cell.entry_id 5WT4 _cell.length_a 103.17 _cell.length_b 103.17 _cell.length_c 133.62 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WT4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C11 H17 N2 O7 P S' _chem_comp.formula_weight 352.301 _chem_comp.id C6P _chem_comp.mon_nstd_flag . _chem_comp.name N-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)-L-CYSTEINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 4-((1-CARBOXY-2-THIOL-ETHYLAMINO)-METHYL)-3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDINIUM # 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 N CA C6P sing 70 n n N C4A C6P sing 71 n n N HN C6P sing 72 n n C O C6P doub 73 n n C CA C6P sing 74 n n C OXT C6P sing 75 n n P OP2 C6P doub 76 n n P OP1 C6P sing 77 n n P OP3 C6P sing 78 n n P OP4 C6P sing 79 n n OP3 HOP3 C6P sing 80 n n OP1 HOP1 C6P sing 81 n n OP4 C5M C6P sing 82 n n C5M C5 C6P sing 83 n n C5M H5M1 C6P sing 84 n n C5M H5M2 C6P sing 85 n n C5 C4 C6P sing 86 n y C5 C6 C6P doub 87 n y C6 N1 C6P sing 88 n y C6 H6 C6P sing 89 n n N1 C2 C6P doub 90 n y C2 C3 C6P sing 91 n y C2 C2A C6P sing 92 n n C2A H2A1 C6P sing 93 n n C2A H2A2 C6P sing 94 n n C2A H2A3 C6P sing 95 n n C3 C4 C6P doub 96 n y C3 O3 C6P sing 97 n n O3 HO3 C6P sing 98 n n C4 C4A C6P sing 99 n n C4A H4A1 C6P sing 100 n n C4A H4A2 C6P sing 101 n n CA CB C6P sing 102 n n CA HA C6P sing 103 n n OXT HOXT C6P sing 104 n n CB SG C6P sing 105 n n CB HB1 C6P sing 106 n n CB HB2 C6P sing 107 n n SG HSG C6P sing 108 n n # _atom_sites.entry_id 5WT4 _atom_sites.fract_transf_matrix[1][1] 0.009693 _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] 0.009693 _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] 0.007484 _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 IPA A 1 501 1 IPA IPA . C 3 C6P A 1 502 1 C6P C6P . D 4 HOH A 1 601 8 HOH HOH . D 4 HOH A 2 602 3 HOH HOH . D 4 HOH A 3 603 6 HOH HOH . D 4 HOH A 4 604 9 HOH HOH . D 4 HOH A 5 605 2 HOH HOH . D 4 HOH A 6 606 7 HOH HOH . D 4 HOH A 7 607 1 HOH HOH . D 4 HOH A 8 608 5 HOH HOH . D 4 HOH A 9 609 4 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 N N C6P . . . C 3 -23.24 -18.034 -15.342 0.95 61.19 ? N C6P 502 A 1 HETATM 2 C C C6P . . . C 3 -25.208 -17.427 -16.654 0.95 80.81 ? C C6P 502 A 1 HETATM 3 O O C6P . . . C 3 -24.432 -17.493 -17.635 0.95 77.46 ? O C6P 502 A 1 HETATM 4 P P C6P . . . C 3 -21.888 -19.172 -9.955 0.95 39.49 ? P C6P 502 A 1 HETATM 5 O OP3 C6P . . . C 3 -20.96 -18.372 -9.125 0.95 51.25 ? OP3 C6P 502 A 1 HETATM 6 O OP1 C6P . . . C 3 -22.061 -20.683 -9.384 0.95 35.27 ? OP1 C6P 502 A 1 HETATM 7 O OP2 C6P . . . C 3 -23.373 -18.538 -9.988 0.95 24.39 ? OP2 C6P 502 A 1 HETATM 8 O OP4 C6P . . . C 3 -21.425 -19.25 -11.475 0.95 66.31 ? OP4 C6P 502 A 1 HETATM 9 C C5M C6P . . . C 3 -21.084 -18.037 -12.143 0.95 73.19 ? C5M C6P 502 A 1 HETATM 10 C C5 C6P . . . C 3 -20.421 -18.382 -13.305 0.95 69.54 ? C5 C6P 502 A 1 HETATM 11 C C6 C6P . . . C 3 -19.032 -18.441 -13.341 0.95 68.55 ? C6 C6P 502 A 1 HETATM 12 N N1 C6P . . . C 3 -18.369 -18.8 -14.524 0.95 70.56 ? N1 C6P 502 A 1 HETATM 13 C C2 C6P . . . C 3 -19.073 -19.094 -15.627 0.95 73.67 ? C2 C6P 502 A 1 HETATM 14 C C2A C6P . . . C 3 -18.407 -19.449 -16.796 0.95 83.3 ? C2A C6P 502 A 1 HETATM 15 C C3 C6P . . . C 3 -20.463 -19.038 -15.588 0.95 68.33 ? C3 C6P 502 A 1 HETATM 16 O O3 C6P . . . C 3 -21.154 -19.343 -16.721 0.95 70.87 ? O3 C6P 502 A 1 HETATM 17 C C4 C6P . . . C 3 -21.161 -18.672 -14.438 0.95 67.88 ? C4 C6P 502 A 1 HETATM 18 C C4A C6P . . . C 3 -22.556 -18.63 -14.361 0.95 64.71 ? C4A C6P 502 A 1 HETATM 19 C CA C6P . . . C 3 -24.716 -18.043 -15.346 0.95 73.94 ? CA C6P 502 A 1 HETATM 20 O OXT C6P . . . C 3 -26.358 -16.939 -16.656 0.95 88.51 ? OXT C6P 502 A 1 HETATM 21 C CB C6P . . . C 3 -25.308 -17.292 -14.136 0.95 81.35 ? CB C6P 502 A 1 HETATM 22 S SG C6P . . . C 3 -24.735 -15.57 -13.902 0.95 89.51 ? SG C6P 502 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 22 #