data_3A2Y # _model_server_result.job_id ntekMIcH5WgICARZ_WQcog _model_server_result.datetime_utc '2024-11-07 12:43:30' _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 3a2y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":198}' # _entry.id 3A2Y # _exptl.entry_id 3A2Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 434.554 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLUTATHIONYLSPERMIDINE _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 3A2Y _cell.length_a 83.962 _cell.length_b 83.962 _cell.length_c 104.937 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3A2Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 64 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA dimeric 2 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,B,C 1 1 A,B,C 2 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' 9_766 -x+2,-x+y+1,-z+5/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 125.943 72.713225 174.895 # _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 # _chem_comp.formula 'C17 H34 N6 O5 S' _chem_comp.formula_weight 434.554 _chem_comp.id TS5 _chem_comp.mon_nstd_flag . _chem_comp.name GLUTATHIONYLSPERMIDINE _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 N1 CA1 TS5 sing 334 n n N1 HN11 TS5 sing 335 n n N1 HN12 TS5 sing 336 n n CA1 C1 TS5 sing 337 n n CA1 CB1 TS5 sing 338 n n CA1 HA1 TS5 sing 339 n n C1 OE1 TS5 doub 340 n n C1 OE2 TS5 sing 341 n n OE2 HO2 TS5 sing 342 n n CB1 CG1 TS5 sing 343 n n CB1 HB11 TS5 sing 344 n n CB1 HB12 TS5 sing 345 n n CG1 CD1 TS5 sing 346 n n CG1 HG11 TS5 sing 347 n n CG1 HG12 TS5 sing 348 n n CD1 O1 TS5 doub 349 n n CD1 N2 TS5 sing 350 n n N2 CA2 TS5 sing 351 n n N2 HN2 TS5 sing 352 n n CA2 C2 TS5 sing 353 n n CA2 CB2 TS5 sing 354 n n CA2 HA2 TS5 sing 355 n n C2 O2 TS5 doub 356 n n C2 N3 TS5 sing 357 n n CB2 SG2 TS5 sing 358 n n CB2 HB21 TS5 sing 359 n n CB2 HB22 TS5 sing 360 n n SG2 HG2 TS5 sing 361 n n N3 CA3 TS5 sing 362 n n N3 HN3 TS5 sing 363 n n CA3 C3 TS5 sing 364 n n CA3 HA31 TS5 sing 365 n n CA3 HA32 TS5 sing 366 n n C3 O3 TS5 doub 367 n n C3 N1' TS5 sing 368 n n N1' C1' TS5 sing 369 n n N1' HN1' TS5 sing 370 n n C1' C2' TS5 sing 371 n n C1' "H1'1" TS5 sing 372 n n C1' "H1'2" TS5 sing 373 n n C2' C3' TS5 sing 374 n n C2' "H2'1" TS5 sing 375 n n C2' "H2'2" TS5 sing 376 n n N2' C3' TS5 sing 377 n n N2' C4' TS5 sing 378 n n N2' HN2' TS5 sing 379 n n C3' "H3'1" TS5 sing 380 n n C3' "H3'2" TS5 sing 381 n n C4' C5' TS5 sing 382 n n C4' "H4'1" TS5 sing 383 n n C4' "H4'2" TS5 sing 384 n n C5' C6' TS5 sing 385 n n C5' "H5'1" TS5 sing 386 n n C5' "H5'2" TS5 sing 387 n n C6' C7' TS5 sing 388 n n C6' "H6'1" TS5 sing 389 n n C6' "H6'2" TS5 sing 390 n n C7' N3' TS5 sing 391 n n C7' "H7'1" TS5 sing 392 n n C7' "H7'2" TS5 sing 393 n n N3' HN31 TS5 sing 394 n n N3' HN32 TS5 sing 395 n n # _atom_sites.entry_id 3A2Y _atom_sites.fract_transf_matrix[1][1] 0.01191 _atom_sites.fract_transf_matrix[1][2] 0.006876 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013753 _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] 0.00953 _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 TS5 A 1 198 198 TS5 TS5 . C 3 HOH A 1 3001 3001 HOH HOH . C 3 HOH A 2 3002 3002 HOH HOH . C 3 HOH A 3 3003 3003 HOH HOH . C 3 HOH A 4 3004 3004 HOH HOH . C 3 HOH A 5 3005 3005 HOH HOH . C 3 HOH A 6 3006 3006 HOH HOH . C 3 HOH A 7 3007 3007 HOH HOH . C 3 HOH A 8 3008 3008 HOH HOH . C 3 HOH A 9 3009 3009 HOH HOH . C 3 HOH A 10 3010 3010 HOH HOH . C 3 HOH A 11 3011 3011 HOH HOH . C 3 HOH A 12 3012 3012 HOH HOH . C 3 HOH A 13 3013 3013 HOH HOH . C 3 HOH A 14 3014 3014 HOH HOH . C 3 HOH A 15 3015 3015 HOH HOH . C 3 HOH A 16 3016 3016 HOH HOH . C 3 HOH A 17 3017 3017 HOH HOH . C 3 HOH A 18 3018 3018 HOH HOH . C 3 HOH A 19 3019 3019 HOH HOH . C 3 HOH A 20 3020 3020 HOH HOH . C 3 HOH A 21 3021 3021 HOH HOH . C 3 HOH A 22 3022 3022 HOH HOH . C 3 HOH A 23 3023 3023 HOH HOH . C 3 HOH A 24 3024 3024 HOH HOH . C 3 HOH A 25 3025 3025 HOH HOH . C 3 HOH A 26 3026 3026 HOH HOH . C 3 HOH A 27 3027 3027 HOH HOH . C 3 HOH A 28 3028 3028 HOH HOH . C 3 HOH A 29 3029 3029 HOH HOH . C 3 HOH A 30 3030 3030 HOH HOH . C 3 HOH A 31 3031 3031 HOH HOH . C 3 HOH A 32 3032 3032 HOH HOH . C 3 HOH A 33 3033 3033 HOH HOH . C 3 HOH A 34 3034 3034 HOH HOH . C 3 HOH A 35 3035 3035 HOH HOH . C 3 HOH A 36 3036 3036 HOH HOH . C 3 HOH A 37 3037 3037 HOH HOH . C 3 HOH A 38 3038 3038 HOH HOH . C 3 HOH A 39 3039 3039 HOH HOH . C 3 HOH A 40 3040 3040 HOH HOH . C 3 HOH A 41 3041 3041 HOH HOH . C 3 HOH A 42 3042 3042 HOH HOH . C 3 HOH A 43 3043 3043 HOH HOH . C 3 HOH A 44 3044 3044 HOH HOH . C 3 HOH A 45 3045 3045 HOH HOH . C 3 HOH A 46 3046 3046 HOH HOH . C 3 HOH A 47 3047 3047 HOH HOH . C 3 HOH A 48 3048 3048 HOH HOH . C 3 HOH A 49 3049 3049 HOH HOH . C 3 HOH A 50 3050 3050 HOH HOH . C 3 HOH A 51 3051 3051 HOH HOH . C 3 HOH A 52 3052 3052 HOH HOH . C 3 HOH A 53 3053 3053 HOH HOH . C 3 HOH A 54 3054 3054 HOH HOH . C 3 HOH A 55 3055 3055 HOH HOH . C 3 HOH A 56 3056 3056 HOH HOH . C 3 HOH A 57 3057 3057 HOH HOH . C 3 HOH A 58 3058 3058 HOH HOH . C 3 HOH A 59 3059 3059 HOH HOH . C 3 HOH A 60 3060 3060 HOH HOH . C 3 HOH A 61 3061 3061 HOH HOH . C 3 HOH A 62 3062 3062 HOH HOH . C 3 HOH A 63 3063 3063 HOH HOH . C 3 HOH A 64 3064 3064 HOH HOH . C 3 HOH A 65 3065 3065 HOH HOH . C 3 HOH A 66 3066 3066 HOH HOH . C 3 HOH A 67 3067 3067 HOH HOH . C 3 HOH A 68 3068 3068 HOH HOH . C 3 HOH A 69 3069 3069 HOH HOH . C 3 HOH A 70 3070 3070 HOH HOH . C 3 HOH A 71 3071 3071 HOH HOH . C 3 HOH A 72 3072 3072 HOH HOH . C 3 HOH A 73 3073 3073 HOH HOH . C 3 HOH A 74 3074 3074 HOH HOH . C 3 HOH A 75 3075 3075 HOH HOH . C 3 HOH A 76 3076 3076 HOH HOH . C 3 HOH A 77 3077 3077 HOH HOH . C 3 HOH A 78 3078 3078 HOH HOH . C 3 HOH A 79 3079 3079 HOH HOH . C 3 HOH A 80 3080 3080 HOH HOH . C 3 HOH A 81 3081 3081 HOH HOH . C 3 HOH A 82 3082 3082 HOH HOH . C 3 HOH A 83 3083 3083 HOH HOH . C 3 HOH A 84 3084 3084 HOH HOH . C 3 HOH A 85 3085 3085 HOH HOH . C 3 HOH A 86 3086 3086 HOH HOH . C 3 HOH A 87 3087 3087 HOH HOH . C 3 HOH A 88 3088 3088 HOH HOH . C 3 HOH A 89 3089 3089 HOH HOH . C 3 HOH A 90 3090 3090 HOH HOH . C 3 HOH A 91 3091 3091 HOH HOH . C 3 HOH A 92 3092 3092 HOH HOH . C 3 HOH A 93 3093 3093 HOH HOH . C 3 HOH A 94 3094 3094 HOH HOH . C 3 HOH A 95 3095 3095 HOH HOH . C 3 HOH A 96 3096 3096 HOH HOH . C 3 HOH A 97 3097 3097 HOH HOH . C 3 HOH A 98 3098 3098 HOH HOH . C 3 HOH A 99 3099 3099 HOH HOH . C 3 HOH A 100 3100 3100 HOH HOH . C 3 HOH A 101 3101 3101 HOH HOH . C 3 HOH A 102 3102 3102 HOH HOH . C 3 HOH A 103 3103 3103 HOH HOH . C 3 HOH A 104 3104 3104 HOH HOH . C 3 HOH A 105 3105 3105 HOH HOH . C 3 HOH A 106 3106 3106 HOH HOH . C 3 HOH A 107 3107 3107 HOH HOH . C 3 HOH A 108 3108 3108 HOH HOH . C 3 HOH A 109 3109 3109 HOH HOH . C 3 HOH A 110 3110 3110 HOH HOH . C 3 HOH A 111 3111 3111 HOH HOH . C 3 HOH A 112 3112 3112 HOH HOH . C 3 HOH A 113 3113 3113 HOH HOH . C 3 HOH A 114 3114 3114 HOH HOH . C 3 HOH A 115 3115 3115 HOH HOH . C 3 HOH A 116 3116 3116 HOH HOH . C 3 HOH A 117 3117 3117 HOH HOH . C 3 HOH A 118 3118 3118 HOH HOH . C 3 HOH A 119 3119 3119 HOH HOH . C 3 HOH A 120 3120 3120 HOH HOH . C 3 HOH A 121 3121 3121 HOH HOH . C 3 HOH A 122 3122 3122 HOH HOH . C 3 HOH A 123 3123 3123 HOH HOH . C 3 HOH A 124 3124 3124 HOH HOH . C 3 HOH A 125 3125 3125 HOH HOH . C 3 HOH A 126 3126 3126 HOH HOH . C 3 HOH A 127 3128 3128 HOH HOH . C 3 HOH A 128 3129 3129 HOH HOH . C 3 HOH A 129 3130 3130 HOH HOH . C 3 HOH A 130 3131 3131 HOH HOH . C 3 HOH A 131 3132 3132 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 N1 TS5 . . . B 2 40.605 39.319 101.9 1 54.52 ? N1 TS5 198 A 1 HETATM 2 C CA1 TS5 . . . B 2 40.843 39.4 100.444 1 56.86 ? CA1 TS5 198 A 1 HETATM 3 C C1 TS5 . . . B 2 42.118 40.16 100.146 1 57.25 ? C1 TS5 198 A 1 HETATM 4 O OE1 TS5 . . . B 2 42.508 41.025 100.893 1 58.22 ? OE1 TS5 198 A 1 HETATM 5 O OE2 TS5 . . . B 2 42.812 39.876 99.026 1 58.3 ? OE2 TS5 198 A 1 HETATM 6 C CB1 TS5 . . . B 2 39.832 38.775 99.479 1 54.72 ? CB1 TS5 198 A 1 HETATM 7 C CG1 TS5 . . . B 2 39.372 39.881 98.533 1 53.22 ? CG1 TS5 198 A 1 HETATM 8 C CD1 TS5 . . . B 2 38.392 39.379 97.514 1 52.91 ? CD1 TS5 198 A 1 HETATM 9 O O1 TS5 . . . B 2 38.795 38.684 96.589 1 49.42 ? O1 TS5 198 A 1 HETATM 10 N N2 TS5 . . . B 2 37.078 39.719 97.618 1 53.09 ? N2 TS5 198 A 1 HETATM 11 C CA2 TS5 . . . B 2 36.086 39.268 96.628 1 53.59 ? CA2 TS5 198 A 1 HETATM 12 C C2 TS5 . . . B 2 35.835 40.391 95.64 1 53.25 ? C2 TS5 198 A 1 HETATM 13 O O2 TS5 . . . B 2 35.658 41.539 96.045 1 49.04 ? O2 TS5 198 A 1 HETATM 14 C CB2 TS5 . . . B 2 34.779 38.868 97.321 1 55.82 ? CB2 TS5 198 A 1 HETATM 15 S SG2 TS5 . . . B 2 34.851 37.106 97.747 1 58.88 ? SG2 TS5 198 A 1 HETATM 16 N N3 TS5 . . . B 2 35.815 40.111 94.31 1 52.48 ? N3 TS5 198 A 1 HETATM 17 C CA3 TS5 . . . B 2 35.834 41.181 93.302 1 50.88 ? CA3 TS5 198 A 1 HETATM 18 C C3 TS5 . . . B 2 35.811 40.594 91.912 1 49.76 ? C3 TS5 198 A 1 HETATM 19 O O3 TS5 . . . B 2 36.461 39.584 91.669 1 43.42 ? O3 TS5 198 A 1 HETATM 20 N N1' TS5 . . . B 2 35.08 41.211 90.946 1 47.86 ? N1' TS5 198 A 1 HETATM 21 C C1' TS5 . . . B 2 34.807 40.562 89.661 1 52.68 ? C1' TS5 198 A 1 HETATM 22 C C2' TS5 . . . B 2 33.3 40.438 89.465 1 57.52 ? C2' TS5 198 A 1 HETATM 23 N N2' TS5 . . . B 2 31.475 38.856 89.152 1 65.97 ? N2' TS5 198 A 1 HETATM 24 C C3' TS5 . . . B 2 32.922 38.966 89.349 1 61.36 ? C3' TS5 198 A 1 HETATM 25 C C4' TS5 . . . B 2 31.177 37.426 89.045 1 69.52 ? C4' TS5 198 A 1 HETATM 26 C C5' TS5 . . . B 2 29.676 37.231 88.832 1 72.39 ? C5' TS5 198 A 1 HETATM 27 C C6' TS5 . . . B 2 29.372 35.736 88.72 1 74.81 ? C6' TS5 198 A 1 HETATM 28 C C7' TS5 . . . B 2 27.873 35.527 88.505 1 76.19 ? C7' TS5 198 A 1 HETATM 29 N N3' TS5 . . . B 2 27.592 34.089 88.398 1 77.1 ? N3' TS5 198 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 29 #