data_1VBN # _model_server_result.job_id 2ZKAaxVMFfMY0Wwbpdja3Q _model_server_result.datetime_utc '2024-11-01 18:35:43' _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 1vbn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1002}' # _entry.id 1VBN # _exptl.entry_id 1VBN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 509.493 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-O-[N-(L-TYROSYL)SULFAMOYL]ADENOSINE" _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 120 _cell.entry_id 1VBN _cell.length_a 83.627 _cell.length_b 83.627 _cell.length_c 183.49 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VBN _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _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,E,F _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # _chem_comp.formula 'C19 H23 N7 O8 S' _chem_comp.formula_weight 509.493 _chem_comp.id YSA _chem_comp.mon_nstd_flag . _chem_comp.name "5'-O-[N-(L-TYROSYL)SULFAMOYL]ADENOSINE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms TYROSYLADENYLATE # 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 CD1 CE1 YSA doub 376 n y CD1 CG YSA sing 377 n y CD1 HD1 YSA sing 378 n n CE1 CZ YSA sing 379 n y CE1 HE1 YSA sing 380 n n CZ OH YSA sing 381 n n CZ CE2 YSA doub 382 n y OH HOH YSA sing 383 n n CE2 CD2 YSA sing 384 n y CE2 HE2 YSA sing 385 n n CD2 CG YSA doub 386 n y CD2 HD2 YSA sing 387 n n CG CB YSA sing 388 n n CB CA YSA sing 389 n n CB HB1 YSA sing 390 n n CB HB2 YSA sing 391 n n CA N YSA sing 392 n n CA C YSA sing 393 n n CA HA YSA sing 394 n n N HN1 YSA sing 395 n n N HN2 YSA sing 396 n n C O YSA doub 397 n n C NAT YSA sing 398 n n NAT SBI YSA sing 399 n n NAT HAT YSA sing 400 n n SBI OAD YSA doub 401 n n SBI OAE YSA doub 402 n n SBI O5' YSA sing 403 n n O5' C5' YSA sing 404 n n C5' C4' YSA sing 405 n n C5' "H5'1" YSA sing 406 n n C5' "H5'2" YSA sing 407 n n C4' O4' YSA sing 408 n n C4' C3' YSA sing 409 n n C4' H4' YSA sing 410 n n O4' C1' YSA sing 411 n n C3' O3' YSA sing 412 n n C3' C2' YSA sing 413 n n C3' H3' YSA sing 414 n n O3' H3 YSA sing 415 n n C2' O2' YSA sing 416 n n C2' C1' YSA sing 417 n n C2' H2' YSA sing 418 n n O2' H1 YSA sing 419 n n C1' N9 YSA sing 420 n n C1' H1' YSA sing 421 n n N9 C8 YSA sing 422 n y N9 C4 YSA sing 423 n y C8 N7 YSA doub 424 n y C8 H8 YSA sing 425 n n N7 C5 YSA sing 426 n y C5 C4 YSA doub 427 n y C5 C6 YSA sing 428 n y C4 N3 YSA sing 429 n y N3 C2 YSA doub 430 n y C2 N1 YSA sing 431 n y C2 H2 YSA sing 432 n n N1 C6 YSA doub 433 n y C6 N6 YSA sing 434 n n N6 HN61 YSA sing 435 n n N6 HN62 YSA sing 436 n n # _atom_sites.entry_id 1VBN _atom_sites.fract_transf_matrix[1][1] 0.011958 _atom_sites.fract_transf_matrix[1][2] 0.006904 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013808 _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] 0.00545 _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 YSA A 1 1001 1001 YSA YSA . D 2 YSA B 1 1002 1002 YSA YSA . E 3 HOH A 1 1002 2 HOH TIP . E 3 HOH A 2 1003 4 HOH TIP . E 3 HOH A 3 1004 5 HOH TIP . E 3 HOH A 4 1005 6 HOH TIP . E 3 HOH A 5 1006 8 HOH TIP . E 3 HOH A 6 1007 12 HOH TIP . E 3 HOH A 7 1008 14 HOH TIP . E 3 HOH A 8 1009 16 HOH TIP . E 3 HOH A 9 1010 17 HOH TIP . E 3 HOH A 10 1011 19 HOH TIP . E 3 HOH A 11 1012 20 HOH TIP . E 3 HOH A 12 1013 22 HOH TIP . E 3 HOH A 13 1014 25 HOH TIP . E 3 HOH A 14 1015 26 HOH TIP . E 3 HOH A 15 1016 27 HOH TIP . E 3 HOH A 16 1017 28 HOH TIP . E 3 HOH A 17 1018 31 HOH TIP . E 3 HOH A 18 1019 34 HOH TIP . E 3 HOH A 19 1020 37 HOH TIP . E 3 HOH A 20 1021 40 HOH TIP . E 3 HOH A 21 1022 41 HOH TIP . E 3 HOH A 22 1023 43 HOH TIP . E 3 HOH A 23 1024 44 HOH TIP . E 3 HOH A 24 1025 45 HOH TIP . E 3 HOH A 25 1026 46 HOH TIP . E 3 HOH A 26 1027 52 HOH TIP . E 3 HOH A 27 1028 53 HOH TIP . E 3 HOH A 28 1029 54 HOH TIP . E 3 HOH A 29 1030 55 HOH TIP . E 3 HOH A 30 1031 56 HOH TIP . E 3 HOH A 31 1032 57 HOH TIP . E 3 HOH A 32 1033 62 HOH TIP . E 3 HOH A 33 1034 63 HOH TIP . E 3 HOH A 34 1035 64 HOH TIP . E 3 HOH A 35 1036 65 HOH TIP . E 3 HOH A 36 1037 67 HOH TIP . E 3 HOH A 37 1038 68 HOH TIP . E 3 HOH A 38 1039 70 HOH TIP . E 3 HOH A 39 1040 71 HOH TIP . E 3 HOH A 40 1041 73 HOH TIP . E 3 HOH A 41 1042 74 HOH TIP . E 3 HOH A 42 1043 77 HOH TIP . E 3 HOH A 43 1044 79 HOH TIP . E 3 HOH A 44 1045 80 HOH TIP . E 3 HOH A 45 1046 81 HOH TIP . E 3 HOH A 46 1047 84 HOH TIP . E 3 HOH A 47 1048 91 HOH TIP . E 3 HOH A 48 1049 92 HOH TIP . E 3 HOH A 49 1050 95 HOH TIP . E 3 HOH A 50 1051 97 HOH TIP . E 3 HOH A 51 1052 98 HOH TIP . E 3 HOH A 52 1053 99 HOH TIP . E 3 HOH A 53 1054 100 HOH TIP . E 3 HOH A 54 1055 101 HOH TIP . E 3 HOH A 55 1056 105 HOH TIP . E 3 HOH A 56 1057 107 HOH TIP . E 3 HOH A 57 1058 108 HOH TIP . E 3 HOH A 58 1059 110 HOH TIP . E 3 HOH A 59 1060 112 HOH TIP . F 3 HOH B 1 1003 1 HOH TIP . F 3 HOH B 2 1004 3 HOH TIP . F 3 HOH B 3 1005 7 HOH TIP . F 3 HOH B 4 1006 9 HOH TIP . F 3 HOH B 5 1007 10 HOH TIP . F 3 HOH B 6 1008 11 HOH TIP . F 3 HOH B 7 1009 13 HOH TIP . F 3 HOH B 8 1010 15 HOH TIP . F 3 HOH B 9 1011 18 HOH TIP . F 3 HOH B 10 1012 21 HOH TIP . F 3 HOH B 11 1013 23 HOH TIP . F 3 HOH B 12 1014 24 HOH TIP . F 3 HOH B 13 1015 29 HOH TIP . F 3 HOH B 14 1016 30 HOH TIP . F 3 HOH B 15 1017 32 HOH TIP . F 3 HOH B 16 1018 33 HOH TIP . F 3 HOH B 17 1019 35 HOH TIP . F 3 HOH B 18 1020 36 HOH TIP . F 3 HOH B 19 1021 38 HOH TIP . F 3 HOH B 20 1022 39 HOH TIP . F 3 HOH B 21 1023 42 HOH TIP . F 3 HOH B 22 1024 47 HOH TIP . F 3 HOH B 23 1025 48 HOH TIP . F 3 HOH B 24 1026 49 HOH TIP . F 3 HOH B 25 1027 50 HOH TIP . F 3 HOH B 26 1028 51 HOH TIP . F 3 HOH B 27 1029 58 HOH TIP . F 3 HOH B 28 1030 59 HOH TIP . F 3 HOH B 29 1031 60 HOH TIP . F 3 HOH B 30 1032 61 HOH TIP . F 3 HOH B 31 1033 66 HOH TIP . F 3 HOH B 32 1034 69 HOH TIP . F 3 HOH B 33 1035 72 HOH TIP . F 3 HOH B 34 1036 75 HOH TIP . F 3 HOH B 35 1037 76 HOH TIP . F 3 HOH B 36 1038 78 HOH TIP . F 3 HOH B 37 1039 82 HOH TIP . F 3 HOH B 38 1040 83 HOH TIP . F 3 HOH B 39 1041 85 HOH TIP . F 3 HOH B 40 1042 86 HOH TIP . F 3 HOH B 41 1043 87 HOH TIP . F 3 HOH B 42 1044 88 HOH TIP . F 3 HOH B 43 1045 89 HOH TIP . F 3 HOH B 44 1046 90 HOH TIP . F 3 HOH B 45 1047 93 HOH TIP . F 3 HOH B 46 1048 94 HOH TIP . F 3 HOH B 47 1049 96 HOH TIP . F 3 HOH B 48 1050 102 HOH TIP . F 3 HOH B 49 1051 103 HOH TIP . F 3 HOH B 50 1052 104 HOH TIP . F 3 HOH B 51 1053 106 HOH TIP . F 3 HOH B 52 1054 109 HOH TIP . F 3 HOH B 53 1055 111 HOH TIP . F 3 HOH B 54 1056 113 HOH TIP . F 3 HOH B 55 1057 114 HOH TIP . F 3 HOH B 56 1058 115 HOH TIP . # 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 CD1 YSA . . . D 2 113.759 -7.068 153.839 1 42.13 ? CD1 YSA 1002 B 1 HETATM 2 C CE1 YSA . . . D 2 114.293 -5.786 153.747 1 42.67 ? CE1 YSA 1002 B 1 HETATM 3 C CZ YSA . . . D 2 113.94 -4.958 152.686 1 44.72 ? CZ YSA 1002 B 1 HETATM 4 O OH YSA . . . D 2 114.488 -3.719 152.576 1 48.33 ? OH YSA 1002 B 1 HETATM 5 C CE2 YSA . . . D 2 113.046 -5.413 151.719 1 46.74 ? CE2 YSA 1002 B 1 HETATM 6 C CD2 YSA . . . D 2 112.515 -6.696 151.811 1 46.12 ? CD2 YSA 1002 B 1 HETATM 7 C CG YSA . . . D 2 112.872 -7.527 152.87 1 42.27 ? CG YSA 1002 B 1 HETATM 8 C CB YSA . . . D 2 112.347 -8.963 152.939 1 38.71 ? CB YSA 1002 B 1 HETATM 9 C CA YSA . . . D 2 110.858 -9.051 153.285 1 35.67 ? CA YSA 1002 B 1 HETATM 10 N N YSA . . . D 2 110.61 -8.472 154.613 1 35.82 ? N YSA 1002 B 1 HETATM 11 C C YSA . . . D 2 110.439 -10.522 153.298 1 39.57 ? C YSA 1002 B 1 HETATM 12 O O YSA . . . D 2 109.853 -10.998 154.269 1 43.25 ? O YSA 1002 B 1 HETATM 13 N NAT YSA . . . D 2 110.775 -11.206 152.206 1 45.18 ? NAT YSA 1002 B 1 HETATM 14 S SBI YSA . . . D 2 110.426 -12.787 152.007 1 31.7 ? SBI YSA 1002 B 1 HETATM 15 O OAD YSA . . . D 2 108.942 -12.994 152.075 1 30.26 ? OAD YSA 1002 B 1 HETATM 16 O OAE YSA . . . D 2 111.104 -13.605 153.066 1 34.89 ? OAE YSA 1002 B 1 HETATM 17 O O5' YSA . . . D 2 110.953 -13.22 150.672 1 31.49 ? O5' YSA 1002 B 1 HETATM 18 C C5' YSA . . . D 2 110.078 -13.48 149.574 1 35.19 ? C5' YSA 1002 B 1 HETATM 19 C C4' YSA . . . D 2 109.933 -12.273 148.643 1 32.25 ? C4' YSA 1002 B 1 HETATM 20 O O4' YSA . . . D 2 109.277 -12.703 147.439 1 42.14 ? O4' YSA 1002 B 1 HETATM 21 C C3' YSA . . . D 2 109.017 -11.179 149.193 1 32.69 ? C3' YSA 1002 B 1 HETATM 22 O O3' YSA . . . D 2 109.116 -10.008 148.376 1 23.14 ? O3' YSA 1002 B 1 HETATM 23 C C2' YSA . . . D 2 107.665 -11.864 148.989 1 36.72 ? C2' YSA 1002 B 1 HETATM 24 O O2' YSA . . . D 2 106.615 -10.899 148.882 1 33.75 ? O2' YSA 1002 B 1 HETATM 25 C C1' YSA . . . D 2 107.86 -12.522 147.621 1 39.81 ? C1' YSA 1002 B 1 HETATM 26 N N9 YSA . . . D 2 107.118 -13.802 147.545 1 38.99 ? N9 YSA 1002 B 1 HETATM 27 C C8 YSA . . . D 2 107.12 -14.769 148.461 1 28.99 ? C8 YSA 1002 B 1 HETATM 28 N N7 YSA . . . D 2 106.334 -15.765 148.063 1 32.44 ? N7 YSA 1002 B 1 HETATM 29 C C5 YSA . . . D 2 105.823 -15.432 146.881 1 31 ? C5 YSA 1002 B 1 HETATM 30 C C4 YSA . . . D 2 106.323 -14.181 146.547 1 34.62 ? C4 YSA 1002 B 1 HETATM 31 N N3 YSA . . . D 2 105.96 -13.614 145.387 1 38.18 ? N3 YSA 1002 B 1 HETATM 32 C C2 YSA . . . D 2 105.131 -14.226 144.557 1 40.49 ? C2 YSA 1002 B 1 HETATM 33 N N1 YSA . . . D 2 104.638 -15.419 144.845 1 41.02 ? N1 YSA 1002 B 1 HETATM 34 C C6 YSA . . . D 2 104.959 -16.049 145.985 1 30.37 ? C6 YSA 1002 B 1 HETATM 35 N N6 YSA . . . D 2 104.475 -17.259 146.246 1 29.93 ? N6 YSA 1002 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 365 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 35 #