data_7PGA # _model_server_result.job_id QfhWEgkVHhjW0XktqlSEsA _model_server_result.datetime_utc '2024-11-24 12:02:47' _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 7pga # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":401}' # _entry.id 7PGA # _exptl.entry_id 7PGA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYL-L-HOMOCYSTEINE _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 98.23 _cell.angle_gamma 90 _cell.entry_id 7PGA _cell.length_a 60.47 _cell.length_b 102.64 _cell.length_c 121.85 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7PGA _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,B,E,F,G,H,M,N 1 1 C,D,I,J,K,L,O,P 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 ? 2 E N N ? 2 G N N ? 2 I N N ? 2 K N N # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag n _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _chem_comp.type 'l-peptide linking' _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 N CA SAH sing 277 n n N HN1 SAH sing 278 n n N HN2 SAH sing 279 n n CA CB SAH sing 280 n n CA C SAH sing 281 n n CA HA SAH sing 282 n n CB CG SAH sing 283 n n CB HB1 SAH sing 284 n n CB HB2 SAH sing 285 n n CG SD SAH sing 286 n n CG HG1 SAH sing 287 n n CG HG2 SAH sing 288 n n SD C5' SAH sing 289 n n C O SAH doub 290 n n C OXT SAH sing 291 n n OXT HXT SAH sing 292 n n C5' C4' SAH sing 293 n n C5' "H5'1" SAH sing 294 n n C5' "H5'2" SAH sing 295 n n C4' O4' SAH sing 296 n n C4' C3' SAH sing 297 n n C4' H4' SAH sing 298 n n O4' C1' SAH sing 299 n n C3' O3' SAH sing 300 n n C3' C2' SAH sing 301 n n C3' H3' SAH sing 302 n n O3' HO3' SAH sing 303 n n C2' O2' SAH sing 304 n n C2' C1' SAH sing 305 n n C2' H2' SAH sing 306 n n O2' HO2' SAH sing 307 n n C1' N9 SAH sing 308 n n C1' H1' SAH sing 309 n n N9 C8 SAH sing 310 n y N9 C4 SAH sing 311 n y C8 N7 SAH doub 312 n y C8 H8 SAH sing 313 n n N7 C5 SAH sing 314 n y C5 C6 SAH sing 315 n y C5 C4 SAH doub 316 n y C6 N6 SAH sing 317 n n C6 N1 SAH doub 318 n y N6 HN61 SAH sing 319 n n N6 HN62 SAH sing 320 n n N1 C2 SAH sing 321 n y C2 N3 SAH doub 322 n y C2 H2 SAH sing 323 n n N3 C4 SAH sing 324 n y # _atom_sites.entry_id 7PGA _atom_sites.fract_transf_matrix[1][1] 0.016537 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002392 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009743 _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] 0.008292 _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 E 2 SAH A 1 401 401 SAH SAH . F 3 VAK A 1 402 402 VAK VAK . G 2 SAH B 1 401 401 SAH SAH . H 3 VAK B 1 402 402 VAK VAK . I 2 SAH C 1 401 401 SAH SAH . J 3 VAK C 1 402 402 VAK VAK . K 2 SAH D 1 401 401 SAH SAH . L 3 VAK D 1 402 402 VAK VAK . M 4 HOH A 1 501 150 HOH HOH . M 4 HOH A 2 502 79 HOH HOH . M 4 HOH A 3 503 2 HOH HOH . M 4 HOH A 4 504 28 HOH HOH . M 4 HOH A 5 505 95 HOH HOH . M 4 HOH A 6 506 7 HOH HOH . M 4 HOH A 7 507 72 HOH HOH . M 4 HOH A 8 508 50 HOH HOH . M 4 HOH A 9 509 89 HOH HOH . M 4 HOH A 10 510 5 HOH HOH . M 4 HOH A 11 511 68 HOH HOH . M 4 HOH A 12 512 4 HOH HOH . M 4 HOH A 13 513 148 HOH HOH . M 4 HOH A 14 514 105 HOH HOH . M 4 HOH A 15 515 25 HOH HOH . M 4 HOH A 16 516 54 HOH HOH . M 4 HOH A 17 517 18 HOH HOH . M 4 HOH A 18 518 6 HOH HOH . M 4 HOH A 19 519 125 HOH HOH . M 4 HOH A 20 520 136 HOH HOH . M 4 HOH A 21 521 3 HOH HOH . M 4 HOH A 22 522 13 HOH HOH . M 4 HOH A 23 523 74 HOH HOH . M 4 HOH A 24 524 111 HOH HOH . M 4 HOH A 25 525 126 HOH HOH . M 4 HOH A 26 526 51 HOH HOH . M 4 HOH A 27 527 85 HOH HOH . M 4 HOH A 28 528 141 HOH HOH . M 4 HOH A 29 529 15 HOH HOH . M 4 HOH A 30 530 117 HOH HOH . M 4 HOH A 31 531 109 HOH HOH . M 4 HOH A 32 532 1 HOH HOH . M 4 HOH A 33 533 91 HOH HOH . M 4 HOH A 34 534 69 HOH HOH . M 4 HOH A 35 535 118 HOH HOH . M 4 HOH A 36 536 73 HOH HOH . M 4 HOH A 37 537 81 HOH HOH . M 4 HOH A 38 538 115 HOH HOH . M 4 HOH A 39 539 144 HOH HOH . M 4 HOH A 40 540 120 HOH HOH . M 4 HOH A 41 541 46 HOH HOH . M 4 HOH A 42 542 80 HOH HOH . M 4 HOH A 43 543 75 HOH HOH . N 4 HOH B 1 501 63 HOH HOH . N 4 HOH B 2 502 53 HOH HOH . N 4 HOH B 3 503 149 HOH HOH . N 4 HOH B 4 504 38 HOH HOH . N 4 HOH B 5 505 8 HOH HOH . N 4 HOH B 6 506 110 HOH HOH . N 4 HOH B 7 507 88 HOH HOH . N 4 HOH B 8 508 97 HOH HOH . N 4 HOH B 9 509 135 HOH HOH . N 4 HOH B 10 510 100 HOH HOH . N 4 HOH B 11 511 44 HOH HOH . N 4 HOH B 12 512 82 HOH HOH . N 4 HOH B 13 513 130 HOH HOH . N 4 HOH B 14 514 107 HOH HOH . N 4 HOH B 15 515 56 HOH HOH . N 4 HOH B 16 516 16 HOH HOH . N 4 HOH B 17 517 70 HOH HOH . N 4 HOH B 18 518 129 HOH HOH . N 4 HOH B 19 519 86 HOH HOH . N 4 HOH B 20 520 14 HOH HOH . N 4 HOH B 21 521 124 HOH HOH . N 4 HOH B 22 522 76 HOH HOH . N 4 HOH B 23 523 145 HOH HOH . N 4 HOH B 24 524 98 HOH HOH . N 4 HOH B 25 525 143 HOH HOH . N 4 HOH B 26 526 77 HOH HOH . N 4 HOH B 27 527 71 HOH HOH . N 4 HOH B 28 528 112 HOH HOH . N 4 HOH B 29 529 47 HOH HOH . N 4 HOH B 30 530 140 HOH HOH . N 4 HOH B 31 531 108 HOH HOH . N 4 HOH B 32 532 151 HOH HOH . N 4 HOH B 33 533 106 HOH HOH . N 4 HOH B 34 534 139 HOH HOH . N 4 HOH B 35 535 134 HOH HOH . N 4 HOH B 36 536 87 HOH HOH . N 4 HOH B 37 537 84 HOH HOH . N 4 HOH B 38 538 62 HOH HOH . N 4 HOH B 39 539 59 HOH HOH . O 4 HOH C 1 501 48 HOH HOH . O 4 HOH C 2 502 34 HOH HOH . O 4 HOH C 3 503 119 HOH HOH . O 4 HOH C 4 504 11 HOH HOH . O 4 HOH C 5 505 19 HOH HOH . O 4 HOH C 6 506 49 HOH HOH . O 4 HOH C 7 507 10 HOH HOH . O 4 HOH C 8 508 96 HOH HOH . O 4 HOH C 9 509 23 HOH HOH . O 4 HOH C 10 510 9 HOH HOH . O 4 HOH C 11 511 20 HOH HOH . O 4 HOH C 12 512 83 HOH HOH . O 4 HOH C 13 513 132 HOH HOH . O 4 HOH C 14 514 131 HOH HOH . O 4 HOH C 15 515 39 HOH HOH . O 4 HOH C 16 516 137 HOH HOH . O 4 HOH C 17 517 43 HOH HOH . O 4 HOH C 18 518 78 HOH HOH . O 4 HOH C 19 519 31 HOH HOH . O 4 HOH C 20 520 17 HOH HOH . O 4 HOH C 21 521 64 HOH HOH . O 4 HOH C 22 522 67 HOH HOH . O 4 HOH C 23 523 94 HOH HOH . O 4 HOH C 24 524 114 HOH HOH . O 4 HOH C 25 525 90 HOH HOH . P 4 HOH D 1 501 61 HOH HOH . P 4 HOH D 2 502 52 HOH HOH . P 4 HOH D 3 503 27 HOH HOH . P 4 HOH D 4 504 33 HOH HOH . P 4 HOH D 5 505 40 HOH HOH . P 4 HOH D 6 506 60 HOH HOH . P 4 HOH D 7 507 29 HOH HOH . P 4 HOH D 8 508 142 HOH HOH . P 4 HOH D 9 509 55 HOH HOH . P 4 HOH D 10 510 12 HOH HOH . P 4 HOH D 11 511 22 HOH HOH . P 4 HOH D 12 512 37 HOH HOH . P 4 HOH D 13 513 41 HOH HOH . P 4 HOH D 14 514 127 HOH HOH . P 4 HOH D 15 515 35 HOH HOH . P 4 HOH D 16 516 32 HOH HOH . P 4 HOH D 17 517 45 HOH HOH . P 4 HOH D 18 518 123 HOH HOH . P 4 HOH D 19 519 57 HOH HOH . P 4 HOH D 20 520 36 HOH HOH . P 4 HOH D 21 521 58 HOH HOH . P 4 HOH D 22 522 113 HOH HOH . P 4 HOH D 23 523 102 HOH HOH . P 4 HOH D 24 524 133 HOH HOH . P 4 HOH D 25 525 92 HOH HOH . P 4 HOH D 26 526 26 HOH HOH . P 4 HOH D 27 527 103 HOH HOH . P 4 HOH D 28 528 93 HOH HOH . P 4 HOH D 29 529 30 HOH HOH . P 4 HOH D 30 530 146 HOH HOH . P 4 HOH D 31 531 101 HOH HOH . P 4 HOH D 32 532 122 HOH HOH . P 4 HOH D 33 533 65 HOH HOH . P 4 HOH D 34 534 121 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 SAH . . . K 2 -10.782 27.913 48.86 1 16.18 ? N SAH 401 D 1 HETATM 2 C CA SAH . . . K 2 -11.141 29.321 48.739 1 23.02 ? CA SAH 401 D 1 HETATM 3 C CB SAH . . . K 2 -10.379 30.158 49.761 1 20.86 ? CB SAH 401 D 1 HETATM 4 C CG SAH . . . K 2 -8.865 29.977 49.758 1 15.75 ? CG SAH 401 D 1 HETATM 5 S SD SAH . . . K 2 -8.016 31.294 50.666 1 18.36 ? SD SAH 401 D 1 HETATM 6 C C SAH . . . K 2 -10.878 29.852 47.33 1 27.73 ? C SAH 401 D 1 HETATM 7 O O SAH . . . K 2 -11.409 30.894 46.937 1 17.06 ? O SAH 401 D 1 HETATM 8 O OXT SAH . . . K 2 -10.131 29.249 46.555 1 23.33 ? OXT SAH 401 D 1 HETATM 9 C C5' SAH . . . K 2 -7.404 30.106 51.892 1 16.27 ? C5' SAH 401 D 1 HETATM 10 C C4' SAH . . . K 2 -8.442 29.83 52.976 1 13.85 ? C4' SAH 401 D 1 HETATM 11 O O4' SAH . . . K 2 -7.97 28.895 53.927 1 19.5 ? O4' SAH 401 D 1 HETATM 12 C C3' SAH . . . K 2 -8.803 31.088 53.749 1 12.33 ? C3' SAH 401 D 1 HETATM 13 O O3' SAH . . . K 2 -10.147 31.412 53.486 1 12.88 ? O3' SAH 401 D 1 HETATM 14 C C2' SAH . . . K 2 -8.633 30.735 55.212 1 14.16 ? C2' SAH 401 D 1 HETATM 15 O O2' SAH . . . K 2 -9.762 31.132 55.952 1 16.23 ? O2' SAH 401 D 1 HETATM 16 C C1' SAH . . . K 2 -8.508 29.223 55.195 1 17.98 ? C1' SAH 401 D 1 HETATM 17 N N9 SAH . . . K 2 -7.686 28.686 56.299 1 15.01 ? N9 SAH 401 D 1 HETATM 18 C C8 SAH . . . K 2 -6.417 29.056 56.661 1 13.7 ? C8 SAH 401 D 1 HETATM 19 N N7 SAH . . . K 2 -6.038 28.306 57.722 1 13.57 ? N7 SAH 401 D 1 HETATM 20 C C5 SAH . . . K 2 -7.046 27.468 58.048 1 12.94 ? C5 SAH 401 D 1 HETATM 21 C C6 SAH . . . K 2 -7.184 26.499 59.034 1 13.08 ? C6 SAH 401 D 1 HETATM 22 N N6 SAH . . . K 2 -6.196 26.264 59.892 1 10.62 ? N6 SAH 401 D 1 HETATM 23 N N1 SAH . . . K 2 -8.356 25.779 59.121 1 18.02 ? N1 SAH 401 D 1 HETATM 24 C C2 SAH . . . K 2 -9.382 26.023 58.231 1 16.91 ? C2 SAH 401 D 1 HETATM 25 N N3 SAH . . . K 2 -9.234 26.984 57.251 1 15.91 ? N3 SAH 401 D 1 HETATM 26 C C4 SAH . . . K 2 -8.087 27.699 57.162 1 14.56 ? C4 SAH 401 D 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 45 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 26 #