data_5V7P # _model_server_result.job_id QfFfWVo_9xEtTHD-dvawqg _model_server_result.datetime_utc '2025-01-09 02:34:53' _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 5v7p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 5V7P # _exptl.entry_id 5V7P _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYL-L-HOMOCYSTEINE _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 5V7P _cell.length_a 40.554 _cell.length_b 87.691 _cell.length_c 147.681 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5V7P _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA _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 # _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 '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 372 n n N HN1 SAH sing 373 n n N HN2 SAH sing 374 n n CA CB SAH sing 375 n n CA C SAH sing 376 n n CA HA SAH sing 377 n n CB CG SAH sing 378 n n CB HB1 SAH sing 379 n n CB HB2 SAH sing 380 n n CG SD SAH sing 381 n n CG HG1 SAH sing 382 n n CG HG2 SAH sing 383 n n SD C5' SAH sing 384 n n C O SAH doub 385 n n C OXT SAH sing 386 n n OXT HXT SAH sing 387 n n C5' C4' SAH sing 388 n n C5' "H5'1" SAH sing 389 n n C5' "H5'2" SAH sing 390 n n C4' O4' SAH sing 391 n n C4' C3' SAH sing 392 n n C4' H4' SAH sing 393 n n O4' C1' SAH sing 394 n n C3' O3' SAH sing 395 n n C3' C2' SAH sing 396 n n C3' H3' SAH sing 397 n n O3' HO3' SAH sing 398 n n C2' O2' SAH sing 399 n n C2' C1' SAH sing 400 n n C2' H2' SAH sing 401 n n O2' HO2' SAH sing 402 n n C1' N9 SAH sing 403 n n C1' H1' SAH sing 404 n n N9 C8 SAH sing 405 n y N9 C4 SAH sing 406 n y C8 N7 SAH doub 407 n y C8 H8 SAH sing 408 n n N7 C5 SAH sing 409 n y C5 C6 SAH sing 410 n y C5 C4 SAH doub 411 n y C6 N6 SAH sing 412 n n C6 N1 SAH doub 413 n y N6 HN61 SAH sing 414 n n N6 HN62 SAH sing 415 n n N1 C2 SAH sing 416 n y C2 N3 SAH doub 417 n y C2 H2 SAH sing 418 n n N3 C4 SAH sing 419 n y # _atom_sites.entry_id 5V7P _atom_sites.fract_transf_matrix[1][1] 0.024658 _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] 0.011404 _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] 0.006771 _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 3 SAH A 1 301 1 SAH SAH . D 4 UND A 1 302 13 UND UND . E 4 UND A 1 303 14 UND UND . F 5 D10 A 1 304 16 D10 UND . G 5 D10 A 1 305 17 D10 UND . H 5 D10 A 1 306 18 D10 UND . I 5 D10 A 1 307 19 D10 UND . J 5 D10 A 1 308 20 D10 UND . K 4 UND A 1 309 21 UND UND . L 5 D10 A 1 310 22 D10 UND . M 5 D10 A 1 311 23 D10 UND . N 5 D10 A 1 312 25 D10 UND . O 5 D10 A 1 313 26 D10 UND . P 5 D10 A 1 314 27 D10 UND . Q 5 D10 A 1 315 28 D10 UND . R 6 MPG A 1 316 101 MPG MPG . S 6 MPG A 1 317 104 MPG MPG . T 6 MPG A 1 318 106 MPG MPG . U 6 MPG A 1 319 107 MPG MPG . V 6 MPG A 1 320 108 MPG MPG . W 6 MPG A 1 321 109 MPG MPG . X 6 MPG A 1 322 110 MPG MPG . Y 6 MPG A 1 323 111 MPG MPG . Z 6 MPG A 1 324 112 MPG MPG . AA 6 MPG A 1 325 200 MPG MPG . BA 7 HOH A 1 401 10 HOH HOH . BA 7 HOH A 2 402 7 HOH HOH . BA 7 HOH A 3 403 21 HOH HOH . BA 7 HOH A 4 404 57 HOH HOH . BA 7 HOH A 5 405 33 HOH HOH . BA 7 HOH A 6 406 56 HOH HOH . BA 7 HOH A 7 407 119 HOH HOH . BA 7 HOH A 8 408 82 HOH HOH . BA 7 HOH A 9 409 90 HOH HOH . BA 7 HOH A 10 410 40 HOH HOH . BA 7 HOH A 11 411 27 HOH HOH . BA 7 HOH A 12 412 106 HOH HOH . BA 7 HOH A 13 413 35 HOH HOH . BA 7 HOH A 14 414 37 HOH HOH . BA 7 HOH A 15 415 6 HOH HOH . BA 7 HOH A 16 416 2 HOH HOH . BA 7 HOH A 17 417 5 HOH HOH . BA 7 HOH A 18 418 28 HOH HOH . BA 7 HOH A 19 419 13 HOH HOH . BA 7 HOH A 20 420 19 HOH HOH . BA 7 HOH A 21 421 61 HOH HOH . BA 7 HOH A 22 422 130 HOH HOH . BA 7 HOH A 23 423 63 HOH HOH . BA 7 HOH A 24 424 17 HOH HOH . BA 7 HOH A 25 425 3 HOH HOH . BA 7 HOH A 26 426 131 HOH HOH . BA 7 HOH A 27 427 36 HOH HOH . BA 7 HOH A 28 428 41 HOH HOH . BA 7 HOH A 29 429 73 HOH HOH . BA 7 HOH A 30 430 9 HOH HOH . BA 7 HOH A 31 431 104 HOH HOH . BA 7 HOH A 32 432 45 HOH HOH . BA 7 HOH A 33 433 94 HOH HOH . BA 7 HOH A 34 434 55 HOH HOH . BA 7 HOH A 35 435 60 HOH HOH . BA 7 HOH A 36 436 123 HOH HOH . BA 7 HOH A 37 437 4 HOH HOH . BA 7 HOH A 38 438 50 HOH HOH . BA 7 HOH A 39 439 84 HOH HOH . BA 7 HOH A 40 440 44 HOH HOH . BA 7 HOH A 41 441 102 HOH HOH . BA 7 HOH A 42 442 136 HOH HOH . BA 7 HOH A 43 443 134 HOH HOH . BA 7 HOH A 44 444 135 HOH HOH . BA 7 HOH A 45 445 95 HOH HOH . BA 7 HOH A 46 446 42 HOH HOH . BA 7 HOH A 47 447 39 HOH HOH . BA 7 HOH A 48 448 141 HOH HOH . BA 7 HOH A 49 449 93 HOH HOH . BA 7 HOH A 50 450 107 HOH HOH . BA 7 HOH A 51 451 100 HOH HOH . CA 7 HOH D 1 101 11 HOH HOH . CA 7 HOH D 2 102 128 HOH HOH . CA 7 HOH D 3 103 23 HOH HOH . CA 7 HOH D 4 104 25 HOH HOH . CA 7 HOH D 5 105 32 HOH HOH . CA 7 HOH D 6 106 66 HOH HOH . CA 7 HOH D 7 107 116 HOH HOH . CA 7 HOH D 8 108 72 HOH HOH . CA 7 HOH D 9 109 109 HOH HOH . CA 7 HOH D 10 110 22 HOH HOH . CA 7 HOH D 11 111 115 HOH HOH . CA 7 HOH D 12 112 101 HOH HOH . CA 7 HOH D 13 113 12 HOH HOH . CA 7 HOH D 14 114 140 HOH HOH . CA 7 HOH D 15 115 74 HOH HOH . CA 7 HOH D 16 116 24 HOH HOH . CA 7 HOH D 17 117 70 HOH HOH . CA 7 HOH D 18 118 86 HOH HOH . CA 7 HOH D 19 119 124 HOH HOH . CA 7 HOH D 20 120 1 HOH HOH . CA 7 HOH D 21 121 121 HOH HOH . CA 7 HOH D 22 122 46 HOH HOH . CA 7 HOH D 23 123 67 HOH HOH . CA 7 HOH D 24 124 47 HOH HOH . CA 7 HOH D 25 125 26 HOH HOH . CA 7 HOH D 26 126 8 HOH HOH . CA 7 HOH D 27 127 62 HOH HOH . CA 7 HOH D 28 128 137 HOH HOH . CA 7 HOH D 29 129 18 HOH HOH . CA 7 HOH D 30 130 14 HOH HOH . CA 7 HOH D 31 131 139 HOH HOH . CA 7 HOH D 32 132 132 HOH HOH . CA 7 HOH D 33 133 111 HOH HOH . CA 7 HOH D 34 134 16 HOH HOH . CA 7 HOH D 35 135 129 HOH HOH . CA 7 HOH D 36 136 98 HOH HOH . CA 7 HOH D 37 137 58 HOH HOH . CA 7 HOH D 38 138 76 HOH HOH . CA 7 HOH D 39 139 138 HOH HOH . CA 7 HOH D 40 140 96 HOH HOH . CA 7 HOH D 41 141 127 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 . . . C 3 27.794 45.532 60.558 1 23.78 ? N SAH 301 A 1 HETATM 2 C CA SAH . . . C 3 26.634 46.383 60.329 1 22.99 ? CA SAH 301 A 1 HETATM 3 C CB SAH . . . C 3 26.848 47.755 60.958 1 24.15 ? CB SAH 301 A 1 HETATM 4 C CG SAH . . . C 3 28.17 48.423 60.593 1 24.19 ? CG SAH 301 A 1 HETATM 5 S SD SAH . . . C 3 28.445 49.917 61.582 1 21.82 ? SD SAH 301 A 1 HETATM 6 C C SAH . . . C 3 26.35 46.529 58.836 1 28.54 ? C SAH 301 A 1 HETATM 7 O O SAH . . . C 3 27.188 46.202 57.994 1 18.1 ? O SAH 301 A 1 HETATM 8 O OXT SAH . . . C 3 25.277 46.978 58.431 1 15.91 ? OXT SAH 301 A 1 HETATM 9 C C5' SAH . . . C 3 29.286 49.051 62.939 1 20.06 ? C5' SAH 301 A 1 HETATM 10 C C4' SAH . . . C 3 28.573 49.184 64.279 1 23.38 ? C4' SAH 301 A 1 HETATM 11 O O4' SAH . . . C 3 27.231 48.758 64.16 1 27.18 ? O4' SAH 301 A 1 HETATM 12 C C3' SAH . . . C 3 29.24 48.305 65.327 1 33.18 ? C3' SAH 301 A 1 HETATM 13 O O3' SAH . . . C 3 29.684 49.081 66.416 1 27.33 ? O3' SAH 301 A 1 HETATM 14 C C2' SAH . . . C 3 28.185 47.309 65.762 1 28.37 ? C2' SAH 301 A 1 HETATM 15 O O2' SAH . . . C 3 28.157 47.175 67.165 1 23.51 ? O2' SAH 301 A 1 HETATM 16 C C1' SAH . . . C 3 26.88 47.878 65.211 1 27.19 ? C1' SAH 301 A 1 HETATM 17 N N9 SAH . . . C 3 25.95 46.846 64.708 1 22.96 ? N9 SAH 301 A 1 HETATM 18 C C8 SAH . . . C 3 26.23 45.803 63.864 1 25.75 ? C8 SAH 301 A 1 HETATM 19 N N7 SAH . . . C 3 25.095 45.104 63.641 1 22.18 ? N7 SAH 301 A 1 HETATM 20 C C5 SAH . . . C 3 24.092 45.689 64.328 1 21.39 ? C5 SAH 301 A 1 HETATM 21 C C6 SAH . . . C 3 22.745 45.385 64.453 1 20.5 ? C6 SAH 301 A 1 HETATM 22 N N6 SAH . . . C 3 22.222 44.339 63.82 1 20.73 ? N6 SAH 301 A 1 HETATM 23 N N1 SAH . . . C 3 21.951 46.183 65.245 1 18.5 ? N1 SAH 301 A 1 HETATM 24 C C2 SAH . . . C 3 22.487 47.268 65.904 1 21.16 ? C2 SAH 301 A 1 HETATM 25 N N3 SAH . . . C 3 23.826 47.562 65.775 1 15.84 ? N3 SAH 301 A 1 HETATM 26 C C4 SAH . . . C 3 24.614 46.784 65 1 20.18 ? C4 SAH 301 A 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 257 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 26 #