data_3IVA # _model_server_result.job_id kN2bAeeKURrK2U5bhNxZ3g _model_server_result.datetime_utc '2024-11-27 06:48:01' _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 3iva # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1401}' # _entry.id 3IVA # _exptl.entry_id 3IVA _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 3IVA _cell.length_a 107.006 _cell.length_b 107.006 _cell.length_c 141.185 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3IVA _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 42 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 690 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 95 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 743 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_PDB_id ? _struct_conn.pdbx_dist_value 2.032 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _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 N CA SAH sing 470 n n N HN1 SAH sing 471 n n N HN2 SAH sing 472 n n CA CB SAH sing 473 n n CA C SAH sing 474 n n CA HA SAH sing 475 n n CB CG SAH sing 476 n n CB HB1 SAH sing 477 n n CB HB2 SAH sing 478 n n CG SD SAH sing 479 n n CG HG1 SAH sing 480 n n CG HG2 SAH sing 481 n n SD C5' SAH sing 482 n n C O SAH doub 483 n n C OXT SAH sing 484 n n OXT HXT SAH sing 485 n n C5' C4' SAH sing 486 n n C5' "H5'1" SAH sing 487 n n C5' "H5'2" SAH sing 488 n n C4' O4' SAH sing 489 n n C4' C3' SAH sing 490 n n C4' H4' SAH sing 491 n n O4' C1' SAH sing 492 n n C3' O3' SAH sing 493 n n C3' C2' SAH sing 494 n n C3' H3' SAH sing 495 n n O3' HO3' SAH sing 496 n n C2' O2' SAH sing 497 n n C2' C1' SAH sing 498 n n C2' H2' SAH sing 499 n n O2' HO2' SAH sing 500 n n C1' N9 SAH sing 501 n n C1' H1' SAH sing 502 n n N9 C8 SAH sing 503 n y N9 C4 SAH sing 504 n y C8 N7 SAH doub 505 n y C8 H8 SAH sing 506 n n N7 C5 SAH sing 507 n y C5 C6 SAH sing 508 n y C5 C4 SAH doub 509 n y C6 N6 SAH sing 510 n n C6 N1 SAH doub 511 n y N6 HN61 SAH sing 512 n n N6 HN62 SAH sing 513 n n N1 C2 SAH sing 514 n y C2 N3 SAH doub 515 n y C2 H2 SAH sing 516 n n N3 C4 SAH sing 517 n y # _atom_sites.entry_id 3IVA _atom_sites.fract_transf_matrix[1][1] 0.009345 _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] 0.009345 _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] 0.007083 _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 B12 A 1 1301 1301 B12 B12 . C 3 SAH A 1 1401 1401 SAH SAH . D 4 NO3 A 1 1303 1303 NO3 NO3 . E 4 NO3 A 1 1304 1304 NO3 NO3 . F 4 NO3 A 1 1305 1305 NO3 NO3 . G 4 NO3 A 1 1306 1306 NO3 NO3 . H 5 HOH A 1 1310 1310 HOH WAT . H 5 HOH A 2 1311 1311 HOH WAT . H 5 HOH A 3 1313 1313 HOH WAT . H 5 HOH A 4 1315 1315 HOH WAT . H 5 HOH A 5 1316 1316 HOH WAT . H 5 HOH A 6 1319 1319 HOH WAT . H 5 HOH A 7 1321 1321 HOH WAT . H 5 HOH A 8 1324 1324 HOH WAT . H 5 HOH A 9 1325 1325 HOH WAT . H 5 HOH A 10 1329 1329 HOH WAT . H 5 HOH A 11 1330 1330 HOH WAT . H 5 HOH A 12 1331 1331 HOH WAT . H 5 HOH A 13 1332 1332 HOH WAT . H 5 HOH A 14 1333 1333 HOH WAT . H 5 HOH A 15 1335 1335 HOH WAT . H 5 HOH A 16 1337 1337 HOH WAT . H 5 HOH A 17 1339 1339 HOH WAT . H 5 HOH A 18 1342 1342 HOH WAT . H 5 HOH A 19 1354 1354 HOH WAT . H 5 HOH A 20 1358 1358 HOH WAT . H 5 HOH A 21 1368 1368 HOH WAT . H 5 HOH A 22 1373 1373 HOH WAT . H 5 HOH A 23 1378 1378 HOH WAT . H 5 HOH A 24 1385 1385 HOH WAT . H 5 HOH A 25 1389 1389 HOH WAT . H 5 HOH A 26 1390 1390 HOH WAT . # 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 71.047 5.793 54.463 1 115.85 ? N SAH 1401 A 1 HETATM 2 C CA SAH . . . C 3 70.304 6.442 53.373 1 116.18 ? CA SAH 1401 A 1 HETATM 3 C CB SAH . . . C 3 70.503 7.957 53.454 1 116.42 ? CB SAH 1401 A 1 HETATM 4 C CG SAH . . . C 3 69.733 8.674 52.342 1 116.79 ? CG SAH 1401 A 1 HETATM 5 S SD SAH . . . C 3 67.919 8.473 52.477 1 117.75 ? SD SAH 1401 A 1 HETATM 6 C C SAH . . . C 3 70.83 5.933 52.029 1 115.79 ? C SAH 1401 A 1 HETATM 7 O O SAH . . . C 3 72.049 5.668 51.963 1 115.49 ? O SAH 1401 A 1 HETATM 8 O OXT SAH . . . C 3 70.001 5.826 51.099 1 115.69 ? OXT SAH 1401 A 1 HETATM 9 C C5' SAH . . . C 3 67.561 9.744 53.745 1 118.62 ? C5' SAH 1401 A 1 HETATM 10 C C4' SAH . . . C 3 67.581 11.17 53.189 1 118.95 ? C4' SAH 1401 A 1 HETATM 11 O O4' SAH . . . C 3 66.473 11.43 52.307 1 118.61 ? O4' SAH 1401 A 1 HETATM 12 C C3' SAH . . . C 3 67.457 12.224 54.288 1 118.97 ? C3' SAH 1401 A 1 HETATM 13 O O3' SAH . . . C 3 68.732 12.422 54.905 1 119.11 ? O3' SAH 1401 A 1 HETATM 14 C C2' SAH . . . C 3 67.139 13.413 53.386 1 118.94 ? C2' SAH 1401 A 1 HETATM 15 O O2' SAH . . . C 3 68.266 13.695 52.551 1 119 ? O2' SAH 1401 A 1 HETATM 16 C C1' SAH . . . C 3 66.03 12.781 52.541 1 118.81 ? C1' SAH 1401 A 1 HETATM 17 N N9 SAH . . . C 3 64.771 12.731 53.323 1 118.4 ? N9 SAH 1401 A 1 HETATM 18 C C8 SAH . . . C 3 64.332 11.7 54.044 1 118.34 ? C8 SAH 1401 A 1 HETATM 19 N N7 SAH . . . C 3 63.139 11.987 54.56 1 117.3 ? N7 SAH 1401 A 1 HETATM 20 C C5 SAH . . . C 3 62.813 13.217 54.169 1 117.31 ? C5 SAH 1401 A 1 HETATM 21 C C6 SAH . . . C 3 61.711 14.038 54.377 1 117 ? C6 SAH 1401 A 1 HETATM 22 N N6 SAH . . . C 3 60.68 13.618 55.106 1 116.43 ? N6 SAH 1401 A 1 HETATM 23 N N1 SAH . . . C 3 61.697 15.258 53.818 1 117.07 ? N1 SAH 1401 A 1 HETATM 24 C C2 SAH . . . C 3 62.71 15.679 53.081 1 117.1 ? C2 SAH 1401 A 1 HETATM 25 N N3 SAH . . . C 3 63.772 14.924 52.859 1 117.21 ? N3 SAH 1401 A 1 HETATM 26 C C4 SAH . . . C 3 63.855 13.693 53.385 1 117.68 ? C4 SAH 1401 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 26 #