data_3EPI # _model_server_result.job_id pozUb8C0qrsQBWUpkGWe2g _model_server_result.datetime_utc '2024-11-16 03:29:37' _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 3epi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":421}' # _entry.id 3EPI # _exptl.entry_id 3EPI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 3EPI _cell.length_a 98.643 _cell.length_b 98.643 _cell.length_c 202.231 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3EPI _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_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 1,2 # 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' 12_544 x,x-y-1,-z-1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 49.3215 -85.427344 -33.705167 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _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 _struct_conn.pdbx_value_order covale ? covale1 B O3' DC 17 B DC 12 1_555 B P DOC 18 B DOC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.6 ? covale ? covale2 C O3' 2EG 4 C 2EG 840 1_555 C P DG 5 C DG 841 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.51 ? metalc ? metalc1 A O LYS 237 A LYS 237 1_555 D NA NA . A NA 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.738 ? metalc ? metalc2 A O ILE 239 A ILE 239 1_555 D NA NA . A NA 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.874 ? metalc ? metalc3 A O ILE 242 A ILE 242 1_555 D NA NA . A NA 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc4 D NA NA . A NA 421 1_555 B OP1 DC 17 B DC 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? hydrog 'DA-DT PAIR' hydrog1 B N1 DA 12 B DA 7 1_555 C N3 DT 11 C DT 847 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog2 B N2 DG 13 B DG 8 1_555 C O2 DC 10 C DC 846 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B N1 DG 14 B DG 9 1_555 C N3 DC 9 C DC 845 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N2 DG 14 B DG 9 1_555 C O2 DC 9 C DC 845 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B O6 DG 14 B DG 9 1_555 C N4 DC 9 C DC 845 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DA-DT PAIR' hydrog6 B N1 DA 15 B DA 10 1_555 C N3 DT 8 C DT 844 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DG PAIR' hydrog7 B O2 DC 16 B DC 11 1_555 C N2 DG 7 C DG 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DG PAIR' hydrog8 B O2 DC 17 B DC 12 1_555 C N2 DG 6 C DG 842 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B N3 DOC 18 B DOC 13 1_555 C N1 DG 5 C DG 841 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B N4 DOC 18 B DOC 13 1_555 C O6 DG 5 C DG 841 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 B O2 DOC 18 B DOC 13 1_555 C N2 DG 5 C DG 841 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3EPI _atom_sites.fract_transf_matrix[1][1] 0.010138 _atom_sites.fract_transf_matrix[1][2] 0.005853 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011706 _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] 0.004945 _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 D 3 NA A 1 421 1 NA NA . E 4 PO4 A 1 422 1 PO4 PO4 . F 5 HOH A 1 423 1 HOH HOH . F 5 HOH A 2 424 2 HOH HOH . F 5 HOH A 3 425 3 HOH HOH . F 5 HOH A 4 426 4 HOH HOH . F 5 HOH A 5 427 5 HOH HOH . F 5 HOH A 6 428 6 HOH HOH . F 5 HOH A 7 429 7 HOH HOH . F 5 HOH A 8 430 8 HOH HOH . F 5 HOH A 9 431 10 HOH HOH . F 5 HOH A 10 432 12 HOH HOH . F 5 HOH A 11 433 13 HOH HOH . F 5 HOH A 12 434 16 HOH HOH . F 5 HOH A 13 435 17 HOH HOH . F 5 HOH A 14 436 18 HOH HOH . F 5 HOH A 15 437 19 HOH HOH . F 5 HOH A 16 438 21 HOH HOH . F 5 HOH A 17 439 22 HOH HOH . F 5 HOH A 18 440 25 HOH HOH . F 5 HOH A 19 441 26 HOH HOH . F 5 HOH A 20 442 27 HOH HOH . F 5 HOH A 21 443 28 HOH HOH . F 5 HOH A 22 444 29 HOH HOH . F 5 HOH A 23 445 30 HOH HOH . F 5 HOH A 24 446 31 HOH HOH . F 5 HOH A 25 447 32 HOH HOH . F 5 HOH A 26 448 33 HOH HOH . F 5 HOH A 27 449 35 HOH HOH . F 5 HOH A 28 450 36 HOH HOH . F 5 HOH A 29 451 37 HOH HOH . F 5 HOH A 30 452 38 HOH HOH . F 5 HOH A 31 453 39 HOH HOH . F 5 HOH A 32 454 40 HOH HOH . F 5 HOH A 33 455 41 HOH HOH . F 5 HOH A 34 456 42 HOH HOH . F 5 HOH A 35 457 43 HOH HOH . F 5 HOH A 36 458 44 HOH HOH . F 5 HOH A 37 459 45 HOH HOH . F 5 HOH A 38 460 46 HOH HOH . F 5 HOH A 39 461 49 HOH HOH . F 5 HOH A 40 462 51 HOH HOH . F 5 HOH A 41 463 52 HOH HOH . F 5 HOH A 42 464 53 HOH HOH . F 5 HOH A 43 465 54 HOH HOH . F 5 HOH A 44 466 55 HOH HOH . F 5 HOH A 45 467 56 HOH HOH . F 5 HOH A 46 468 57 HOH HOH . F 5 HOH A 47 469 58 HOH HOH . F 5 HOH A 48 470 59 HOH HOH . F 5 HOH A 49 471 60 HOH HOH . F 5 HOH A 50 472 61 HOH HOH . F 5 HOH A 51 473 62 HOH HOH . F 5 HOH A 52 474 63 HOH HOH . F 5 HOH A 53 475 65 HOH HOH . F 5 HOH A 54 476 67 HOH HOH . F 5 HOH A 55 477 71 HOH HOH . F 5 HOH A 56 478 73 HOH HOH . F 5 HOH A 57 479 74 HOH HOH . F 5 HOH A 58 480 75 HOH HOH . F 5 HOH A 59 481 76 HOH HOH . F 5 HOH A 60 482 77 HOH HOH . F 5 HOH A 61 483 78 HOH HOH . F 5 HOH A 62 484 79 HOH HOH . G 5 HOH B 1 34 34 HOH HOH . G 5 HOH B 2 69 69 HOH HOH . H 5 HOH C 1 15 15 HOH HOH . H 5 HOH C 2 20 20 HOH HOH . H 5 HOH C 3 24 24 HOH HOH . H 5 HOH C 4 47 47 HOH HOH . H 5 HOH C 5 66 66 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 3 _atom_site.Cartn_x 1.481 _atom_site.Cartn_y -30.979 _atom_site.Cartn_z -6.411 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 15.9 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 421 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #