data_2FQN # _entry.id 2FQN # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 2FQN pdb_00002fqn 10.2210/pdb2fqn/pdb NDB AR0066 ? ? RCSB RCSB036194 ? ? WWPDB D_1000036194 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2006-02-14 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-14 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' pdbx_struct_conn_angle 5 4 'Structure model' struct_conn 6 4 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_asym_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.value' 13 4 'Structure model' '_struct_conn.pdbx_dist_value' 14 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 15 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 16 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 17 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 18 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 19 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 20 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 21 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 22 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 23 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 24 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 25 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 26 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 27 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 28 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.entry_id 2FQN _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2006-01-18 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kondo, J.' 1 'Urzhumtsev, A.' 2 'Westhof, E.' 3 # _citation.id primary _citation.title 'Two conformational states in the crystal structure of the Homo sapiens cytoplasmic ribosomal decoding A site.' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 34 _citation.page_first 676 _citation.page_last 685 _citation.year 2006 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 16452297 _citation.pdbx_database_id_DOI 10.1093/nar/gkj467 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kondo, J.' 1 ? primary 'Urzhumtsev, A.' 2 ? primary 'Westhof, E.' 3 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn "5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*CP*UP*CP*CP*GP*GP*AP*AP*AP*AP*GP*UP*CP*GP*C)-3'" 7355.409 2 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 2 ? ? ? ? 3 non-polymer syn 'COBALT HEXAMMINE(III)' 161.116 3 ? ? ? ? 4 water nat water 18.015 63 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code UUGCGUCGCUCCGGAAAAGUCGC _entity_poly.pdbx_seq_one_letter_code_can UUGCGUCGCUCCGGAAAAGUCGC _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MAGNESIUM ION' MG 3 'COBALT HEXAMMINE(III)' NCO 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 U n 1 2 U n 1 3 G n 1 4 C n 1 5 G n 1 6 U n 1 7 C n 1 8 G n 1 9 C n 1 10 U n 1 11 C n 1 12 C n 1 13 G n 1 14 G n 1 15 A n 1 16 A n 1 17 A n 1 18 A n 1 19 G n 1 20 U n 1 21 C n 1 22 G n 1 23 C n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'Chemically synthesized' # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 NCO non-polymer . 'COBALT HEXAMMINE(III)' ? 'Co H18 N6 3' 161.116 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 U 1 1 ? ? ? A . n A 1 2 U 2 2 2 U U A . n A 1 3 G 3 3 3 G G A . n A 1 4 C 4 4 4 C C A . n A 1 5 G 5 5 5 G G A . n A 1 6 U 6 6 6 U U A . n A 1 7 C 7 7 7 C C A . n A 1 8 G 8 8 8 G G A . n A 1 9 C 9 9 9 C C A . n A 1 10 U 10 10 10 U U A . n A 1 11 C 11 11 11 C C A . n A 1 12 C 12 12 12 C C A . n A 1 13 G 13 13 13 G G A . n A 1 14 G 14 14 14 G G A . n A 1 15 A 15 15 15 A A A . n A 1 16 A 16 16 16 A A A . n A 1 17 A 17 17 17 A A A . n A 1 18 A 18 18 18 A A A . n A 1 19 G 19 19 19 G G A . n A 1 20 U 20 20 20 U U A . n A 1 21 C 21 21 21 C C A . n A 1 22 G 22 22 22 G G A . n A 1 23 C 23 23 23 C C A . n B 1 1 U 1 24 ? ? ? B . n B 1 2 U 2 25 ? ? ? B . n B 1 3 G 3 26 26 G G B . n B 1 4 C 4 27 27 C C B . n B 1 5 G 5 28 28 G G B . n B 1 6 U 6 29 29 U U B . n B 1 7 C 7 30 30 C C B . n B 1 8 G 8 31 31 G G B . n B 1 9 C 9 32 32 C C B . n B 1 10 U 10 33 33 U U B . n B 1 11 C 11 34 34 C C B . n B 1 12 C 12 35 35 C C B . n B 1 13 G 13 36 36 G G B . n B 1 14 G 14 37 37 G G B . n B 1 15 A 15 38 38 A A B . n B 1 16 A 16 39 39 A A B . n B 1 17 A 17 40 40 A A B . n B 1 18 A 18 41 41 A A B . n B 1 19 G 19 42 42 G G B . n B 1 20 U 20 43 43 U U B . n B 1 21 C 21 44 44 C C B . n B 1 22 G 22 45 45 G G B . n B 1 23 C 23 46 46 C C B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_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_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 MG 1 202 202 MG MO6 A . D 3 NCO 1 101 101 NCO NCO A . E 3 NCO 1 103 103 NCO NCO A . F 2 MG 1 201 201 MG MO6 B . G 3 NCO 1 102 102 NCO NCO B . H 4 HOH 1 301 301 HOH HOH A . H 4 HOH 2 304 304 HOH HOH A . H 4 HOH 3 305 305 HOH HOH A . H 4 HOH 4 307 307 HOH HOH A . H 4 HOH 5 309 309 HOH HOH A . H 4 HOH 6 310 310 HOH HOH A . H 4 HOH 7 311 311 HOH HOH A . H 4 HOH 8 312 312 HOH HOH A . H 4 HOH 9 313 313 HOH HOH A . H 4 HOH 10 316 316 HOH HOH A . H 4 HOH 11 319 319 HOH HOH A . H 4 HOH 12 323 323 HOH HOH A . H 4 HOH 13 324 324 HOH HOH A . H 4 HOH 14 327 327 HOH HOH A . H 4 HOH 15 328 328 HOH HOH A . H 4 HOH 16 331 331 HOH HOH A . H 4 HOH 17 332 332 HOH HOH A . H 4 HOH 18 334 334 HOH HOH A . H 4 HOH 19 335 335 HOH HOH A . H 4 HOH 20 337 337 HOH HOH A . H 4 HOH 21 343 343 HOH HOH A . H 4 HOH 22 344 344 HOH HOH A . H 4 HOH 23 345 345 HOH HOH A . H 4 HOH 24 348 348 HOH HOH A . H 4 HOH 25 349 349 HOH HOH A . H 4 HOH 26 350 350 HOH HOH A . H 4 HOH 27 351 351 HOH HOH A . H 4 HOH 28 356 201 HOH MO6 A . H 4 HOH 29 359 202 HOH MO6 A . H 4 HOH 30 360 202 HOH MO6 A . H 4 HOH 31 363 202 HOH MO6 A . I 4 HOH 1 302 302 HOH HOH B . I 4 HOH 2 303 303 HOH HOH B . I 4 HOH 3 306 306 HOH HOH B . I 4 HOH 4 308 308 HOH HOH B . I 4 HOH 5 314 314 HOH HOH B . I 4 HOH 6 315 315 HOH HOH B . I 4 HOH 7 317 317 HOH HOH B . I 4 HOH 8 318 318 HOH HOH B . I 4 HOH 9 320 320 HOH HOH B . I 4 HOH 10 321 321 HOH HOH B . I 4 HOH 11 322 322 HOH HOH B . I 4 HOH 12 325 325 HOH HOH B . I 4 HOH 13 326 326 HOH HOH B . I 4 HOH 14 329 329 HOH HOH B . I 4 HOH 15 330 330 HOH HOH B . I 4 HOH 16 333 333 HOH HOH B . I 4 HOH 17 336 336 HOH HOH B . I 4 HOH 18 338 338 HOH HOH B . I 4 HOH 19 339 339 HOH HOH B . I 4 HOH 20 340 340 HOH HOH B . I 4 HOH 21 341 341 HOH HOH B . I 4 HOH 22 342 342 HOH HOH B . I 4 HOH 23 346 346 HOH HOH B . I 4 HOH 24 347 347 HOH HOH B . I 4 HOH 25 352 201 HOH MO6 B . I 4 HOH 26 353 201 HOH MO6 B . I 4 HOH 27 354 201 HOH MO6 B . I 4 HOH 28 355 201 HOH MO6 B . I 4 HOH 29 357 201 HOH MO6 B . I 4 HOH 30 358 202 HOH MO6 B . I 4 HOH 31 361 202 HOH MO6 B . I 4 HOH 32 362 202 HOH MO6 B . # loop_ _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id _software.pdbx_ordinal d*TREK 9.2SSI 'Nov 2 2004' package 'Pflugrath, J.W.' jwp@RigakuMSC.com 'data processing' http://www.msc.com/protein/dtrek.html ? ? 1 CNS . ? package 'Axel T. Brunger' axel.brunger@yale.edu refinement http://cns.csb.yale.edu/v1.1/ Fortran_77 ? 2 PDB_EXTRACT 1.701 'Nov. 1, 2005' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 3 CrystalClear '(MSC/RIGAKU)' ? ? ? ? 'data reduction' ? ? ? 4 CrystalClear '(MSC/RIGAKU)' ? ? ? ? 'data scaling' ? ? ? 5 AMoRE . ? ? ? ? phasing ? ? ? 6 # _cell.length_a 46.050 _cell.length_b 47.390 _cell.length_c 56.760 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.entry_id 2FQN _cell.pdbx_unique_axis ? _cell.Z_PDB 8 _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.space_group_name_H-M 'P 21 21 2' _symmetry.entry_id 2FQN _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.Int_Tables_number 18 _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # _exptl.entry_id 2FQN _exptl.crystals_number 1 _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.11 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 41.57 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_details ;50 mM sodium cacodylate, 5 mM hexammine cobalt, 200 mM Potassium chloride, 1% (v/v) 2-methyl-2,4-pentanediol , pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K ; _exptl_crystal_grow.pdbx_pH_range . # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.details 1 1 1 'sodium cacodylate' ? ? ? 1 2 1 'hexammine cobalt' ? ? ? 1 3 1 'Potassium chloride' ? ? ? 1 4 1 2-methyl-2,4-pentanediol ? ? ? 1 5 1 H2O ? ? ? 1 6 2 'sodium cacodylate' ? ? ? 1 7 2 'hexammine cobalt' ? ? ? 1 8 2 'Potassium chloride' ? ? ? 1 9 2 H2O ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 4' _diffrn_detector.pdbx_collection_date 2004-12-04 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator Diamond _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9340 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ESRF BEAMLINE ID14-1' _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9340 _diffrn_source.pdbx_synchrotron_site ESRF _diffrn_source.pdbx_synchrotron_beamline ID14-1 # _reflns.entry_id 2FQN _reflns.d_resolution_high 2.300 _reflns.d_resolution_low 28.550 _reflns.number_obs 4878 _reflns.pdbx_scaling_rejects 123 _reflns.pdbx_Rmerge_I_obs 0.117 _reflns.pdbx_netI_over_sigmaI 7.200 _reflns.pdbx_chi_squared 0.950 _reflns.pdbx_redundancy 3.330 _reflns.percent_possible_obs 83.100 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.number_all ? _reflns.pdbx_Rsym_value ? _reflns.B_iso_Wilson_estimate ? _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.30 _reflns_shell.d_res_low 2.38 _reflns_shell.number_measured_obs ? _reflns_shell.number_measured_all 1048 _reflns_shell.number_unique_obs 438 _reflns_shell.Rmerge_I_obs 0.292 _reflns_shell.meanI_over_sigI_obs 2.0 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared 0.340 _reflns_shell.pdbx_redundancy 2.39 _reflns_shell.percent_possible_obs 78.50 _reflns_shell.number_unique_all ? _reflns_shell.percent_possible_all ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.ls_d_res_high 2.300 _refine.ls_d_res_low 10.000 _refine.pdbx_ls_sigma_F 3 _refine.ls_percent_reflns_obs 68.800 _refine.ls_number_reflns_obs 3976 _refine.ls_R_factor_R_work 0.247 _refine.ls_R_factor_R_free 0.282 _refine.ls_percent_reflns_R_free 7.100 _refine.ls_number_reflns_R_free 410 _refine.B_iso_mean 40.951 _refine.solvent_model_param_bsol 56.064 _refine.aniso_B[1][1] -2.108 _refine.aniso_B[2][2] -5.402 _refine.aniso_B[3][3] 7.510 _refine.aniso_B[1][2] 0.000 _refine.aniso_B[1][3] 0.000 _refine.aniso_B[2][3] 0.000 _refine.overall_FOM_work_R_set 0.799 _refine.entry_id 2FQN _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs ? _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_stereochemistry_target_values ;G. Parkinson, J. Vojtechovsky, L. Clowney, A.T. Brunger, H.M. Berman, New Parameters for the Refinement of Nucleic Acid Containing Structures, Acta Cryst. D, 52, 57-64 (1996). ; _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.details ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_overall_ESU_R ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 918 _refine_hist.pdbx_number_atoms_ligand 35 _refine_hist.number_atoms_solvent 51 _refine_hist.number_atoms_total 1004 _refine_hist.d_res_high 2.300 _refine_hist.d_res_low 10.000 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.weight _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function c_bond_d 0.005 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d 1.1 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 1.8 ? ? ? 'X-RAY DIFFRACTION' ? # loop_ _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.percent_reflns_obs _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_R_work _refine_ls_shell.R_factor_R_free _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.pdbx_refine_id 2.300 2.400 8 . 246 . 0.306 0.322 . 21 . . 267 . 'X-RAY DIFFRACTION' 2.400 2.530 8 . 369 . 0.326 0.334 . 37 . . 406 . 'X-RAY DIFFRACTION' 2.530 2.680 8 . 408 . 0.322 0.356 . 52 . . 460 . 'X-RAY DIFFRACTION' 2.680 2.890 8 . 469 . 0.34 0.362 . 53 . . 522 . 'X-RAY DIFFRACTION' 2.890 3.170 8 . 510 . 0.273 0.336 . 66 . . 576 . 'X-RAY DIFFRACTION' 3.170 3.610 8 . 519 . 0.231 0.279 . 61 . . 580 . 'X-RAY DIFFRACTION' 3.610 4.480 8 . 506 . 0.202 0.251 . 58 . . 564 . 'X-RAY DIFFRACTION' 4.480 10.000 8 . 539 . 0.222 0.225 . 62 . . 601 . 'X-RAY DIFFRACTION' # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 CNS_TOPPAR:dna-rna_rep.param ? 'X-RAY DIFFRACTION' 2 nco_xplor.param ? 'X-RAY DIFFRACTION' 3 mo6_xplor.param ? 'X-RAY DIFFRACTION' 4 CNS_TOPPAR:water_rep.param ? 'X-RAY DIFFRACTION' # _struct.entry_id 2FQN _struct.title 'Crystal structure of the Homo sapiens cytoplasmic ribosomal decoding A site' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2FQN _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'RNA duplex, rRNA, Decoding site, A site, Homo sapiens cytoplasm, RNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 3 ? E N N 3 ? F N N 2 ? G N N 3 ? H N N 4 ? I N N 4 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 2FQN _struct_ref.pdbx_db_accession 2FQN _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 2FQN A 1 ? 23 ? 2FQN 1 ? 23 ? 1 23 2 1 2FQN B 1 ? 23 ? 2FQN 24 ? 46 ? 24 46 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I # _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] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_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_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? C MG . MG ? ? ? 1_555 H HOH . O ? ? A MG 202 A HOH 359 1_555 ? ? ? ? ? ? ? 2.011 ? ? metalc2 metalc ? ? C MG . MG ? ? ? 1_555 H HOH . O ? ? A MG 202 A HOH 360 1_555 ? ? ? ? ? ? ? 2.105 ? ? metalc3 metalc ? ? C MG . MG ? ? ? 1_555 H HOH . O ? ? A MG 202 A HOH 363 1_555 ? ? ? ? ? ? ? 2.117 ? ? metalc4 metalc ? ? C MG . MG ? ? ? 1_555 I HOH . O ? ? A MG 202 B HOH 358 1_555 ? ? ? ? ? ? ? 2.078 ? ? metalc5 metalc ? ? C MG . MG ? ? ? 1_555 I HOH . O ? ? A MG 202 B HOH 361 1_555 ? ? ? ? ? ? ? 2.070 ? ? metalc6 metalc ? ? C MG . MG ? ? ? 1_555 I HOH . O ? ? A MG 202 B HOH 362 1_555 ? ? ? ? ? ? ? 2.125 ? ? metalc7 metalc ? ? H HOH . O ? ? ? 1_555 F MG . MG ? ? A HOH 356 B MG 201 1_555 ? ? ? ? ? ? ? 2.131 ? ? metalc8 metalc ? ? F MG . MG ? ? ? 1_555 I HOH . O ? ? B MG 201 B HOH 352 1_555 ? ? ? ? ? ? ? 2.080 ? ? metalc9 metalc ? ? F MG . MG ? ? ? 1_555 I HOH . O ? ? B MG 201 B HOH 353 1_555 ? ? ? ? ? ? ? 2.009 ? ? metalc10 metalc ? ? F MG . MG ? ? ? 1_555 I HOH . O ? ? B MG 201 B HOH 354 1_555 ? ? ? ? ? ? ? 2.101 ? ? metalc11 metalc ? ? F MG . MG ? ? ? 1_555 I HOH . O ? ? B MG 201 B HOH 355 1_555 ? ? ? ? ? ? ? 2.060 ? ? metalc12 metalc ? ? F MG . MG ? ? ? 1_555 I HOH . O ? ? B MG 201 B HOH 357 1_555 ? ? ? ? ? ? ? 2.118 ? ? hydrog1 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 23 N3 ? ? A G 3 B C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 23 O2 ? ? A G 3 B C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 23 N4 ? ? A G 3 B C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 4 N3 ? ? ? 1_555 B G 22 N1 ? ? A C 4 B G 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 4 N4 ? ? ? 1_555 B G 22 O6 ? ? A C 4 B G 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 4 O2 ? ? ? 1_555 B G 22 N2 ? ? A C 4 B G 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 5 N1 ? ? ? 1_555 B C 21 N3 ? ? A G 5 B C 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 5 N2 ? ? ? 1_555 B C 21 O2 ? ? A G 5 B C 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 5 O6 ? ? ? 1_555 B C 21 N4 ? ? A G 5 B C 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A U 6 N3 ? ? ? 1_555 B U 20 O4 ? ? A U 6 B U 43 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog11 hydrog ? ? A U 6 O2 ? ? ? 1_555 B U 20 N3 ? ? A U 6 B U 43 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog12 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 19 N1 ? ? A C 7 B G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 19 O6 ? ? A C 7 B G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 19 N2 ? ? A C 7 B G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 9 N4 ? ? ? 1_555 B A 16 N1 ? ? A C 9 B A 39 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog16 hydrog ? ? A U 10 N3 ? ? ? 1_555 B A 15 N1 ? ? A U 10 B A 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A U 10 O4 ? ? ? 1_555 B A 15 N6 ? ? A U 10 B A 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 11 N3 ? ? ? 1_555 B G 14 N1 ? ? A C 11 B G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 11 N4 ? ? ? 1_555 B G 14 O6 ? ? A C 11 B G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 11 O2 ? ? ? 1_555 B G 14 N2 ? ? A C 11 B G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 12 N3 ? ? ? 1_555 B G 13 N1 ? ? A C 12 B G 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 12 N4 ? ? ? 1_555 B G 13 O6 ? ? A C 12 B G 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 12 O2 ? ? ? 1_555 B G 13 N2 ? ? A C 12 B G 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 13 N1 ? ? ? 1_555 B C 12 N3 ? ? A G 13 B C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 13 N2 ? ? ? 1_555 B C 12 O2 ? ? A G 13 B C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 13 O6 ? ? ? 1_555 B C 12 N4 ? ? A G 13 B C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 14 N1 ? ? ? 1_555 B C 11 N3 ? ? A G 14 B C 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 14 N2 ? ? ? 1_555 B C 11 O2 ? ? A G 14 B C 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A G 14 O6 ? ? ? 1_555 B C 11 N4 ? ? A G 14 B C 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A A 15 N1 ? ? ? 1_555 B U 10 N3 ? ? A A 15 B U 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A A 15 N6 ? ? ? 1_555 B U 10 O4 ? ? A A 15 B U 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A A 17 N3 ? ? ? 1_555 B C 9 N4 ? ? A A 17 B C 32 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog33 hydrog ? ? A A 18 N7 ? ? ? 1_555 B G 8 N2 ? ? A A 18 B G 31 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? hydrog34 hydrog ? ? A G 19 N1 ? ? ? 1_555 B C 7 N3 ? ? A G 19 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 19 N2 ? ? ? 1_555 B C 7 O2 ? ? A G 19 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A G 19 O6 ? ? ? 1_555 B C 7 N4 ? ? A G 19 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A U 20 N3 ? ? ? 1_555 B U 6 O2 ? ? A U 20 B U 29 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog38 hydrog ? ? A U 20 O4 ? ? ? 1_555 B U 6 N3 ? ? A U 20 B U 29 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog39 hydrog ? ? A C 21 N3 ? ? ? 1_555 B G 5 N1 ? ? A C 21 B G 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A C 21 N4 ? ? ? 1_555 B G 5 O6 ? ? A C 21 B G 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A C 21 O2 ? ? ? 1_555 B G 5 N2 ? ? A C 21 B G 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A G 22 N1 ? ? ? 1_555 B C 4 N3 ? ? A G 22 B C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A G 22 N2 ? ? ? 1_555 B C 4 O2 ? ? A G 22 B C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A G 22 O6 ? ? ? 1_555 B C 4 N4 ? ? A G 22 B C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? A C 23 N3 ? ? ? 1_555 B G 3 N1 ? ? A C 23 B G 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? A C 23 N4 ? ? ? 1_555 B G 3 O6 ? ? A C 23 B G 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? A C 23 O2 ? ? ? 1_555 B G 3 N2 ? ? A C 23 B G 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? H HOH . ? A HOH 359 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? H HOH . ? A HOH 360 ? 1_555 90.8 ? 2 O ? H HOH . ? A HOH 359 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? H HOH . ? A HOH 363 ? 1_555 89.3 ? 3 O ? H HOH . ? A HOH 360 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? H HOH . ? A HOH 363 ? 1_555 90.3 ? 4 O ? H HOH . ? A HOH 359 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 358 ? 1_555 179.7 ? 5 O ? H HOH . ? A HOH 360 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 358 ? 1_555 89.4 ? 6 O ? H HOH . ? A HOH 363 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 358 ? 1_555 91.0 ? 7 O ? H HOH . ? A HOH 359 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 361 ? 1_555 89.4 ? 8 O ? H HOH . ? A HOH 360 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 361 ? 1_555 179.8 ? 9 O ? H HOH . ? A HOH 363 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 361 ? 1_555 89.6 ? 10 O ? I HOH . ? B HOH 358 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 361 ? 1_555 90.4 ? 11 O ? H HOH . ? A HOH 359 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 362 ? 1_555 90.4 ? 12 O ? H HOH . ? A HOH 360 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 362 ? 1_555 89.9 ? 13 O ? H HOH . ? A HOH 363 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 362 ? 1_555 179.7 ? 14 O ? I HOH . ? B HOH 358 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 362 ? 1_555 89.3 ? 15 O ? I HOH . ? B HOH 361 ? 1_555 MG ? C MG . ? A MG 202 ? 1_555 O ? I HOH . ? B HOH 362 ? 1_555 90.2 ? 16 O ? H HOH . ? A HOH 356 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 352 ? 1_555 90.0 ? 17 O ? H HOH . ? A HOH 356 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 353 ? 1_555 90.2 ? 18 O ? I HOH . ? B HOH 352 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 353 ? 1_555 179.7 ? 19 O ? H HOH . ? A HOH 356 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 354 ? 1_555 89.8 ? 20 O ? I HOH . ? B HOH 352 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 354 ? 1_555 90.0 ? 21 O ? I HOH . ? B HOH 353 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 354 ? 1_555 90.3 ? 22 O ? H HOH . ? A HOH 356 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 355 ? 1_555 89.9 ? 23 O ? I HOH . ? B HOH 352 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 355 ? 1_555 89.8 ? 24 O ? I HOH . ? B HOH 353 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 355 ? 1_555 90.0 ? 25 O ? I HOH . ? B HOH 354 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 355 ? 1_555 179.6 ? 26 O ? H HOH . ? A HOH 356 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 357 ? 1_555 179.8 ? 27 O ? I HOH . ? B HOH 352 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 357 ? 1_555 90.0 ? 28 O ? I HOH . ? B HOH 353 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 357 ? 1_555 89.8 ? 29 O ? I HOH . ? B HOH 354 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 357 ? 1_555 90.0 ? 30 O ? I HOH . ? B HOH 355 ? 1_555 MG ? F MG . ? B MG 201 ? 1_555 O ? I HOH . ? B HOH 357 ? 1_555 90.3 ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software B MG 201 ? 6 'BINDING SITE FOR RESIDUE MG B 201' AC2 Software A MG 202 ? 6 'BINDING SITE FOR RESIDUE MG A 202' AC3 Software A NCO 101 ? 6 'BINDING SITE FOR RESIDUE NCO A 101' AC4 Software B NCO 102 ? 5 'BINDING SITE FOR RESIDUE NCO B 102' AC5 Software A NCO 103 ? 3 'BINDING SITE FOR RESIDUE NCO A 103' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 6 HOH H . ? HOH A 356 . ? 1_555 ? 2 AC1 6 HOH I . ? HOH B 352 . ? 1_555 ? 3 AC1 6 HOH I . ? HOH B 353 . ? 1_555 ? 4 AC1 6 HOH I . ? HOH B 354 . ? 1_555 ? 5 AC1 6 HOH I . ? HOH B 355 . ? 1_555 ? 6 AC1 6 HOH I . ? HOH B 357 . ? 1_555 ? 7 AC2 6 HOH H . ? HOH A 359 . ? 1_555 ? 8 AC2 6 HOH H . ? HOH A 360 . ? 1_555 ? 9 AC2 6 HOH H . ? HOH A 363 . ? 1_555 ? 10 AC2 6 HOH I . ? HOH B 358 . ? 1_555 ? 11 AC2 6 HOH I . ? HOH B 361 . ? 1_555 ? 12 AC2 6 HOH I . ? HOH B 362 . ? 1_555 ? 13 AC3 6 C A 12 ? C A 12 . ? 1_555 ? 14 AC3 6 G A 13 ? G A 13 . ? 1_555 ? 15 AC3 6 G A 14 ? G A 14 . ? 1_555 ? 16 AC3 6 HOH H . ? HOH A 323 . ? 1_555 ? 17 AC3 6 HOH H . ? HOH A 332 . ? 1_555 ? 18 AC3 6 HOH I . ? HOH B 329 . ? 1_555 ? 19 AC4 5 C B 12 ? C B 35 . ? 1_555 ? 20 AC4 5 G B 13 ? G B 36 . ? 1_555 ? 21 AC4 5 G B 14 ? G B 37 . ? 1_555 ? 22 AC4 5 HOH I . ? HOH B 325 . ? 1_555 ? 23 AC4 5 HOH I . ? HOH B 341 . ? 1_555 ? 24 AC5 3 G A 19 ? G A 19 . ? 1_555 ? 25 AC5 3 HOH H . ? HOH A 335 . ? 1_555 ? 26 AC5 3 U B 6 ? U B 29 . ? 1_555 ? # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id A _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 16 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.052 _pdbx_validate_planes.type 'SIDE CHAIN' # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id B _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 347 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id I _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A U 1 ? A U 1 2 1 Y 1 B U 24 ? B U 1 3 1 Y 1 B U 25 ? B U 2 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 HOH O O N N 111 HOH H1 H N N 112 HOH H2 H N N 113 MG MG MG N N 114 NCO CO CO N N 115 NCO N1 N N N 116 NCO N2 N N N 117 NCO N3 N N N 118 NCO N4 N N N 119 NCO N5 N N N 120 NCO N6 N N N 121 NCO HN11 H N N 122 NCO HN12 H N N 123 NCO HN13 H N N 124 NCO HN21 H N N 125 NCO HN22 H N N 126 NCO HN23 H N N 127 NCO HN31 H N N 128 NCO HN32 H N N 129 NCO HN33 H N N 130 NCO HN41 H N N 131 NCO HN42 H N N 132 NCO HN43 H N N 133 NCO HN51 H N N 134 NCO HN52 H N N 135 NCO HN53 H N N 136 NCO HN61 H N N 137 NCO HN62 H N N 138 NCO HN63 H N N 139 U OP3 O N N 140 U P P N N 141 U OP1 O N N 142 U OP2 O N N 143 U "O5'" O N N 144 U "C5'" C N N 145 U "C4'" C N R 146 U "O4'" O N N 147 U "C3'" C N S 148 U "O3'" O N N 149 U "C2'" C N R 150 U "O2'" O N N 151 U "C1'" C N R 152 U N1 N N N 153 U C2 C N N 154 U O2 O N N 155 U N3 N N N 156 U C4 C N N 157 U O4 O N N 158 U C5 C N N 159 U C6 C N N 160 U HOP3 H N N 161 U HOP2 H N N 162 U "H5'" H N N 163 U "H5''" H N N 164 U "H4'" H N N 165 U "H3'" H N N 166 U "HO3'" H N N 167 U "H2'" H N N 168 U "HO2'" H N N 169 U "H1'" H N N 170 U H3 H N N 171 U H5 H N N 172 U H6 H N N 173 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 HOH O H1 sing N N 116 HOH O H2 sing N N 117 NCO CO N1 sing N N 118 NCO CO N2 sing N N 119 NCO CO N3 sing N N 120 NCO CO N4 sing N N 121 NCO CO N5 sing N N 122 NCO CO N6 sing N N 123 NCO N1 HN11 sing N N 124 NCO N1 HN12 sing N N 125 NCO N1 HN13 sing N N 126 NCO N2 HN21 sing N N 127 NCO N2 HN22 sing N N 128 NCO N2 HN23 sing N N 129 NCO N3 HN31 sing N N 130 NCO N3 HN32 sing N N 131 NCO N3 HN33 sing N N 132 NCO N4 HN41 sing N N 133 NCO N4 HN42 sing N N 134 NCO N4 HN43 sing N N 135 NCO N5 HN51 sing N N 136 NCO N5 HN52 sing N N 137 NCO N5 HN53 sing N N 138 NCO N6 HN61 sing N N 139 NCO N6 HN62 sing N N 140 NCO N6 HN63 sing N N 141 U OP3 P sing N N 142 U OP3 HOP3 sing N N 143 U P OP1 doub N N 144 U P OP2 sing N N 145 U P "O5'" sing N N 146 U OP2 HOP2 sing N N 147 U "O5'" "C5'" sing N N 148 U "C5'" "C4'" sing N N 149 U "C5'" "H5'" sing N N 150 U "C5'" "H5''" sing N N 151 U "C4'" "O4'" sing N N 152 U "C4'" "C3'" sing N N 153 U "C4'" "H4'" sing N N 154 U "O4'" "C1'" sing N N 155 U "C3'" "O3'" sing N N 156 U "C3'" "C2'" sing N N 157 U "C3'" "H3'" sing N N 158 U "O3'" "HO3'" sing N N 159 U "C2'" "O2'" sing N N 160 U "C2'" "C1'" sing N N 161 U "C2'" "H2'" sing N N 162 U "O2'" "HO2'" sing N N 163 U "C1'" N1 sing N N 164 U "C1'" "H1'" sing N N 165 U N1 C2 sing N N 166 U N1 C6 sing N N 167 U C2 O2 doub N N 168 U C2 N3 sing N N 169 U N3 C4 sing N N 170 U N3 H3 sing N N 171 U C4 O4 doub N N 172 U C4 C5 sing N N 173 U C5 C6 doub N N 174 U C5 H5 sing N N 175 U C6 H6 sing N N 176 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2FQN 'bulge loop' 2FQN 'mismatched base pair' 2FQN 'internal loop' # _atom_sites.entry_id 2FQN _atom_sites.fract_transf_matrix[1][1] 0.021716 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.021101 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 0.017618 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C CO MG N O P # loop_