data_4MCF # _entry.id 4MCF # _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 4MCF pdb_00004mcf 10.2210/pdb4mcf/pdb NDB NA2701 ? ? RCSB RCSB081736 ? ? WWPDB D_1000081736 ? ? # 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 2014-11-12 2 'Structure model' 1 1 2014-12-03 3 'Structure model' 1 2 2018-03-28 4 'Structure model' 1 3 2024-02-28 # _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' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Derived calculations' 4 3 'Structure model' 'Source and taxonomy' 5 4 'Structure model' 'Data collection' 6 4 'Structure model' 'Database references' 7 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 3 'Structure model' ndb_struct_conf_na 2 3 'Structure model' ndb_struct_na_base_pair 3 3 'Structure model' ndb_struct_na_base_pair_step 4 3 'Structure model' pdbx_entity_src_syn 5 3 'Structure model' pdbx_struct_assembly 6 3 'Structure model' pdbx_struct_assembly_gen 7 3 'Structure model' pdbx_struct_assembly_prop 8 3 'Structure model' pdbx_struct_oper_list 9 3 'Structure model' struct_conn 10 4 'Structure model' chem_comp_atom 11 4 'Structure model' chem_comp_bond 12 4 'Structure model' database_2 13 4 'Structure model' pdbx_struct_special_symmetry 14 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 3 'Structure model' '_pdbx_entity_src_syn.ncbi_taxonomy_id' 2 3 'Structure model' '_pdbx_entity_src_syn.organism_scientific' 3 4 'Structure model' '_database_2.pdbx_DOI' 4 4 'Structure model' '_database_2.pdbx_database_accession' 5 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 6 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 7 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _database_PDB_caveat.id _database_PDB_caveat.text 1 'Residue F C 9 and Residue F U 10 are not properly linked' 2 'Atomic clash with symmetry atoms for SO4 B 101' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4MCF _pdbx_database_status.recvd_initial_deposition_date 2013-08-21 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Hudson, W.H.' 1 'Ortlund, E.A.' 2 # _citation.id primary _citation.title 'Conserved sequence-specific lincRNA-steroid receptor interactions drive transcriptional repression and direct cell fate.' _citation.journal_abbrev 'Nat Commun' _citation.journal_volume 5 _citation.page_first 5395 _citation.page_last 5395 _citation.year 2014 _citation.journal_id_ASTM ? _citation.country UK _citation.journal_id_ISSN 2041-1723 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 25377354 _citation.pdbx_database_id_DOI 10.1038/ncomms6395 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Hudson, W.H.' 1 ? primary 'Pickard, M.R.' 2 ? primary 'de Vera, I.M.' 3 ? primary 'Kuiper, E.G.' 4 ? primary 'Mourtada-Maarabouni, M.' 5 ? primary 'Conn, G.L.' 6 ? primary 'Kojetin, D.J.' 7 ? primary 'Williams, G.T.' 8 ? primary 'Ortlund, E.A.' 9 ? # 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 'Gas5 GREM Fwd' 3154.892 4 ? ? ? ? 2 polymer syn 'Gas5 GREM Rev' 3506.154 4 ? ? ? ? 3 non-polymer syn 'SULFATE ION' 96.063 4 ? ? ? ? 4 water nat water 18.015 26 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no no CAGUGGUCUU CAGUGGUCUU C,A,E,G ? 2 polyribonucleotide no no AAGACUGCCUG AAGACUGCCUG D,B,F,H ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'SULFATE ION' SO4 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 C n 1 2 A n 1 3 G n 1 4 U n 1 5 G n 1 6 G n 1 7 U n 1 8 C n 1 9 U n 1 10 U n 2 1 A n 2 2 A n 2 3 G n 2 4 A n 2 5 C n 2 6 U n 2 7 G n 2 8 C n 2 9 C n 2 10 U n 2 11 G n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _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 1 1 sample ? ? 'Homo sapiens' ? 9606 'RNA Synthesis' 2 1 sample ? ? 'Homo sapiens' ? 9606 'RNA Synthesis' # 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 SO4 non-polymer . 'SULFATE ION' ? 'O4 S -2' 96.063 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 C 1 1 ? ? ? C . n A 1 2 A 2 2 2 A A C . n A 1 3 G 3 3 3 G G C . n A 1 4 U 4 4 4 U U C . n A 1 5 G 5 5 5 G G C . n A 1 6 G 6 6 6 G G C . n A 1 7 U 7 7 7 U U C . n A 1 8 C 8 8 8 C C C . n A 1 9 U 9 9 9 U U C . n A 1 10 U 10 10 10 U U C . n B 2 1 A 1 1 1 A A D . n B 2 2 A 2 2 2 A A D . n B 2 3 G 3 3 3 G G D . n B 2 4 A 4 4 4 A A D . n B 2 5 C 5 5 5 C C D . n B 2 6 U 6 6 6 U U D . n B 2 7 G 7 7 7 G G D . n B 2 8 C 8 8 8 C C D . n B 2 9 C 9 9 9 C C D . n B 2 10 U 10 10 10 U U D . n B 2 11 G 11 11 11 G G D . n C 1 1 C 1 1 ? ? ? A . n C 1 2 A 2 2 ? ? ? A . n C 1 3 G 3 3 3 G G A . n C 1 4 U 4 4 4 U U A . n C 1 5 G 5 5 5 G G A . n C 1 6 G 6 6 6 G G A . n C 1 7 U 7 7 7 U U A . n C 1 8 C 8 8 8 C C A . n C 1 9 U 9 9 9 U U A . n C 1 10 U 10 10 10 U U A . n D 2 1 A 1 1 1 A A B . n D 2 2 A 2 2 2 A A B . n D 2 3 G 3 3 3 G G B . n D 2 4 A 4 4 4 A A B . n D 2 5 C 5 5 5 C C B . n D 2 6 U 6 6 6 U U B . n D 2 7 G 7 7 7 G G B . n D 2 8 C 8 8 8 C C B . n D 2 9 C 9 9 9 C C B . n D 2 10 U 10 10 10 U U B . n D 2 11 G 11 11 11 G G B . n E 1 1 C 1 1 1 C C E . n E 1 2 A 2 2 2 A A E . n E 1 3 G 3 3 3 G G E . n E 1 4 U 4 4 4 U U E . n E 1 5 G 5 5 5 G G E . n E 1 6 G 6 6 6 G G E . n E 1 7 U 7 7 7 U U E . n E 1 8 C 8 8 8 C C E . n E 1 9 U 9 9 9 U U E . n E 1 10 U 10 10 10 U U E . n F 2 1 A 1 1 1 A A F . n F 2 2 A 2 2 2 A A F . n F 2 3 G 3 3 3 G G F . n F 2 4 A 4 4 4 A A F . n F 2 5 C 5 5 5 C C F . n F 2 6 U 6 6 6 U U F . n F 2 7 G 7 7 7 G G F . n F 2 8 C 8 8 8 C C F . n F 2 9 C 9 9 9 C C F . n F 2 10 U 10 10 10 U U F . n F 2 11 G 11 11 ? ? ? F . n G 1 1 C 1 1 1 C C G . n G 1 2 A 2 2 2 A A G . n G 1 3 G 3 3 3 G G G . n G 1 4 U 4 4 4 U U G . n G 1 5 G 5 5 5 G G G . n G 1 6 G 6 6 6 G G G . n G 1 7 U 7 7 7 U U G . n G 1 8 C 8 8 8 C C G . n G 1 9 U 9 9 9 U U G . n G 1 10 U 10 10 10 U U G . n H 2 1 A 1 1 1 A A H . n H 2 2 A 2 2 2 A A H . n H 2 3 G 3 3 3 G G H . n H 2 4 A 4 4 4 A A H . n H 2 5 C 5 5 5 C C H . n H 2 6 U 6 6 6 U U H . n H 2 7 G 7 7 7 G G H . n H 2 8 C 8 8 8 C C H . n H 2 9 C 9 9 9 C C H . n H 2 10 U 10 10 10 U U H . n H 2 11 G 11 11 ? ? ? H . 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 I 3 SO4 1 101 101 SO4 SO4 A . J 3 SO4 1 101 101 SO4 SO4 B . K 3 SO4 1 102 102 SO4 SO4 B . L 3 SO4 1 101 101 SO4 SO4 F . M 4 HOH 1 101 101 HOH HOH C . M 4 HOH 2 102 102 HOH HOH C . M 4 HOH 3 103 103 HOH HOH C . M 4 HOH 4 104 104 HOH HOH C . M 4 HOH 5 105 105 HOH HOH C . M 4 HOH 6 106 106 HOH HOH C . N 4 HOH 1 201 201 HOH HOH D . N 4 HOH 2 202 202 HOH HOH D . N 4 HOH 3 203 203 HOH HOH D . N 4 HOH 4 204 204 HOH HOH D . N 4 HOH 5 205 205 HOH HOH D . N 4 HOH 6 206 206 HOH HOH D . N 4 HOH 7 207 207 HOH HOH D . N 4 HOH 8 208 208 HOH HOH D . O 4 HOH 1 201 201 HOH HOH A . O 4 HOH 2 202 202 HOH HOH A . O 4 HOH 3 203 203 HOH HOH A . O 4 HOH 4 204 204 HOH HOH A . O 4 HOH 5 205 205 HOH HOH A . P 4 HOH 1 201 201 HOH HOH B . P 4 HOH 2 202 202 HOH HOH B . P 4 HOH 3 203 203 HOH HOH B . P 4 HOH 4 204 204 HOH HOH B . P 4 HOH 5 205 205 HOH HOH B . P 4 HOH 6 206 206 HOH HOH B . Q 4 HOH 1 201 101 HOH HOH F . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 B G 11 ? "C5'" ? D G 11 "C5'" 2 1 Y 1 B G 11 ? "C4'" ? D G 11 "C4'" 3 1 Y 1 B G 11 ? "O4'" ? D G 11 "O4'" 4 1 Y 1 B G 11 ? "C3'" ? D G 11 "C3'" 5 1 Y 1 B G 11 ? "O3'" ? D G 11 "O3'" 6 1 Y 1 B G 11 ? "C2'" ? D G 11 "C2'" 7 1 Y 1 B G 11 ? "O2'" ? D G 11 "O2'" 8 1 Y 1 B G 11 ? "C1'" ? D G 11 "C1'" 9 1 Y 1 B G 11 ? N9 ? D G 11 N9 10 1 Y 1 B G 11 ? C8 ? D G 11 C8 11 1 Y 1 B G 11 ? N7 ? D G 11 N7 12 1 Y 1 B G 11 ? C5 ? D G 11 C5 13 1 Y 1 B G 11 ? C6 ? D G 11 C6 14 1 Y 1 B G 11 ? O6 ? D G 11 O6 15 1 Y 1 B G 11 ? N1 ? D G 11 N1 16 1 Y 1 B G 11 ? C2 ? D G 11 C2 17 1 Y 1 B G 11 ? N2 ? D G 11 N2 18 1 Y 1 B G 11 ? N3 ? D G 11 N3 19 1 Y 1 B G 11 ? C4 ? D G 11 C4 # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal JDirector 'data collection' . ? 1 PHASER phasing . ? 2 PHENIX refinement '(phenix.refine: 1.7.1_743)' ? 3 HKL-2000 'data reduction' . ? 4 HKL-2000 'data scaling' . ? 5 # _cell.entry_id 4MCF _cell.length_a 43.314 _cell.length_b 43.314 _cell.length_c 304.179 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 36 _cell.pdbx_unique_axis ? _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.entry_id 4MCF _symmetry.space_group_name_H-M 'H 3' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? # _exptl.entry_id 4MCF _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.06 _exptl_crystal.density_percent_sol 40.32 _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.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 4 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details ;0.1 M citric acid pH 4 3 M ammonium sulfate , VAPOR DIFFUSION, HANGING DROP, temperature 298K ; # _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 'MARMOSAIC 225 mm CCD' _diffrn_detector.pdbx_collection_date 2011-05-03 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.00 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 22-BM' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 22-BM _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.00 # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 4MCF _reflns.observed_criterion_sigma_I 0 _reflns.observed_criterion_sigma_F 0 _reflns.d_resolution_low 50 _reflns.d_resolution_high 1.7 _reflns.number_obs 23520 _reflns.number_all 23567 _reflns.percent_possible_obs 99.8 _reflns.pdbx_Rmerge_I_obs 0.064 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 2.9 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 1.7 _reflns_shell.d_res_low 1.73 _reflns_shell.percent_possible_all 99.3 _reflns_shell.Rmerge_I_obs 0.632 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy 2.8 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 4MCF _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 16738 _refine.ls_number_reflns_all 16836 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.97 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 22.258 _refine.ls_d_res_high 1.899 _refine.ls_percent_reflns_obs 99.42 _refine.ls_R_factor_obs 0.2335 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2302 _refine.ls_R_factor_R_free 0.2639 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10.02 _refine.ls_number_reflns_R_free 1677 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] 0.5944 _refine.aniso_B[2][2] 0.5944 _refine.aniso_B[3][3] -1.1888 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] -0.0000 _refine.aniso_B[2][3] 0.0000 _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.26 _refine.pdbx_overall_phase_error 29.20 _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? # _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 1639 _refine_hist.pdbx_number_atoms_ligand 20 _refine_hist.number_atoms_solvent 26 _refine_hist.number_atoms_total 1685 _refine_hist.d_res_high 1.899 _refine_hist.d_res_low 22.258 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function f_bond_d 0.004 ? ? 1839 'X-RAY DIFFRACTION' ? f_angle_d 0.979 ? ? 2849 'X-RAY DIFFRACTION' ? f_dihedral_angle_d 8.499 ? ? 908 'X-RAY DIFFRACTION' ? f_chiral_restr 0.037 ? ? 385 'X-RAY DIFFRACTION' ? f_plane_restr 0.006 ? ? 78 'X-RAY DIFFRACTION' ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_all _refine_ls_shell.R_factor_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.number_reflns_obs 'X-RAY DIFFRACTION' . 1.8988 1.9546 1271 0.2426 100.00 0.3282 . . 144 . . . . 'X-RAY DIFFRACTION' . 1.9546 2.0177 1243 0.2327 100.00 0.2467 . . 135 . . . . 'X-RAY DIFFRACTION' . 2.0177 2.0897 1285 0.2248 100.00 0.2662 . . 138 . . . . 'X-RAY DIFFRACTION' . 2.0897 2.1733 1268 0.2277 100.00 0.3195 . . 136 . . . . 'X-RAY DIFFRACTION' . 2.1733 2.2721 1274 0.2415 100.00 0.2804 . . 139 . . . . 'X-RAY DIFFRACTION' . 2.2721 2.3918 1246 0.2422 100.00 0.3152 . . 135 . . . . 'X-RAY DIFFRACTION' . 2.3918 2.5415 1258 0.2755 100.00 0.2976 . . 142 . . . . 'X-RAY DIFFRACTION' . 2.5415 2.7374 1257 0.2848 100.00 0.3415 . . 143 . . . . 'X-RAY DIFFRACTION' . 2.7374 3.0122 1251 0.2970 99.00 0.3331 . . 143 . . . . 'X-RAY DIFFRACTION' . 3.0122 3.4467 1229 0.2386 99.00 0.2688 . . 141 . . . . 'X-RAY DIFFRACTION' . 3.4467 4.3373 1241 0.1924 97.00 0.2276 . . 142 . . . . 'X-RAY DIFFRACTION' . 4.3373 22.2598 1238 0.1818 98.00 0.1801 . . 139 . . . . # _database_PDB_matrix.entry_id 4MCF _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 4MCF _struct.title 'Crystal structure of the Gas5 GRE Mimic' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4MCF _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'RNA Double Helix, 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 2 ? C N N 1 ? D N N 2 ? E N N 1 ? F N N 2 ? G N N 1 ? H N N 2 ? I N N 3 ? J N N 3 ? K N N 3 ? L N N 3 ? M N N 4 ? N N N 4 ? O N N 4 ? P N N 4 ? Q N N 4 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 PDB 4MCF 4MCF 1 ? CAGUGGUCUU ? 2 PDB 4MCF 4MCF 2 ? AAGACUGCCUG ? # 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 4MCF C 1 ? 10 ? 4MCF 1 ? 10 ? 1 10 2 1 4MCF A 1 ? 10 ? 4MCF 1 ? 10 ? 1 10 3 1 4MCF E 1 ? 10 ? 4MCF 1 ? 10 ? 1 10 4 1 4MCF G 1 ? 10 ? 4MCF 1 ? 10 ? 1 10 5 2 4MCF D 1 ? 11 ? 4MCF 1 ? 11 ? 1 11 6 2 4MCF B 1 ? 11 ? 4MCF 1 ? 11 ? 1 11 7 2 4MCF F 1 ? 11 ? 4MCF 1 ? 11 ? 1 11 8 2 4MCF H 1 ? 11 ? 4MCF 1 ? 11 ? 1 11 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_and_software_defined_assembly PISA dimeric 2 2 author_and_software_defined_assembly PISA dimeric 2 3 author_and_software_defined_assembly PISA dimeric 2 4 author_and_software_defined_assembly PISA dimeric 2 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 920 ? 1 MORE -6 ? 1 'SSA (A^2)' 3990 ? 2 'ABSA (A^2)' 930 ? 2 MORE -15 ? 2 'SSA (A^2)' 3920 ? 3 'ABSA (A^2)' 920 ? 3 MORE -8 ? 3 'SSA (A^2)' 3790 ? 4 'ABSA (A^2)' 920 ? 4 MORE -7 ? 4 'SSA (A^2)' 3810 ? # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,M,N 2 1 C,D,I,J,K,O,P 3 1 E,F,L,Q 4 1 G,H # _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 hydrog1 hydrog ? ? C G 3 N1 ? ? ? 1_555 D C 8 N3 ? ? A G 3 B C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? C G 3 N2 ? ? ? 1_555 D C 8 O2 ? ? A G 3 B C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? C G 3 O6 ? ? ? 1_555 D C 8 N4 ? ? A G 3 B C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? C U 4 N3 ? ? ? 1_555 D G 7 O6 ? ? A U 4 B G 7 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog5 hydrog ? ? C U 4 O2 ? ? ? 1_555 D G 7 N1 ? ? A U 4 B G 7 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog6 hydrog ? ? C G 5 N1 ? ? ? 1_555 D U 6 O2 ? ? A G 5 B U 6 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog7 hydrog ? ? C G 5 O6 ? ? ? 1_555 D U 6 N3 ? ? A G 5 B U 6 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog8 hydrog ? ? C G 6 N1 ? ? ? 1_555 D C 5 N3 ? ? A G 6 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? C G 6 N2 ? ? ? 1_555 D C 5 O2 ? ? A G 6 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? C G 6 O6 ? ? ? 1_555 D C 5 N4 ? ? A G 6 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? C U 7 N3 ? ? ? 1_555 D A 4 N1 ? ? A U 7 B A 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? C U 7 O4 ? ? ? 1_555 D A 4 N6 ? ? A U 7 B A 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? C C 8 N3 ? ? ? 1_555 D G 3 N1 ? ? A C 8 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? C C 8 N4 ? ? ? 1_555 D G 3 O6 ? ? A C 8 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? C C 8 O2 ? ? ? 1_555 D G 3 N2 ? ? A C 8 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? C U 9 N3 ? ? ? 1_555 D A 2 N1 ? ? A U 9 B A 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? C U 9 O4 ? ? ? 1_555 D A 2 N6 ? ? A U 9 B A 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? C U 10 N3 ? ? ? 1_555 D A 1 N1 ? ? A U 10 B A 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? C U 10 O4 ? ? ? 1_555 D A 1 N6 ? ? A U 10 B A 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 2 N6 ? ? ? 1_555 B C 9 N3 ? ? C A 2 D C 9 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog21 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 8 N3 ? ? C G 3 D C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 8 O2 ? ? C G 3 D C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 8 N4 ? ? C G 3 D C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A U 4 N3 ? ? ? 1_555 B G 7 O6 ? ? C U 4 D G 7 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog25 hydrog ? ? A U 4 O2 ? ? ? 1_555 B G 7 N1 ? ? C U 4 D G 7 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog26 hydrog ? ? A G 5 N1 ? ? ? 1_555 B U 6 O2 ? ? C G 5 D U 6 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog27 hydrog ? ? A G 5 O6 ? ? ? 1_555 B U 6 N3 ? ? C G 5 D U 6 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog28 hydrog ? ? A G 6 N1 ? ? ? 1_555 B C 5 N3 ? ? C G 6 D C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A G 6 N2 ? ? ? 1_555 B C 5 O2 ? ? C G 6 D C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A G 6 O6 ? ? ? 1_555 B C 5 N4 ? ? C G 6 D C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A U 7 N3 ? ? ? 1_555 B A 4 N1 ? ? C U 7 D A 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A U 7 O4 ? ? ? 1_555 B A 4 N6 ? ? C U 7 D A 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A C 8 N3 ? ? ? 1_555 B G 3 N1 ? ? C C 8 D G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 8 N4 ? ? ? 1_555 B G 3 O6 ? ? C C 8 D G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A C 8 O2 ? ? ? 1_555 B G 3 N2 ? ? C C 8 D G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A U 9 N3 ? ? ? 1_555 B A 2 N1 ? ? C U 9 D A 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A U 9 O4 ? ? ? 1_555 B A 2 N6 ? ? C U 9 D A 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A U 10 N3 ? ? ? 1_555 B A 1 N1 ? ? C U 10 D A 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A U 10 O4 ? ? ? 1_555 B A 1 N6 ? ? C U 10 D A 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? B U 10 N3 ? ? ? 1_555 D U 10 O4 ? ? D U 10 B U 10 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog41 hydrog ? ? B U 10 O2 ? ? ? 1_555 D U 10 N3 ? ? D U 10 B U 10 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog42 hydrog ? ? B G 11 N1 ? ? ? 1_555 D C 9 N3 ? ? D G 11 B C 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? B G 11 N2 ? ? ? 1_555 D C 9 O2 ? ? D G 11 B C 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? B G 11 O6 ? ? ? 1_555 D C 9 N4 ? ? D G 11 B C 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? E C 1 N4 ? ? ? 1_555 F U 10 O4 ? ? E C 1 F U 10 1_555 ? ? ? ? ? ? 'C-U MISPAIR' ? ? ? hydrog46 hydrog ? ? E A 2 N6 ? ? ? 1_555 F C 9 N3 ? ? E A 2 F C 9 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog47 hydrog ? ? E G 3 N1 ? ? ? 1_555 F C 8 N3 ? ? E G 3 F C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? E G 3 N2 ? ? ? 1_555 F C 8 O2 ? ? E G 3 F C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? E G 3 O6 ? ? ? 1_555 F C 8 N4 ? ? E G 3 F C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? E U 4 N3 ? ? ? 1_555 F G 7 O6 ? ? E U 4 F G 7 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog51 hydrog ? ? E U 4 O2 ? ? ? 1_555 F G 7 N1 ? ? E U 4 F G 7 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog52 hydrog ? ? E G 5 N1 ? ? ? 1_555 F U 6 O2 ? ? E G 5 F U 6 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog53 hydrog ? ? E G 5 O6 ? ? ? 1_555 F U 6 N3 ? ? E G 5 F U 6 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog54 hydrog ? ? E G 6 N1 ? ? ? 1_555 F C 5 N3 ? ? E G 6 F C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? E G 6 N2 ? ? ? 1_555 F C 5 O2 ? ? E G 6 F C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? E G 6 O6 ? ? ? 1_555 F C 5 N4 ? ? E G 6 F C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? E U 7 N3 ? ? ? 1_555 F A 4 N1 ? ? E U 7 F A 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? E U 7 O4 ? ? ? 1_555 F A 4 N6 ? ? E U 7 F A 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? E C 8 N3 ? ? ? 1_555 F G 3 N1 ? ? E C 8 F G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? E C 8 N4 ? ? ? 1_555 F G 3 O6 ? ? E C 8 F G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? E C 8 O2 ? ? ? 1_555 F G 3 N2 ? ? E C 8 F G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? E U 9 N3 ? ? ? 1_555 F A 2 N1 ? ? E U 9 F A 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? E U 9 O4 ? ? ? 1_555 F A 2 N6 ? ? E U 9 F A 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? E U 10 N3 ? ? ? 1_555 F A 1 N1 ? ? E U 10 F A 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? E U 10 O4 ? ? ? 1_555 F A 1 N6 ? ? E U 10 F A 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? G C 1 N4 ? ? ? 1_555 H U 10 O4 ? ? G C 1 H U 10 1_555 ? ? ? ? ? ? 'C-U MISPAIR' ? ? ? hydrog67 hydrog ? ? G A 2 N6 ? ? ? 1_555 H C 9 N3 ? ? G A 2 H C 9 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog68 hydrog ? ? G G 3 N1 ? ? ? 1_555 H C 8 N3 ? ? G G 3 H C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? G G 3 N2 ? ? ? 1_555 H C 8 O2 ? ? G G 3 H C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? G G 3 O6 ? ? ? 1_555 H C 8 N4 ? ? G G 3 H C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog71 hydrog ? ? G U 4 N3 ? ? ? 1_555 H G 7 O6 ? ? G U 4 H G 7 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog72 hydrog ? ? G U 4 O2 ? ? ? 1_555 H G 7 N1 ? ? G U 4 H G 7 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog73 hydrog ? ? G G 5 N1 ? ? ? 1_555 H U 6 O2 ? ? G G 5 H U 6 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog74 hydrog ? ? G G 5 O6 ? ? ? 1_555 H U 6 N3 ? ? G G 5 H U 6 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog75 hydrog ? ? G G 6 N1 ? ? ? 1_555 H C 5 N3 ? ? G G 6 H C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog76 hydrog ? ? G G 6 N2 ? ? ? 1_555 H C 5 O2 ? ? G G 6 H C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog77 hydrog ? ? G G 6 O6 ? ? ? 1_555 H C 5 N4 ? ? G G 6 H C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog78 hydrog ? ? G U 7 N3 ? ? ? 1_555 H A 4 N1 ? ? G U 7 H A 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog79 hydrog ? ? G U 7 O4 ? ? ? 1_555 H A 4 N6 ? ? G U 7 H A 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog80 hydrog ? ? G C 8 N3 ? ? ? 1_555 H G 3 N1 ? ? G C 8 H G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog81 hydrog ? ? G C 8 N4 ? ? ? 1_555 H G 3 O6 ? ? G C 8 H G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog82 hydrog ? ? G C 8 O2 ? ? ? 1_555 H G 3 N2 ? ? G C 8 H G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog83 hydrog ? ? G U 9 N3 ? ? ? 1_555 H A 2 N1 ? ? G U 9 H A 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog84 hydrog ? ? G U 9 O4 ? ? ? 1_555 H A 2 N6 ? ? G U 9 H A 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog85 hydrog ? ? G U 10 N3 ? ? ? 1_555 H A 1 N1 ? ? G U 10 H A 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog86 hydrog ? ? G U 10 O4 ? ? ? 1_555 H A 1 N6 ? ? G U 10 H A 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # 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 SO4 102 ? 9 'BINDING SITE FOR RESIDUE SO4 B 102' AC2 Software F SO4 101 ? 6 'BINDING SITE FOR RESIDUE SO4 F 101' # 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 9 G D 7 ? G B 7 . ? 1_555 ? 2 AC1 9 G D 7 ? G B 7 . ? 2_555 ? 3 AC1 9 G D 7 ? G B 7 . ? 3_555 ? 4 AC1 9 C D 8 ? C B 8 . ? 1_555 ? 5 AC1 9 C D 8 ? C B 8 . ? 3_555 ? 6 AC1 9 C D 8 ? C B 8 . ? 2_555 ? 7 AC1 9 HOH P . ? HOH B 202 . ? 1_555 ? 8 AC1 9 HOH P . ? HOH B 202 . ? 3_555 ? 9 AC1 9 HOH P . ? HOH B 202 . ? 2_555 ? 10 AC2 6 G F 7 ? G F 7 . ? 1_555 ? 11 AC2 6 G F 7 ? G F 7 . ? 3_555 ? 12 AC2 6 G F 7 ? G F 7 . ? 2_555 ? 13 AC2 6 C F 8 ? C F 8 . ? 1_555 ? 14 AC2 6 C F 8 ? C F 8 . ? 3_555 ? 15 AC2 6 C F 8 ? C F 8 . ? 2_555 ? # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 O _pdbx_validate_symm_contact.auth_asym_id_1 D _pdbx_validate_symm_contact.auth_comp_id_1 HOH _pdbx_validate_symm_contact.auth_seq_id_1 208 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 O _pdbx_validate_symm_contact.auth_asym_id_2 D _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 208 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 2_545 _pdbx_validate_symm_contact.dist 1.70 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A SO4 101 ? I SO4 . 2 1 A SO4 101 ? I SO4 . 3 1 B SO4 101 ? J SO4 . 4 1 B SO4 101 ? J SO4 . 5 1 B SO4 102 ? K SO4 . 6 1 F SO4 101 ? L SO4 . 7 1 F SO4 101 ? L SO4 . # 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 C C 1 ? A C 1 2 1 Y 1 A C 1 ? C C 1 3 1 Y 1 A A 2 ? C A 2 4 1 Y 1 F G 11 ? F G 11 5 1 Y 1 H G 11 ? H G 11 # 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 SO4 S S N N 114 SO4 O1 O N N 115 SO4 O2 O N N 116 SO4 O3 O N N 117 SO4 O4 O N N 118 U OP3 O N N 119 U P P N N 120 U OP1 O N N 121 U OP2 O N N 122 U "O5'" O N N 123 U "C5'" C N N 124 U "C4'" C N R 125 U "O4'" O N N 126 U "C3'" C N S 127 U "O3'" O N N 128 U "C2'" C N R 129 U "O2'" O N N 130 U "C1'" C N R 131 U N1 N N N 132 U C2 C N N 133 U O2 O N N 134 U N3 N N N 135 U C4 C N N 136 U O4 O N N 137 U C5 C N N 138 U C6 C N N 139 U HOP3 H N N 140 U HOP2 H N N 141 U "H5'" H N N 142 U "H5''" H N N 143 U "H4'" H N N 144 U "H3'" H N N 145 U "HO3'" H N N 146 U "H2'" H N N 147 U "HO2'" H N N 148 U "H1'" H N N 149 U H3 H N N 150 U H5 H N N 151 U H6 H N N 152 # 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 SO4 S O1 doub N N 118 SO4 S O2 doub N N 119 SO4 S O3 sing N N 120 SO4 S O4 sing N N 121 U OP3 P sing N N 122 U OP3 HOP3 sing N N 123 U P OP1 doub N N 124 U P OP2 sing N N 125 U P "O5'" sing N N 126 U OP2 HOP2 sing N N 127 U "O5'" "C5'" sing N N 128 U "C5'" "C4'" sing N N 129 U "C5'" "H5'" sing N N 130 U "C5'" "H5''" sing N N 131 U "C4'" "O4'" sing N N 132 U "C4'" "C3'" sing N N 133 U "C4'" "H4'" sing N N 134 U "O4'" "C1'" sing N N 135 U "C3'" "O3'" sing N N 136 U "C3'" "C2'" sing N N 137 U "C3'" "H3'" sing N N 138 U "O3'" "HO3'" sing N N 139 U "C2'" "O2'" sing N N 140 U "C2'" "C1'" sing N N 141 U "C2'" "H2'" sing N N 142 U "O2'" "HO2'" sing N N 143 U "C1'" N1 sing N N 144 U "C1'" "H1'" sing N N 145 U N1 C2 sing N N 146 U N1 C6 sing N N 147 U C2 O2 doub N N 148 U C2 N3 sing N N 149 U N3 C4 sing N N 150 U N3 H3 sing N N 151 U C4 O4 doub N N 152 U C4 C5 sing N N 153 U C5 C6 doub N N 154 U C5 H5 sing N N 155 U C6 H6 sing N N 156 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 4MCF 'double helix' 4MCF 'a-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 B A 1 1_555 A U 10 1_555 -0.010 -0.030 0.012 -5.287 -10.511 3.063 1 D_A1:U10_C D 1 ? C 10 ? 20 1 1 B A 2 1_555 A U 9 1_555 -0.131 -0.190 -0.146 -4.085 -8.436 3.581 2 D_A2:U9_C D 2 ? C 9 ? 20 1 1 B G 3 1_555 A C 8 1_555 -0.286 -0.159 -0.173 -4.524 -10.855 -1.287 3 D_G3:C8_C D 3 ? C 8 ? 19 1 1 B A 4 1_555 A U 7 1_555 0.067 -0.133 -0.243 -2.722 -11.362 2.562 4 D_A4:U7_C D 4 ? C 7 ? 20 1 1 B C 5 1_555 A G 6 1_555 0.098 -0.190 0.119 -1.426 -8.588 -1.465 5 D_C5:G6_C D 5 ? C 6 ? 19 1 1 B U 6 1_555 A G 5 1_555 2.468 -0.651 -0.069 4.428 -13.649 -4.654 6 D_U6:G5_C D 6 ? C 5 ? 28 1 1 B G 7 1_555 A U 4 1_555 -2.339 -0.563 -0.003 -1.128 -10.134 0.980 7 D_G7:U4_C D 7 ? C 4 ? 28 1 1 B C 8 1_555 A G 3 1_555 0.326 -0.191 -0.098 7.341 -11.684 -1.328 8 D_C8:G3_C D 8 ? C 3 ? 19 1 1 B C 9 1_555 A A 2 1_555 0.495 -0.062 -0.029 -1.415 -15.064 3.175 9 D_C9:A2_C D 9 ? C 2 ? ? 1 1 B U 10 1_555 D U 10 1_555 1.499 -1.370 0.267 1.792 -22.051 3.932 10 D_U10:U10_B D 10 ? B 10 ? 16 1 1 B G 11 1_555 D C 9 1_555 -0.442 -0.217 -0.025 1.455 -14.026 3.365 11 D_G11:C9_B D 11 ? B 9 ? 19 1 1 C G 3 1_555 D C 8 1_555 -0.296 -0.213 -0.194 -7.877 -12.628 -1.392 12 A_G3:C8_B A 3 ? B 8 ? 19 1 1 C U 4 1_555 D G 7 1_555 2.408 -0.583 -0.079 2.449 -8.582 0.242 13 A_U4:G7_B A 4 ? B 7 ? 28 1 1 C G 5 1_555 D U 6 1_555 -2.507 -0.739 -0.077 -4.052 -13.844 -4.552 14 A_G5:U6_B A 5 ? B 6 ? 28 1 1 C G 6 1_555 D C 5 1_555 -0.161 -0.221 0.073 1.233 -9.813 -1.281 15 A_G6:C5_B A 6 ? B 5 ? 19 1 1 C U 7 1_555 D A 4 1_555 -0.036 -0.154 -0.076 1.472 -11.005 2.503 16 A_U7:A4_B A 7 ? B 4 ? 20 1 1 C C 8 1_555 D G 3 1_555 0.298 -0.141 -0.113 6.446 -12.860 -1.400 17 A_C8:G3_B A 8 ? B 3 ? 19 1 1 C U 9 1_555 D A 2 1_555 0.093 -0.192 -0.106 4.357 -6.609 2.556 18 A_U9:A2_B A 9 ? B 2 ? 20 1 1 C U 10 1_555 D A 1 1_555 0.092 0.006 -0.141 7.536 -10.716 3.940 19 A_U10:A1_B A 10 ? B 1 ? 20 1 1 F A 1 1_555 E U 10 1_555 -0.008 -0.103 -0.064 -5.278 -14.334 0.656 20 F_A1:U10_E F 1 ? E 10 ? 20 1 1 F A 2 1_555 E U 9 1_555 -0.082 -0.172 0.045 -0.215 -15.746 2.924 21 F_A2:U9_E F 2 ? E 9 ? 20 1 1 F G 3 1_555 E C 8 1_555 -0.168 -0.066 0.019 -0.412 -14.272 1.590 22 F_G3:C8_E F 3 ? E 8 ? 19 1 1 F A 4 1_555 E U 7 1_555 0.321 0.062 0.182 4.497 -13.680 2.450 23 F_A4:U7_E F 4 ? E 7 ? 20 1 1 F C 5 1_555 E G 6 1_555 -0.014 -0.178 0.079 2.976 -16.639 -2.524 24 F_C5:G6_E F 5 ? E 6 ? 19 1 1 F U 6 1_555 E G 5 1_555 2.668 -0.644 0.105 2.342 -14.062 -3.185 25 F_U6:G5_E F 6 ? E 5 ? 28 1 1 F G 7 1_555 E U 4 1_555 -2.640 -0.667 0.036 -0.215 -10.547 -0.723 26 F_G7:U4_E F 7 ? E 4 ? 28 1 1 F C 8 1_555 E G 3 1_555 0.551 -0.270 -0.220 5.692 -16.803 -0.962 27 F_C8:G3_E F 8 ? E 3 ? 19 1 1 F C 9 1_555 E A 2 1_555 2.455 -0.291 0.049 -7.149 -13.509 1.521 28 F_C9:A2_E F 9 ? E 2 ? ? 1 1 F U 10 1_555 E C 1 1_555 2.483 -1.344 0.400 -4.961 -16.744 -5.334 29 F_U10:C1_E F 10 ? E 1 ? ? ? 1 G C 1 1_555 H U 10 1_555 0.001 -0.438 -0.184 -3.995 -12.778 -26.084 30 G_C1:U10_H G 1 ? H 10 ? ? ? 1 G A 2 1_555 H C 9 1_555 -2.844 -0.357 -0.087 3.577 -13.351 6.444 31 G_A2:C9_H G 2 ? H 9 ? ? 1 1 G G 3 1_555 H C 8 1_555 -0.440 -0.182 -0.105 -6.170 -16.586 1.721 32 G_G3:C8_H G 3 ? H 8 ? 19 1 1 G U 4 1_555 H G 7 1_555 2.516 -0.472 -0.054 1.353 -10.153 -1.251 33 G_U4:G7_H G 4 ? H 7 ? 28 1 1 G G 5 1_555 H U 6 1_555 -2.623 -0.729 0.095 -4.409 -14.280 -3.750 34 G_G5:U6_H G 5 ? H 6 ? 28 1 1 G G 6 1_555 H C 5 1_555 0.071 -0.193 0.206 -0.051 -14.845 -1.549 35 G_G6:C5_H G 6 ? H 5 ? 19 1 1 G U 7 1_555 H A 4 1_555 -0.562 0.029 0.179 -4.200 -15.035 5.151 36 G_U7:A4_H G 7 ? H 4 ? 20 1 1 G C 8 1_555 H G 3 1_555 0.108 -0.168 0.087 -1.269 -13.519 1.547 37 G_C8:G3_H G 8 ? H 3 ? 19 1 1 G U 9 1_555 H A 2 1_555 -0.027 -0.234 0.181 -0.812 -14.497 1.589 38 G_U9:A2_H G 9 ? H 2 ? 20 1 1 G U 10 1_555 H A 1 1_555 0.066 -0.117 -0.235 8.884 -13.912 1.108 39 G_U10:A1_H G 10 ? H 1 ? 20 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 B A 1 1_555 A U 10 1_555 B A 2 1_555 A U 9 1_555 -0.826 -1.794 3.233 -0.961 5.564 31.889 -4.147 1.321 2.909 10.029 1.731 32.372 1 DD_A1A2:U9U10_CC D 1 ? C 10 ? D 2 ? C 9 ? 1 B A 2 1_555 A U 9 1_555 B G 3 1_555 A C 8 1_555 0.079 -1.822 3.288 1.183 11.756 26.455 -5.972 0.076 2.288 24.211 -2.436 28.931 2 DD_A2G3:C8U9_CC D 2 ? C 9 ? D 3 ? C 8 ? 1 B G 3 1_555 A C 8 1_555 B A 4 1_555 A U 7 1_555 0.765 -1.449 3.266 3.063 8.978 32.450 -3.878 -0.844 2.834 15.653 -5.340 33.773 3 DD_G3A4:U7C8_CC D 3 ? C 8 ? D 4 ? C 7 ? 1 B A 4 1_555 A U 7 1_555 B C 5 1_555 A G 6 1_555 -0.258 -1.871 3.240 -2.603 2.524 32.049 -3.805 0.014 3.098 4.553 4.696 32.249 4 DD_A4C5:G6U7_CC D 4 ? C 7 ? D 5 ? C 6 ? 1 B C 5 1_555 A G 6 1_555 B U 6 1_555 A G 5 1_555 0.053 -1.368 3.180 1.961 4.009 39.907 -2.428 0.135 3.033 5.851 -2.862 40.145 5 DD_C5U6:G5G6_CC D 5 ? C 6 ? D 6 ? C 5 ? 1 B U 6 1_555 A G 5 1_555 B G 7 1_555 A U 4 1_555 -0.352 -2.604 3.034 -2.392 16.430 13.031 -10.960 0.404 -0.099 51.586 7.509 21.078 6 DD_U6G7:U4G5_CC D 6 ? C 5 ? D 7 ? C 4 ? 1 B G 7 1_555 A U 4 1_555 B C 8 1_555 A G 3 1_555 0.006 -1.324 3.099 -1.426 6.170 40.635 -2.500 -0.151 2.874 8.819 2.038 41.105 7 DD_G7C8:G3U4_CC D 7 ? C 4 ? D 8 ? C 3 ? 1 B C 8 1_555 A G 3 1_555 B C 9 1_555 A A 2 1_555 1.032 -1.612 3.409 4.908 9.774 35.468 -3.847 -0.964 2.988 15.593 -7.830 37.064 8 DD_C8C9:A2G3_CC D 8 ? C 3 ? D 9 ? C 2 ? 1 B C 9 1_555 A A 2 1_555 B U 10 1_555 D U 10 1_555 0.029 -1.041 3.342 -0.050 4.045 38.024 -2.101 -0.051 3.218 6.187 0.076 38.231 9 DD_C9U10:U10A2_BC D 9 ? C 2 ? D 10 ? B 10 ? 1 B U 10 1_555 D U 10 1_555 B G 11 1_555 D C 9 1_555 -0.168 -1.539 3.227 2.503 9.230 23.157 -6.008 1.053 2.413 21.836 -5.922 25.029 10 DD_U10G11:C9U10_BB D 10 ? B 10 ? D 11 ? B 9 ? 1 B G 11 1_555 D C 9 1_555 C G 3 1_555 D C 8 1_555 -1.062 -1.515 3.414 -4.821 9.656 35.563 -3.682 1.019 3.028 15.378 7.678 37.113 11 DA_G11G3:C8C9_BB D 11 ? B 9 ? A 3 ? B 8 ? 1 C G 3 1_555 D C 8 1_555 C U 4 1_555 D G 7 1_555 0.019 -1.327 3.072 1.335 5.618 40.630 -2.452 0.106 2.870 8.041 -1.911 41.021 12 AA_G3U4:G7C8_BB A 3 ? B 8 ? A 4 ? B 7 ? 1 C U 4 1_555 D G 7 1_555 C G 5 1_555 D U 6 1_555 0.390 -2.604 3.046 2.870 17.115 12.757 -10.767 -0.409 -0.199 53.204 -8.923 21.509 13 AA_U4G5:U6G7_BB A 4 ? B 7 ? A 5 ? B 6 ? 1 C G 5 1_555 D U 6 1_555 C G 6 1_555 D C 5 1_555 -0.072 -1.316 3.196 -1.895 5.213 39.512 -2.502 -0.102 3.005 7.665 2.787 39.884 14 AA_G5G6:C5U6_BB A 5 ? B 6 ? A 6 ? B 5 ? 1 C G 6 1_555 D C 5 1_555 C U 7 1_555 D A 4 1_555 0.238 -1.870 3.305 1.041 2.078 32.161 -3.734 -0.245 3.187 3.746 -1.876 32.243 15 AA_G6U7:A4C5_BB A 6 ? B 5 ? A 7 ? B 4 ? 1 C U 7 1_555 D A 4 1_555 C C 8 1_555 D G 3 1_555 -0.756 -1.498 3.136 -2.545 8.196 32.084 -3.878 0.935 2.731 14.507 4.504 33.182 16 AA_U7C8:G3A4_BB A 7 ? B 4 ? A 8 ? B 3 ? 1 C C 8 1_555 D G 3 1_555 C U 9 1_555 D A 2 1_555 -0.030 -1.830 3.332 -1.487 11.063 26.909 -5.855 -0.237 2.405 22.579 3.035 29.093 17 AA_C8U9:A2G3_BB A 8 ? B 3 ? A 9 ? B 2 ? 1 C U 9 1_555 D A 2 1_555 C U 10 1_555 D A 1 1_555 0.855 -1.758 3.192 3.363 5.999 32.124 -4.079 -0.969 2.897 10.689 -5.991 32.833 18 AA_U9U10:A1A2_BB A 9 ? B 2 ? A 10 ? B 1 ? 1 C U 10 1_555 D A 1 1_555 F A 1 1_555 E U 10 1_555 -0.229 -3.705 3.651 0.062 8.862 -9.541 1.052 -0.901 5.197 -42.975 0.303 -13.015 19 AF_U10A1:U10A1_EB A 10 ? B 1 ? F 1 ? E 10 ? 1 F A 1 1_555 E U 10 1_555 F A 2 1_555 E U 9 1_555 -0.224 -1.250 3.057 -1.459 3.586 33.296 -2.708 0.169 2.918 6.231 2.535 33.514 20 FF_A1A2:U9U10_EE F 1 ? E 10 ? F 2 ? E 9 ? 1 F A 2 1_555 E U 9 1_555 F G 3 1_555 E C 8 1_555 -0.128 -1.358 3.210 -0.230 7.293 33.223 -3.416 0.184 2.857 12.566 0.396 33.993 21 FF_A2G3:C8U9_EE F 2 ? E 9 ? F 3 ? E 8 ? 1 F G 3 1_555 E C 8 1_555 F A 4 1_555 E U 7 1_555 -0.257 -1.267 3.053 -1.577 5.110 33.487 -2.918 0.211 2.843 8.799 2.716 33.900 22 FF_G3A4:U7C8_EE F 3 ? E 8 ? F 4 ? E 7 ? 1 F A 4 1_555 E U 7 1_555 F C 5 1_555 E G 6 1_555 0.278 -1.622 3.229 3.086 5.520 31.364 -3.892 0.025 2.922 10.083 -5.637 31.980 23 FF_A4C5:G6U7_EE F 4 ? E 7 ? F 5 ? E 6 ? 1 F C 5 1_555 E G 6 1_555 F U 6 1_555 E G 5 1_555 0.245 -1.260 3.323 2.061 8.611 42.270 -2.545 -0.134 3.029 11.786 -2.821 43.146 24 FF_C5U6:G5G6_EE F 5 ? E 6 ? F 6 ? E 5 ? 1 F U 6 1_555 E G 5 1_555 F G 7 1_555 E U 4 1_555 -0.569 -2.663 2.687 -1.659 20.387 11.675 -9.032 1.193 -0.919 60.390 4.913 23.521 25 FF_U6G7:U4G5_EE F 6 ? E 5 ? F 7 ? E 4 ? 1 F G 7 1_555 E U 4 1_555 F C 8 1_555 E G 3 1_555 -0.091 -1.175 3.058 -1.557 10.470 42.544 -2.470 -0.011 2.711 14.167 2.106 43.782 26 FF_G7C8:G3U4_EE F 7 ? E 4 ? F 8 ? E 3 ? 1 F C 8 1_555 E G 3 1_555 F C 9 1_555 E A 2 1_555 0.625 -1.495 3.581 4.017 11.065 41.871 -3.148 -0.436 3.151 15.127 -5.492 43.422 27 FF_C8C9:A2G3_EE F 8 ? E 3 ? F 9 ? E 2 ? 1 F C 9 1_555 E A 2 1_555 F U 10 1_555 E C 1 1_555 -0.330 -1.001 3.110 3.732 8.588 32.446 -2.992 1.118 2.711 14.984 -6.512 33.735 28 FF_C9U10:C1A2_EE F 9 ? E 2 ? F 10 ? E 1 ? 1 F U 10 1_555 E C 1 1_555 G C 1 1_555 H U 10 1_555 -3.029 -3.809 2.966 2.422 5.584 19.997 -12.163 9.072 1.484 15.621 -6.774 20.893 29 FG_U10C1:U10C1_HE F 10 ? E 1 ? G 1 ? H 10 ? 1 G C 1 1_555 H U 10 1_555 G A 2 1_555 H C 9 1_555 3.012 -1.419 3.269 -4.269 9.238 21.411 -5.995 -8.511 1.875 23.248 10.744 23.681 30 GG_C1A2:C9U10_HH G 1 ? H 10 ? G 2 ? H 9 ? 1 G A 2 1_555 H C 9 1_555 G G 3 1_555 H C 8 1_555 -0.128 -1.289 3.545 -2.457 11.489 41.886 -2.896 -0.074 3.106 15.703 3.359 43.431 31 GG_A2G3:C8C9_HH G 2 ? H 9 ? G 3 ? H 8 ? 1 G G 3 1_555 H C 8 1_555 G U 4 1_555 H G 7 1_555 0.008 -1.154 2.956 2.315 10.537 41.287 -2.504 0.190 2.596 14.645 -3.217 42.614 32 GG_G3U4:G7C8_HH G 3 ? H 8 ? G 4 ? H 7 ? 1 G U 4 1_555 H G 7 1_555 G G 5 1_555 H U 6 1_555 0.509 -2.817 2.818 1.379 20.923 12.737 -9.172 -1.033 -0.894 58.934 -3.884 24.497 33 GG_U4G5:U6G7_HH G 4 ? H 7 ? G 5 ? H 6 ? 1 G G 5 1_555 H U 6 1_555 G G 6 1_555 H C 5 1_555 -0.071 -1.192 3.159 -2.186 6.947 41.267 -2.348 -0.115 2.929 9.765 3.072 41.877 34 GG_G5G6:C5U6_HH G 5 ? H 6 ? G 6 ? H 5 ? 1 G G 6 1_555 H C 5 1_555 G U 7 1_555 H A 4 1_555 -0.034 -1.562 3.243 -1.331 7.209 30.909 -4.098 -0.168 2.815 13.293 2.455 31.745 35 GG_G6U7:A4C5_HH G 6 ? H 5 ? G 7 ? H 4 ? 1 G U 7 1_555 H A 4 1_555 G C 8 1_555 H G 3 1_555 -0.044 -1.187 3.149 0.502 5.146 34.511 -2.711 0.145 2.946 8.614 -0.840 34.884 36 GG_U7C8:G3A4_HH G 7 ? H 4 ? G 8 ? H 3 ? 1 G C 8 1_555 H G 3 1_555 G U 9 1_555 H A 2 1_555 0.080 -1.354 3.169 -0.817 6.404 32.141 -3.425 -0.273 2.850 11.423 1.457 32.766 37 GG_C8U9:A2G3_HH G 8 ? H 3 ? G 9 ? H 2 ? 1 G U 9 1_555 H A 2 1_555 G U 10 1_555 H A 1 1_555 0.296 -1.177 2.966 4.119 3.414 34.303 -2.441 0.068 2.855 5.745 -6.931 34.705 38 GG_U9U10:A1A2_HH G 9 ? H 2 ? G 10 ? H 1 ? # _atom_sites.entry_id 4MCF _atom_sites.fract_transf_matrix[1][1] 0.023087 _atom_sites.fract_transf_matrix[1][2] 0.013329 _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] 0.026659 _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] 0.003288 _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 N O P S # loop_