data_4RHD # _entry.id 4RHD # _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 4RHD pdb_00004rhd 10.2210/pdb4rhd/pdb NDB NA3224 ? ? RCSB RCSB087348 ? ? WWPDB D_1000087348 ? ? # 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 2015-07-08 2 'Structure model' 1 1 2015-07-15 3 'Structure model' 1 2 2016-05-18 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' 'Structure summary' 2 3 'Structure model' Other 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_comp_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 15 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 16 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 17 4 'Structure model' '_struct_conn.pdbx_dist_value' 18 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 19 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 20 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 21 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 22 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 23 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 24 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 25 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 26 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 27 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 28 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 29 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 30 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4RHD _pdbx_database_status.recvd_initial_deposition_date 2014-10-01 _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 'Zhang, W.' 1 'Zhang, L.' 2 'Benner, S.' 3 'Huang, Z.' 4 # _citation.id primary _citation.title 'Evolution of functional six-nucleotide DNA.' _citation.journal_abbrev J.Am.Chem.Soc. _citation.journal_volume 137 _citation.page_first 6734 _citation.page_last 6737 _citation.year 2015 _citation.journal_id_ASTM JACSAT _citation.country US _citation.journal_id_ISSN 0002-7863 _citation.journal_id_CSD 0004 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 25966323 _citation.pdbx_database_id_DOI 10.1021/jacs.5b02251 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Zhang, L.' 1 ? primary 'Yang, Z.' 2 ? primary 'Sefah, K.' 3 ? primary 'Bradley, K.M.' 4 ? primary 'Hoshika, S.' 5 ? primary 'Kim, M.J.' 6 ? primary 'Kim, H.J.' 7 ? primary 'Zhu, G.' 8 ? primary 'Jimenez, E.' 9 ? primary 'Cansiz, S.' 10 ? primary 'Teng, I.T.' 11 ? primary 'Champanhac, C.' 12 ? primary 'McLendon, C.' 13 ? primary 'Liu, C.' 14 ? primary 'Zhang, W.' 15 ? primary 'Gerloff, D.L.' 16 ? primary 'Huang, Z.' 17 ? primary 'Tan, W.' 18 ? primary 'Benner, S.A.' 19 ? # 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 'DNA 9mer novel Z nucleobase' 2838.769 4 ? ? ? ? 2 polymer syn 'DNA 9mer novel P nucleobase' 2836.799 4 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 2 ? ? ? ? 4 water nat water 18.015 64 ? ? ? ? # 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 polydeoxyribonucleotide no yes '(DG)(T5S)(DG)(DT)(1W5)(DA)(DC)(DA)(DC)' GTGTXACAC A,C,E,G ? 2 polydeoxyribonucleotide no yes '(DG)(T5S)(DG)(DT)(1WA)(DA)(DC)(DA)(DC)' GTGTXACAC B,D,F,H ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'MAGNESIUM ION' MG 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DG n 1 2 T5S n 1 3 DG n 1 4 DT n 1 5 1W5 n 1 6 DA n 1 7 DC n 1 8 DA n 1 9 DC n 2 1 DG n 2 2 T5S n 2 3 DG n 2 4 DT n 2 5 1WA n 2 6 DA n 2 7 DC n 2 8 DA n 2 9 DC 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 ? ? 'synthetic construct' ? 32630 ? 2 1 sample ? ? 'synthetic construct' ? 32630 ? # 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 1W5 'DNA linking' . '(1R)-1-(6-amino-2-hydroxy-5-nitropyridin-3-yl)-1,4-anhydro-2-deoxy-5-O-phosphono-D-erythro-pentitol' ? 'C10 H14 N3 O9 P' 351.207 1WA 'DNA linking' . '2-amino-8-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-4-hydroxy-1H-imidazo[1,2-a][1,3,5]triazine-5,8-diium' ? 'C10 H16 N5 O7 P 2' 349.237 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 T5S 'DNA linking' n ;2'-deoxy-5-(methylselanyl)uridine 5'-phosphate ; ? 'C10 H15 N2 O8 P Se' 401.168 # 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 DG 1 1 1 DG DG A . n A 1 2 T5S 2 2 2 T5S T5S A . n A 1 3 DG 3 3 3 DG DG A . n A 1 4 DT 4 4 4 DT DT A . n A 1 5 1W5 5 5 5 1W5 1W5 A . n A 1 6 DA 6 6 6 DA DA A . n A 1 7 DC 7 7 7 DC DC A . n A 1 8 DA 8 8 8 DA DA A . n A 1 9 DC 9 9 9 DC DC A . n B 2 1 DG 1 1 1 DG DG B . n B 2 2 T5S 2 2 2 T5S T5S B . n B 2 3 DG 3 3 3 DG DG B . n B 2 4 DT 4 4 4 DT DT B . n B 2 5 1WA 5 5 5 1WA 1WA B . n B 2 6 DA 6 6 6 DA DA B . n B 2 7 DC 7 7 7 DC DC B . n B 2 8 DA 8 8 8 DA DA B . n B 2 9 DC 9 9 9 DC DC B . n C 1 1 DG 1 1 1 DG DG C . n C 1 2 T5S 2 2 2 T5S T5S C . n C 1 3 DG 3 3 3 DG DG C . n C 1 4 DT 4 4 4 DT DT C . n C 1 5 1W5 5 5 5 1W5 1W5 C . n C 1 6 DA 6 6 6 DA DA C . n C 1 7 DC 7 7 7 DC DC C . n C 1 8 DA 8 8 8 DA DA C . n C 1 9 DC 9 9 9 DC DC C . n D 2 1 DG 1 1 1 DG DG D . n D 2 2 T5S 2 2 2 T5S T5S D . n D 2 3 DG 3 3 3 DG DG D . n D 2 4 DT 4 4 4 DT DT D . n D 2 5 1WA 5 5 5 1WA 1WA D . n D 2 6 DA 6 6 6 DA DA D . n D 2 7 DC 7 7 7 DC DC D . n D 2 8 DA 8 8 8 DA DA D . n D 2 9 DC 9 9 9 DC DC D . n E 1 1 DG 1 1 1 DG DG E . n E 1 2 T5S 2 2 2 T5S T5S E . n E 1 3 DG 3 3 3 DG DG E . n E 1 4 DT 4 4 4 DT DT E . n E 1 5 1W5 5 5 5 1W5 1W5 E . n E 1 6 DA 6 6 6 DA DA E . n E 1 7 DC 7 7 7 DC DC E . n E 1 8 DA 8 8 8 DA DA E . n E 1 9 DC 9 9 9 DC DC E . n F 2 1 DG 1 1 1 DG DG F . n F 2 2 T5S 2 2 2 T5S T5S F . n F 2 3 DG 3 3 3 DG DG F . n F 2 4 DT 4 4 4 DT DT F . n F 2 5 1WA 5 5 5 1WA 1WA F . n F 2 6 DA 6 6 6 DA DA F . n F 2 7 DC 7 7 7 DC DC F . n F 2 8 DA 8 8 8 DA DA F . n F 2 9 DC 9 9 9 DC DC F . n G 1 1 DG 1 1 1 DG DG G . n G 1 2 T5S 2 2 2 T5S T5S G . n G 1 3 DG 3 3 3 DG DG G . n G 1 4 DT 4 4 4 DT DT G . n G 1 5 1W5 5 5 5 1W5 1W5 G . n G 1 6 DA 6 6 6 DA DA G . n G 1 7 DC 7 7 7 DC DC G . n G 1 8 DA 8 8 8 DA DA G . n G 1 9 DC 9 9 9 DC DC G . n H 2 1 DG 1 1 1 DG DG H . n H 2 2 T5S 2 2 2 T5S T5S H . n H 2 3 DG 3 3 3 DG DG H . n H 2 4 DT 4 4 4 DT DT H . n H 2 5 1WA 5 5 5 1WA 1WA H . n H 2 6 DA 6 6 6 DA DA H . n H 2 7 DC 7 7 7 DC DC H . n H 2 8 DA 8 8 8 DA DA H . n H 2 9 DC 9 9 9 DC DC 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 MG 1 101 2 MG MG C . J 3 MG 1 101 1 MG MG H . K 4 HOH 1 101 3 HOH HOH A . K 4 HOH 2 102 5 HOH HOH A . K 4 HOH 3 103 49 HOH HOH A . K 4 HOH 4 104 53 HOH HOH A . K 4 HOH 5 105 68 HOH HOH A . L 4 HOH 1 101 1 HOH HOH B . L 4 HOH 2 102 2 HOH HOH B . L 4 HOH 3 103 6 HOH HOH B . L 4 HOH 4 104 7 HOH HOH B . L 4 HOH 5 105 8 HOH HOH B . L 4 HOH 6 106 9 HOH HOH B . L 4 HOH 7 107 31 HOH HOH B . L 4 HOH 8 108 32 HOH HOH B . L 4 HOH 9 109 33 HOH HOH B . L 4 HOH 10 110 34 HOH HOH B . L 4 HOH 11 111 45 HOH HOH B . L 4 HOH 12 112 46 HOH HOH B . L 4 HOH 13 113 47 HOH HOH B . L 4 HOH 14 114 48 HOH HOH B . L 4 HOH 15 115 55 HOH HOH B . L 4 HOH 16 116 69 HOH HOH B . M 4 HOH 1 201 10 HOH HOH C . M 4 HOH 2 202 13 HOH HOH C . M 4 HOH 3 203 14 HOH HOH C . M 4 HOH 4 204 29 HOH HOH C . M 4 HOH 5 205 30 HOH HOH C . M 4 HOH 6 206 36 HOH HOH C . M 4 HOH 7 207 37 HOH HOH C . M 4 HOH 8 208 38 HOH HOH C . M 4 HOH 9 209 51 HOH HOH C . M 4 HOH 10 210 52 HOH HOH C . M 4 HOH 11 211 56 HOH HOH C . M 4 HOH 12 212 57 HOH HOH C . M 4 HOH 13 213 58 HOH HOH C . M 4 HOH 14 214 59 HOH HOH C . M 4 HOH 15 215 60 HOH HOH C . M 4 HOH 16 216 70 HOH HOH C . M 4 HOH 17 217 12 HOH HOH C . N 4 HOH 1 101 11 HOH HOH D . N 4 HOH 2 102 15 HOH HOH D . N 4 HOH 3 103 39 HOH HOH D . N 4 HOH 4 104 40 HOH HOH D . N 4 HOH 5 105 50 HOH HOH D . N 4 HOH 6 106 62 HOH HOH D . N 4 HOH 7 107 71 HOH HOH D . O 4 HOH 1 101 17 HOH HOH E . O 4 HOH 2 102 42 HOH HOH E . O 4 HOH 3 103 64 HOH HOH E . O 4 HOH 4 104 28 HOH HOH E . P 4 HOH 1 101 19 HOH HOH F . P 4 HOH 2 102 20 HOH HOH F . P 4 HOH 3 103 21 HOH HOH F . P 4 HOH 4 104 41 HOH HOH F . P 4 HOH 5 105 63 HOH HOH F . Q 4 HOH 1 101 18 HOH HOH G . Q 4 HOH 2 102 23 HOH HOH G . Q 4 HOH 3 103 24 HOH HOH G . Q 4 HOH 4 104 25 HOH HOH G . Q 4 HOH 5 105 26 HOH HOH G . Q 4 HOH 6 106 27 HOH HOH G . Q 4 HOH 7 107 44 HOH HOH G . Q 4 HOH 8 108 54 HOH HOH G . Q 4 HOH 9 109 67 HOH HOH G . R 4 HOH 1 201 66 HOH HOH H . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal HKL-2000 'data collection' . ? 1 REFMAC refinement 5.8.0069 ? 2 HKL-2000 'data reduction' . ? 3 HKL-2000 'data scaling' . ? 4 # _cell.entry_id 4RHD _cell.length_a 59.429 _cell.length_b 59.429 _cell.length_c 87.048 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _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 4RHD _symmetry.space_group_name_H-M 'P 3' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 143 _symmetry.space_group_name_Hall ? # _exptl.entry_id 4RHD _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 3.91 _exptl_crystal.density_percent_sol 68.53 _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 6.0 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details ;10% (v/v) MPD, 40 mM Sodium cacodylate, 12 mM Spermine tetra-HCl, pH 6.0, 80 mM NaCl, 20 mM MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 298K ; # _diffrn.id 1 _diffrn.ambient_temp 200 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315r' _diffrn_detector.pdbx_collection_date 2013-12-19 _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 0.98 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SSRL BEAMLINE BL9-1' _diffrn_source.pdbx_synchrotron_site SSRL _diffrn_source.pdbx_synchrotron_beamline BL9-1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.98 # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 4RHD _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 87.05 _reflns.d_resolution_high 1.70 _reflns.number_obs 37630 _reflns.number_all 37813 _reflns.percent_possible_obs 99.5 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 4RHD _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 35787 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F . _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 87.05 _refine.ls_d_res_high 1.70 _refine.ls_percent_reflns_obs 99.63 _refine.ls_R_factor_obs 0.22361 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.22344 _refine.ls_R_factor_R_free 0.22649 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.0 _refine.ls_number_reflns_R_free 1890 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.923 _refine.correlation_coeff_Fo_to_Fc_free 0.935 _refine.B_iso_mean 33.193 _refine.aniso_B[1][1] 0.00 _refine.aniso_B[2][2] 0.00 _refine.aniso_B[3][3] 0.00 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.080 _refine.pdbx_overall_ESU_R_Free 0.081 _refine.overall_SU_ML 0.000 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 0.007 _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 1472 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 64 _refine_hist.number_atoms_total 1538 _refine_hist.d_res_high 1.70 _refine_hist.d_res_low 87.05 # 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 r_bond_refined_d 0.022 0.012 ? 1620 'X-RAY DIFFRACTION' ? r_bond_other_d 0.005 0.020 ? 812 'X-RAY DIFFRACTION' ? r_angle_refined_deg 3.198 1.368 ? 2448 'X-RAY DIFFRACTION' ? r_angle_other_deg 2.317 3.000 ? 1920 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_chiral_restr 0.304 0.200 ? 224 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.033 0.020 ? 872 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.004 0.020 ? 348 'X-RAY DIFFRACTION' ? r_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it 6.238 3.167 ? 1620 'X-RAY DIFFRACTION' ? r_scbond_other 6.239 3.167 ? 1619 'X-RAY DIFFRACTION' ? r_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_scangle_other 7.747 4.736 ? 2448 'X-RAY DIFFRACTION' ? r_long_range_B_refined 10.606 30.694 ? 2656 'X-RAY DIFFRACTION' ? r_long_range_B_other 10.606 30.681 ? 2656 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.700 _refine_ls_shell.d_res_low 1.744 _refine_ls_shell.number_reflns_R_work 2637 _refine_ls_shell.R_factor_R_work 0.163 _refine_ls_shell.percent_reflns_obs 99.78 _refine_ls_shell.R_factor_R_free 0.222 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 136 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_obs ? # _database_PDB_matrix.entry_id 4RHD _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 4RHD _struct.title 'DNA Duplex with Novel ZP Base Pair' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4RHD _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'modified nucleobase Z and P, DNA' # 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 4 ? L N N 4 ? M N N 4 ? N N N 4 ? O N N 4 ? P N N 4 ? Q N N 4 ? R 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 4RHD 4RHD 1 ? ? ? 2 PDB 4RHD 4RHD 2 ? ? ? # 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 4RHD A 1 ? 9 ? 4RHD 1 ? 9 ? 1 9 2 1 4RHD C 1 ? 9 ? 4RHD 1 ? 9 ? 1 9 3 1 4RHD E 1 ? 9 ? 4RHD 1 ? 9 ? 1 9 4 1 4RHD G 1 ? 9 ? 4RHD 1 ? 9 ? 1 9 5 2 4RHD B 1 ? 9 ? 4RHD 1 ? 9 ? 1 9 6 2 4RHD D 1 ? 9 ? 4RHD 1 ? 9 ? 1 9 7 2 4RHD F 1 ? 9 ? 4RHD 1 ? 9 ? 1 9 8 2 4RHD H 1 ? 9 ? 4RHD 1 ? 9 ? 1 9 # 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)' 910 ? 1 MORE -6 ? 1 'SSA (A^2)' 3470 ? 2 'ABSA (A^2)' 830 ? 2 MORE -1 ? 2 'SSA (A^2)' 3440 ? 3 'ABSA (A^2)' 850 ? 3 MORE -1 ? 3 'SSA (A^2)' 3440 ? 4 'ABSA (A^2)' 960 ? 4 MORE -8 ? 4 'SSA (A^2)' 3430 ? # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,K,L 2 1 C,D,I,M,N 3 1 E,F,O,P 4 1 G,H,J,Q,R # _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 # _struct_biol.id 1 _struct_biol.details ? # 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 covale1 covale both ? A DG 1 "O3'" ? ? ? 1_555 A T5S 2 P ? ? A DG 1 A T5S 2 1_555 ? ? ? ? ? ? ? 1.644 ? ? covale2 covale both ? A T5S 2 "O3'" ? ? ? 1_555 A DG 3 P ? ? A T5S 2 A DG 3 1_555 ? ? ? ? ? ? ? 1.650 ? ? covale3 covale both ? A DT 4 "O3'" ? ? ? 1_555 A 1W5 5 P ? ? A DT 4 A 1W5 5 1_555 ? ? ? ? ? ? ? 1.644 ? ? covale4 covale one ? A 1W5 5 "O3'" ? ? ? 1_555 A DA 6 P ? ? A 1W5 5 A DA 6 1_555 ? ? ? ? ? ? ? 1.585 ? ? covale5 covale both ? B DG 1 "O3'" ? ? ? 1_555 B T5S 2 P ? ? B DG 1 B T5S 2 1_555 ? ? ? ? ? ? ? 1.624 ? ? covale6 covale both ? B T5S 2 "O3'" ? ? ? 1_555 B DG 3 P ? ? B T5S 2 B DG 3 1_555 ? ? ? ? ? ? ? 1.587 ? ? covale7 covale both ? B DT 4 "O3'" ? ? ? 1_555 B 1WA 5 P ? ? B DT 4 B 1WA 5 1_555 ? ? ? ? ? ? ? 1.512 ? ? covale8 covale both ? B 1WA 5 "O3'" ? ? ? 1_555 B DA 6 P ? ? B 1WA 5 B DA 6 1_555 ? ? ? ? ? ? ? 1.530 ? ? covale9 covale both ? C DG 1 "O3'" ? ? ? 1_555 C T5S 2 P ? ? C DG 1 C T5S 2 1_555 ? ? ? ? ? ? ? 1.651 ? ? covale10 covale both ? C T5S 2 "O3'" ? ? ? 1_555 C DG 3 P ? ? C T5S 2 C DG 3 1_555 ? ? ? ? ? ? ? 1.600 ? ? covale11 covale both ? C DT 4 "O3'" ? ? ? 1_555 C 1W5 5 P ? ? C DT 4 C 1W5 5 1_555 ? ? ? ? ? ? ? 1.644 ? ? covale12 covale one ? C 1W5 5 "O3'" ? ? ? 1_555 C DA 6 P ? ? C 1W5 5 C DA 6 1_555 ? ? ? ? ? ? ? 1.484 ? ? covale13 covale both ? D DG 1 "O3'" ? ? ? 1_555 D T5S 2 P ? ? D DG 1 D T5S 2 1_555 ? ? ? ? ? ? ? 1.639 ? ? covale14 covale both ? D T5S 2 "O3'" ? ? ? 1_555 D DG 3 P ? ? D T5S 2 D DG 3 1_555 ? ? ? ? ? ? ? 1.532 ? ? covale15 covale both ? D DT 4 "O3'" ? ? ? 1_555 D 1WA 5 P ? ? D DT 4 D 1WA 5 1_555 ? ? ? ? ? ? ? 1.641 ? ? covale16 covale both ? D 1WA 5 "O3'" ? ? ? 1_555 D DA 6 P ? ? D 1WA 5 D DA 6 1_555 ? ? ? ? ? ? ? 1.679 ? ? covale17 covale both ? E DG 1 "O3'" ? ? ? 1_555 E T5S 2 P ? ? E DG 1 E T5S 2 1_555 ? ? ? ? ? ? ? 1.650 ? ? covale18 covale both ? E T5S 2 "O3'" ? ? ? 1_555 E DG 3 P ? ? E T5S 2 E DG 3 1_555 ? ? ? ? ? ? ? 1.700 ? ? covale19 covale both ? E DT 4 "O3'" ? ? ? 1_555 E 1W5 5 P ? ? E DT 4 E 1W5 5 1_555 ? ? ? ? ? ? ? 1.641 ? ? covale20 covale one ? E 1W5 5 "O3'" ? ? ? 1_555 E DA 6 P ? ? E 1W5 5 E DA 6 1_555 ? ? ? ? ? ? ? 1.612 ? ? covale21 covale both ? F DG 1 "O3'" ? ? ? 1_555 F T5S 2 P ? ? F DG 1 F T5S 2 1_555 ? ? ? ? ? ? ? 1.647 ? ? covale22 covale both ? F T5S 2 "O3'" ? ? ? 1_555 F DG 3 P ? ? F T5S 2 F DG 3 1_555 ? ? ? ? ? ? ? 1.689 ? ? covale23 covale both ? F DT 4 "O3'" ? ? ? 1_555 F 1WA 5 P ? ? F DT 4 F 1WA 5 1_555 ? ? ? ? ? ? ? 1.602 ? ? covale24 covale both ? F 1WA 5 "O3'" ? ? ? 1_555 F DA 6 P ? ? F 1WA 5 F DA 6 1_555 ? ? ? ? ? ? ? 1.683 ? ? covale25 covale both ? G DG 1 "O3'" ? ? ? 1_555 G T5S 2 P ? ? G DG 1 G T5S 2 1_555 ? ? ? ? ? ? ? 1.543 ? ? covale26 covale both ? G T5S 2 "O3'" ? ? ? 1_555 G DG 3 P ? ? G T5S 2 G DG 3 1_555 ? ? ? ? ? ? ? 1.580 ? ? covale27 covale both ? G DT 4 "O3'" ? ? ? 1_555 G 1W5 5 P ? ? G DT 4 G 1W5 5 1_555 ? ? ? ? ? ? ? 1.673 ? ? covale28 covale one ? G 1W5 5 "O3'" ? ? ? 1_555 G DA 6 P ? ? G 1W5 5 G DA 6 1_555 ? ? ? ? ? ? ? 1.509 ? ? covale29 covale both ? H DG 1 "O3'" ? ? ? 1_555 H T5S 2 P ? ? H DG 1 H T5S 2 1_555 ? ? ? ? ? ? ? 1.549 ? ? covale30 covale both ? H T5S 2 "O3'" ? ? ? 1_555 H DG 3 P ? ? H T5S 2 H DG 3 1_555 ? ? ? ? ? ? ? 1.623 ? ? covale31 covale both ? H DT 4 "O3'" ? ? ? 1_555 H 1WA 5 P ? ? H DT 4 H 1WA 5 1_555 ? ? ? ? ? ? ? 1.637 ? ? covale32 covale both ? H 1WA 5 "O3'" ? ? ? 1_555 H DA 6 P ? ? H 1WA 5 H DA 6 1_555 ? ? ? ? ? ? ? 1.525 ? ? metalc1 metalc ? ? A DG 3 OP1 ? ? ? 1_555 I MG . MG ? ? A DG 3 C MG 101 1_555 ? ? ? ? ? ? ? 2.891 ? ? metalc2 metalc ? ? C DA 8 OP2 ? ? ? 1_555 I MG . MG ? ? C DA 8 C MG 101 1_555 ? ? ? ? ? ? ? 2.137 ? ? metalc3 metalc ? ? H T5S 2 O2 ? ? ? 1_555 J MG . MG ? ? H T5S 2 H MG 101 1_555 ? ? ? ? ? ? ? 2.130 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DC 9 N3 ? ? A DG 1 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DC 9 O2 ? ? A DG 1 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DC 9 N4 ? ? A DG 1 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A T5S 2 N3 ? ? ? 1_555 B DA 8 N1 ? ? A T5S 2 B DA 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A T5S 2 O4 ? ? ? 1_555 B DA 8 N6 ? ? A T5S 2 B DA 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 7 N3 ? ? A DG 3 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 7 O2 ? ? A DG 3 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 7 N4 ? ? A DG 3 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DT 4 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 4 B DA 6 1_555 ? ? ? ? ? ? 'DT-DA PAIR' ? ? ? hydrog10 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 4 N3 ? ? A DA 6 B DT 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 4 O4 ? ? A DA 6 B DT 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 7 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 7 B DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 7 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 7 B DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 7 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 7 B DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 8 N1 ? ? ? 1_555 B T5S 2 N3 ? ? A DA 8 B T5S 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 8 N6 ? ? ? 1_555 B T5S 2 O4 ? ? A DA 8 B T5S 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 1 N2 ? ? A DC 9 B DG 1 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog18 hydrog ? ? C DG 1 N1 ? ? ? 1_555 D DC 9 N3 ? ? C DG 1 D DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? C DG 1 N2 ? ? ? 1_555 D DC 9 O2 ? ? C DG 1 D DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? C DG 1 O6 ? ? ? 1_555 D DC 9 N4 ? ? C DG 1 D DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? C T5S 2 N3 ? ? ? 1_555 D DA 8 N1 ? ? C T5S 2 D DA 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? C T5S 2 O4 ? ? ? 1_555 D DA 8 N6 ? ? C T5S 2 D DA 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? C DG 3 N1 ? ? ? 1_555 D DC 7 N3 ? ? C DG 3 D DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? C DG 3 N2 ? ? ? 1_555 D DC 7 O2 ? ? C DG 3 D DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? C DG 3 O6 ? ? ? 1_555 D DC 7 N4 ? ? C DG 3 D DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? C DT 4 N3 ? ? ? 1_555 D DA 6 N1 ? ? C DT 4 D DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C DT 4 O4 ? ? ? 1_555 D DA 6 N6 ? ? C DT 4 D DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C DA 6 N1 ? ? ? 1_555 D DT 4 N3 ? ? C DA 6 D DT 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? C DA 6 N6 ? ? ? 1_555 D DT 4 O4 ? ? C DA 6 D DT 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? C DC 7 O2 ? ? ? 1_555 D DG 3 N2 ? ? C DC 7 D DG 3 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog31 hydrog ? ? C DA 8 N1 ? ? ? 1_555 D T5S 2 N3 ? ? C DA 8 D T5S 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? C DA 8 N6 ? ? ? 1_555 D T5S 2 O4 ? ? C DA 8 D T5S 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? C DC 9 N3 ? ? ? 1_555 D DG 1 N1 ? ? C DC 9 D DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? C DC 9 N4 ? ? ? 1_555 D DG 1 O6 ? ? C DC 9 D DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? C DC 9 O2 ? ? ? 1_555 D DG 1 N2 ? ? C DC 9 D DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? E DG 1 N1 ? ? ? 1_555 F DC 9 N3 ? ? E DG 1 F DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? E DG 1 N2 ? ? ? 1_555 F DC 9 O2 ? ? E DG 1 F DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? E DG 1 O6 ? ? ? 1_555 F DC 9 N4 ? ? E DG 1 F DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? E T5S 2 N3 ? ? ? 1_555 F DA 8 N1 ? ? E T5S 2 F DA 8 1_555 ? ? ? ? ? ? 'T5S-DA PAIR' ? ? ? hydrog40 hydrog ? ? E DG 3 N1 ? ? ? 1_555 F DC 7 N3 ? ? E DG 3 F DC 7 1_555 ? ? ? ? ? ? 'DG-DC PAIR' ? ? ? hydrog41 hydrog ? ? E DT 4 N3 ? ? ? 1_555 F DA 6 N1 ? ? E DT 4 F DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? E DT 4 O4 ? ? ? 1_555 F DA 6 N6 ? ? E DT 4 F DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? E DA 6 N1 ? ? ? 1_555 F DT 4 N3 ? ? E DA 6 F DT 4 1_555 ? ? ? ? ? ? 'DA-DT PAIR' ? ? ? hydrog44 hydrog ? ? E DC 7 N3 ? ? ? 1_555 F DG 3 N1 ? ? E DC 7 F DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? E DC 7 N4 ? ? ? 1_555 F DG 3 O6 ? ? E DC 7 F DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? E DC 7 O2 ? ? ? 1_555 F DG 3 N2 ? ? E DC 7 F DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? E DA 8 N1 ? ? ? 1_555 F T5S 2 N3 ? ? E DA 8 F T5S 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? E DA 8 N6 ? ? ? 1_555 F T5S 2 O4 ? ? E DA 8 F T5S 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? E DC 9 N3 ? ? ? 1_555 F DG 1 N1 ? ? E DC 9 F DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? E DC 9 N4 ? ? ? 1_555 F DG 1 O6 ? ? E DC 9 F DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? E DC 9 O2 ? ? ? 1_555 F DG 1 N2 ? ? E DC 9 F DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? G DG 1 N1 ? ? ? 1_555 H DC 9 N3 ? ? G DG 1 H DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? G DG 1 N2 ? ? ? 1_555 H DC 9 O2 ? ? G DG 1 H DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? G DG 1 O6 ? ? ? 1_555 H DC 9 N4 ? ? G DG 1 H DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? G T5S 2 N3 ? ? ? 1_555 H DA 8 N1 ? ? G T5S 2 H DA 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? G T5S 2 O4 ? ? ? 1_555 H DA 8 N6 ? ? G T5S 2 H DA 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? G DG 3 N1 ? ? ? 1_555 H DC 7 N3 ? ? G DG 3 H DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? G DG 3 N2 ? ? ? 1_555 H DC 7 O2 ? ? G DG 3 H DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? G DG 3 O6 ? ? ? 1_555 H DC 7 N4 ? ? G DG 3 H DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? G DT 4 N3 ? ? ? 1_555 H DA 6 N1 ? ? G DT 4 H DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? G DT 4 O4 ? ? ? 1_555 H DA 6 N6 ? ? G DT 4 H DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? G DA 6 N1 ? ? ? 1_555 H DT 4 N3 ? ? G DA 6 H DT 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? G DA 6 N6 ? ? ? 1_555 H DT 4 O4 ? ? G DA 6 H DT 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? G DC 7 N3 ? ? ? 1_555 H DG 3 N1 ? ? G DC 7 H DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? G DC 7 N4 ? ? ? 1_555 H DG 3 O6 ? ? G DC 7 H DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? G DC 7 O2 ? ? ? 1_555 H DG 3 N2 ? ? G DC 7 H DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? G DA 8 N1 ? ? ? 1_555 H T5S 2 N3 ? ? G DA 8 H T5S 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? G DA 8 N6 ? ? ? 1_555 H T5S 2 O4 ? ? G DA 8 H T5S 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? G DC 9 N3 ? ? ? 1_555 H DG 1 N1 ? ? G DC 9 H DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? G DC 9 N4 ? ? ? 1_555 H DG 1 O6 ? ? G DC 9 H DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog71 hydrog ? ? G DC 9 O2 ? ? ? 1_555 H DG 1 N2 ? ? G DC 9 H DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # _pdbx_struct_conn_angle.id 1 _pdbx_struct_conn_angle.ptnr1_label_atom_id OP1 _pdbx_struct_conn_angle.ptnr1_label_alt_id ? _pdbx_struct_conn_angle.ptnr1_label_asym_id A _pdbx_struct_conn_angle.ptnr1_label_comp_id DG _pdbx_struct_conn_angle.ptnr1_label_seq_id 3 _pdbx_struct_conn_angle.ptnr1_auth_atom_id ? _pdbx_struct_conn_angle.ptnr1_auth_asym_id A _pdbx_struct_conn_angle.ptnr1_auth_comp_id DG _pdbx_struct_conn_angle.ptnr1_auth_seq_id 3 _pdbx_struct_conn_angle.ptnr1_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr1_symmetry 1_555 _pdbx_struct_conn_angle.ptnr2_label_atom_id MG _pdbx_struct_conn_angle.ptnr2_label_alt_id ? _pdbx_struct_conn_angle.ptnr2_label_asym_id I _pdbx_struct_conn_angle.ptnr2_label_comp_id MG _pdbx_struct_conn_angle.ptnr2_label_seq_id . _pdbx_struct_conn_angle.ptnr2_auth_atom_id ? _pdbx_struct_conn_angle.ptnr2_auth_asym_id C _pdbx_struct_conn_angle.ptnr2_auth_comp_id MG _pdbx_struct_conn_angle.ptnr2_auth_seq_id 101 _pdbx_struct_conn_angle.ptnr2_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr2_symmetry 1_555 _pdbx_struct_conn_angle.ptnr3_label_atom_id OP2 _pdbx_struct_conn_angle.ptnr3_label_alt_id ? _pdbx_struct_conn_angle.ptnr3_label_asym_id C _pdbx_struct_conn_angle.ptnr3_label_comp_id DA _pdbx_struct_conn_angle.ptnr3_label_seq_id 8 _pdbx_struct_conn_angle.ptnr3_auth_atom_id ? _pdbx_struct_conn_angle.ptnr3_auth_asym_id C _pdbx_struct_conn_angle.ptnr3_auth_comp_id DA _pdbx_struct_conn_angle.ptnr3_auth_seq_id 8 _pdbx_struct_conn_angle.ptnr3_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr3_symmetry 1_555 _pdbx_struct_conn_angle.value 157.2 _pdbx_struct_conn_angle.value_esd ? # 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 C MG 101 ? 2 'BINDING SITE FOR RESIDUE MG C 101' AC2 Software H MG 101 ? 2 'BINDING SITE FOR RESIDUE MG H 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 2 DG A 3 ? DG A 3 . ? 1_555 ? 2 AC1 2 DA C 8 ? DA C 8 . ? 1_555 ? 3 AC2 2 T5S H 2 ? T5S H 2 . ? 1_555 ? 4 AC2 2 DG H 3 ? DG H 3 . ? 1_555 ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "O3'" B DT 4 ? ? P B 1WA 5 ? ? 1.512 1.607 -0.095 0.012 Y 2 1 "O3'" B 1WA 5 ? ? P B DA 6 ? ? 1.530 1.607 -0.077 0.012 Y 3 1 "O3'" C 1W5 5 ? ? P C DA 6 ? ? 1.484 1.607 -0.123 0.012 Y 4 1 "O3'" C DC 7 ? ? P C DA 8 ? ? 1.688 1.607 0.081 0.012 Y 5 1 "O3'" D T5S 2 ? ? P D DG 3 ? ? 1.532 1.607 -0.075 0.012 Y 6 1 "O3'" D DG 3 ? ? P D DT 4 ? ? 1.532 1.607 -0.075 0.012 Y 7 1 "O3'" D 1WA 5 ? ? P D DA 6 ? ? 1.679 1.607 0.072 0.012 Y 8 1 "O3'" E T5S 2 ? ? P E DG 3 ? ? 1.700 1.607 0.093 0.012 Y 9 1 "O3'" F T5S 2 ? ? P F DG 3 ? ? 1.689 1.607 0.082 0.012 Y 10 1 "O3'" F 1WA 5 ? ? P F DA 6 ? ? 1.683 1.607 0.076 0.012 Y 11 1 "O3'" G 1W5 5 ? ? P G DA 6 ? ? 1.509 1.607 -0.098 0.012 Y 12 1 "O3'" G DA 8 ? ? P G DC 9 ? ? 1.522 1.607 -0.085 0.012 Y 13 1 "O3'" H 1WA 5 ? ? P H DA 6 ? ? 1.525 1.607 -0.082 0.012 Y # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DG 3 ? ? "C4'" A DG 3 ? ? "C3'" A DG 3 ? ? 101.98 104.50 -2.52 0.40 N 2 1 "O5'" A DT 4 ? ? P A DT 4 ? ? OP1 A DT 4 ? ? 118.54 110.70 7.84 1.20 N 3 1 "O4'" A DT 4 ? ? "C4'" A DT 4 ? ? "C3'" A DT 4 ? ? 101.74 104.50 -2.76 0.40 N 4 1 "C3'" A DT 4 ? ? "O3'" A DT 4 ? ? P A 1W5 5 ? ? 128.79 119.70 9.09 1.20 Y 5 1 "O5'" A DC 7 ? ? P A DC 7 ? ? OP1 A DC 7 ? ? 128.07 110.70 17.37 1.20 N 6 1 "O5'" A DC 7 ? ? P A DC 7 ? ? OP2 A DC 7 ? ? 93.03 105.70 -12.67 0.90 N 7 1 "O5'" A DA 8 ? ? P A DA 8 ? ? OP1 A DA 8 ? ? 119.33 110.70 8.63 1.20 N 8 1 "O5'" A DA 8 ? ? P A DA 8 ? ? OP2 A DA 8 ? ? 99.14 105.70 -6.56 0.90 N 9 1 "O5'" A DC 9 ? ? P A DC 9 ? ? OP1 A DC 9 ? ? 122.69 110.70 11.99 1.20 N 10 1 "O5'" A DC 9 ? ? P A DC 9 ? ? OP2 A DC 9 ? ? 92.67 105.70 -13.03 0.90 N 11 1 "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? "O3'" A DC 9 ? ? 127.39 112.30 15.09 2.00 N 12 1 "O4'" A DC 9 ? ? "C1'" A DC 9 ? ? N1 A DC 9 ? ? 112.47 108.30 4.17 0.30 N 13 1 "C5'" B DG 1 ? ? "C4'" B DG 1 ? ? "O4'" B DG 1 ? ? 119.53 109.80 9.73 1.10 N 14 1 "O4'" B DG 3 ? ? "C1'" B DG 3 ? ? N9 B DG 3 ? ? 103.48 108.00 -4.52 0.70 N 15 1 "C3'" B DT 4 ? ? "O3'" B DT 4 ? ? P B 1WA 5 ? ? 136.54 119.70 16.84 1.20 Y 16 1 "O3'" B DT 4 ? ? P B 1WA 5 ? ? OP2 B 1WA 5 ? ? 117.17 110.50 6.67 1.10 Y 17 1 "C3'" B 1WA 5 ? ? "O3'" B 1WA 5 ? ? P B DA 6 ? ? 127.83 119.70 8.13 1.20 Y 18 1 "O5'" B DC 7 ? ? P B DC 7 ? ? OP1 B DC 7 ? ? 123.24 110.70 12.54 1.20 N 19 1 "C3'" C DT 4 ? ? "O3'" C DT 4 ? ? P C 1W5 5 ? ? 110.79 119.70 -8.91 1.20 Y 20 1 "O5'" C DA 6 ? ? P C DA 6 ? ? OP1 C DA 6 ? ? 119.08 110.70 8.38 1.20 N 21 1 "O5'" C DA 8 ? ? P C DA 8 ? ? OP1 C DA 8 ? ? 99.86 105.70 -5.84 0.90 N 22 1 "C5'" D DG 3 ? ? "C4'" D DG 3 ? ? "O4'" D DG 3 ? ? 116.93 109.80 7.13 1.10 N 23 1 "O3'" D DT 4 ? ? P D 1WA 5 ? ? OP1 D 1WA 5 ? ? 90.01 105.20 -15.19 2.20 Y 24 1 "O5'" D DA 6 ? ? P D DA 6 ? ? OP1 D DA 6 ? ? 119.19 110.70 8.49 1.20 N 25 1 "O5'" D DA 8 ? ? P D DA 8 ? ? OP1 D DA 8 ? ? 119.39 110.70 8.69 1.20 N 26 1 "O5'" D DA 8 ? ? P D DA 8 ? ? OP2 D DA 8 ? ? 99.66 105.70 -6.04 0.90 N 27 1 "O5'" D DA 8 ? ? "C5'" D DA 8 ? ? "C4'" D DA 8 ? ? 104.22 109.40 -5.18 0.80 N 28 1 "O4'" E DG 1 ? ? "C1'" E DG 1 ? ? N9 E DG 1 ? ? 110.32 108.30 2.02 0.30 N 29 1 "O4'" E DG 3 ? ? "C4'" E DG 3 ? ? "C3'" E DG 3 ? ? 101.76 104.50 -2.74 0.40 N 30 1 "C4'" E DG 3 ? ? "C3'" E DG 3 ? ? "C2'" E DG 3 ? ? 97.93 102.20 -4.27 0.70 N 31 1 "C3'" E DG 3 ? ? "O3'" E DG 3 ? ? P E DT 4 ? ? 111.84 119.70 -7.86 1.20 Y 32 1 "O5'" E DT 4 ? ? "C5'" E DT 4 ? ? "C4'" E DT 4 ? ? 100.84 109.40 -8.56 0.80 N 33 1 "C5'" E DT 4 ? ? "C4'" E DT 4 ? ? "O4'" E DT 4 ? ? 121.95 109.80 12.15 1.10 N 34 1 "C4'" E DT 4 ? ? "C3'" E DT 4 ? ? "O3'" E DT 4 ? ? 132.95 112.30 20.65 2.00 N 35 1 "C3'" E DT 4 ? ? "O3'" E DT 4 ? ? P E 1W5 5 ? ? 141.24 119.70 21.54 1.20 Y 36 1 "O3'" E DT 4 ? ? P E 1W5 5 ? ? "O5'" E 1W5 5 ? ? 121.89 104.00 17.89 1.90 Y 37 1 "O3'" E 1W5 5 ? ? P E DA 6 ? ? "O5'" E DA 6 ? ? 76.91 104.00 -27.09 1.90 Y 38 1 "O5'" E DA 6 ? ? P E DA 6 ? ? OP2 E DA 6 ? ? 119.23 110.70 8.53 1.20 N 39 1 P E DA 6 ? ? "O5'" E DA 6 ? ? "C5'" E DA 6 ? ? 131.36 120.90 10.46 1.60 N 40 1 "O4'" E DA 6 ? ? "C1'" E DA 6 ? ? N9 E DA 6 ? ? 110.66 108.30 2.36 0.30 N 41 1 "C3'" E DA 6 ? ? "O3'" E DA 6 ? ? P E DC 7 ? ? 110.84 119.70 -8.86 1.20 Y 42 1 "O5'" E DA 8 ? ? P E DA 8 ? ? OP1 E DA 8 ? ? 98.60 105.70 -7.10 0.90 N 43 1 "C3'" F 1WA 5 ? ? "O3'" F 1WA 5 ? ? P F DA 6 ? ? 111.39 119.70 -8.31 1.20 Y 44 1 "O5'" F DA 6 ? ? P F DA 6 ? ? OP1 F DA 6 ? ? 98.38 105.70 -7.32 0.90 N 45 1 "O5'" F DC 7 ? ? P F DC 7 ? ? OP1 F DC 7 ? ? 121.19 110.70 10.49 1.20 N 46 1 "O4'" G DA 8 ? ? "C4'" G DA 8 ? ? "C3'" G DA 8 ? ? 101.60 104.50 -2.90 0.40 N 47 1 "C5'" H DG 1 ? ? "C4'" H DG 1 ? ? "C3'" H DG 1 ? ? 123.67 115.70 7.97 1.20 N 48 1 "C5'" H DG 1 ? ? "C4'" H DG 1 ? ? "O4'" H DG 1 ? ? 117.42 109.80 7.62 1.10 N 49 1 "C3'" H DT 4 ? ? "O3'" H DT 4 ? ? P H 1WA 5 ? ? 131.96 119.70 12.26 1.20 Y 50 1 "O3'" H DT 4 ? ? P H 1WA 5 ? ? "O5'" H 1WA 5 ? ? 83.60 104.00 -20.40 1.90 Y 51 1 "O3'" H 1WA 5 ? ? P H DA 6 ? ? "O5'" H DA 6 ? ? 74.12 104.00 -29.88 1.90 Y 52 1 "O3'" H 1WA 5 ? ? P H DA 6 ? ? OP2 H DA 6 ? ? 120.15 110.50 9.65 1.10 Y # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DC _pdbx_validate_planes.auth_asym_id F _pdbx_validate_planes.auth_seq_id 9 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.063 _pdbx_validate_planes.type 'SIDE CHAIN' # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A T5S 2 A T5S 2 ? DT ? 2 B T5S 2 B T5S 2 ? DT ? 3 C T5S 2 C T5S 2 ? DT ? 4 D T5S 2 D T5S 2 ? DT ? 5 E T5S 2 E T5S 2 ? DT ? 6 F T5S 2 F T5S 2 ? DT ? 7 G T5S 2 G T5S 2 ? DT ? 8 H T5S 2 H T5S 2 ? DT ? # 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 C HOH 210 ? M HOH . 2 1 C HOH 212 ? M HOH . 3 1 C HOH 216 ? M HOH . 4 1 G HOH 105 ? Q HOH . 5 1 G HOH 106 ? Q HOH . 6 1 G HOH 107 ? Q HOH . # 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 1W5 N N N N 1 1W5 P P N N 2 1W5 C1 C Y N 3 1W5 C2 C Y N 4 1W5 O2 O N N 5 1W5 N3 N Y N 6 1W5 C4 C Y N 7 1W5 N4 N N N 8 1W5 C5 C Y N 9 1W5 C6 C Y N 10 1W5 "C1'" C N R 11 1W5 "C2'" C N N 12 1W5 "C3'" C N S 13 1W5 "O3'" O N N 14 1W5 "C4'" C N R 15 1W5 "O4'" O N N 16 1W5 "C5'" C N N 17 1W5 "O5'" O N N 18 1W5 ON1 O N N 19 1W5 ON2 O N N 20 1W5 OP1 O N N 21 1W5 OP2 O N N 22 1W5 OP3 O N N 23 1W5 H1 H N N 24 1W5 H2 H N N 25 1W5 H4 H N N 26 1W5 H5 H N N 27 1W5 H6 H N N 28 1W5 H7 H N N 29 1W5 H8 H N N 30 1W5 H9 H N N 31 1W5 H10 H N N 32 1W5 H11 H N N 33 1W5 H12 H N N 34 1W5 HOP1 H N N 35 1W5 HOP3 H N N 36 1W5 H15 H N N 37 1WA OP3 O N N 38 1WA P P N N 39 1WA N1 N Y N 40 1WA C2 C Y N 41 1WA N2 N N N 42 1WA N3 N Y N 43 1WA C4 C Y N 44 1WA N5 N Y N 45 1WA C6 C Y N 46 1WA O6 O N N 47 1WA C7 C Y N 48 1WA C8 C Y N 49 1WA N9 N Y N 50 1WA "C1'" C N R 51 1WA "C2'" C N N 52 1WA "C3'" C N S 53 1WA "O3'" O N N 54 1WA "C4'" C N R 55 1WA "O4'" O N N 56 1WA "C5'" C N N 57 1WA "O5'" O N N 58 1WA OP1 O N N 59 1WA OP2 O N N 60 1WA HOP3 H N N 61 1WA HN2 H N N 62 1WA HN2A H N N 63 1WA HN3 H N N 64 1WA H7 H N N 65 1WA H8 H N N 66 1WA "H1'" H N N 67 1WA "H2'" H N N 68 1WA "H2'A" H N N 69 1WA "H3'" H N N 70 1WA "HO3'" H N N 71 1WA "H4'" H N N 72 1WA "H5'" H N N 73 1WA "H5'A" H N N 74 1WA HOP1 H N N 75 1WA HO6 H N N 76 DA OP3 O N N 77 DA P P N N 78 DA OP1 O N N 79 DA OP2 O N N 80 DA "O5'" O N N 81 DA "C5'" C N N 82 DA "C4'" C N R 83 DA "O4'" O N N 84 DA "C3'" C N S 85 DA "O3'" O N N 86 DA "C2'" C N N 87 DA "C1'" C N R 88 DA N9 N Y N 89 DA C8 C Y N 90 DA N7 N Y N 91 DA C5 C Y N 92 DA C6 C Y N 93 DA N6 N N N 94 DA N1 N Y N 95 DA C2 C Y N 96 DA N3 N Y N 97 DA C4 C Y N 98 DA HOP3 H N N 99 DA HOP2 H N N 100 DA "H5'" H N N 101 DA "H5''" H N N 102 DA "H4'" H N N 103 DA "H3'" H N N 104 DA "HO3'" H N N 105 DA "H2'" H N N 106 DA "H2''" H N N 107 DA "H1'" H N N 108 DA H8 H N N 109 DA H61 H N N 110 DA H62 H N N 111 DA H2 H N N 112 DC OP3 O N N 113 DC P P N N 114 DC OP1 O N N 115 DC OP2 O N N 116 DC "O5'" O N N 117 DC "C5'" C N N 118 DC "C4'" C N R 119 DC "O4'" O N N 120 DC "C3'" C N S 121 DC "O3'" O N N 122 DC "C2'" C N N 123 DC "C1'" C N R 124 DC N1 N N N 125 DC C2 C N N 126 DC O2 O N N 127 DC N3 N N N 128 DC C4 C N N 129 DC N4 N N N 130 DC C5 C N N 131 DC C6 C N N 132 DC HOP3 H N N 133 DC HOP2 H N N 134 DC "H5'" H N N 135 DC "H5''" H N N 136 DC "H4'" H N N 137 DC "H3'" H N N 138 DC "HO3'" H N N 139 DC "H2'" H N N 140 DC "H2''" H N N 141 DC "H1'" H N N 142 DC H41 H N N 143 DC H42 H N N 144 DC H5 H N N 145 DC H6 H N N 146 DG OP3 O N N 147 DG P P N N 148 DG OP1 O N N 149 DG OP2 O N N 150 DG "O5'" O N N 151 DG "C5'" C N N 152 DG "C4'" C N R 153 DG "O4'" O N N 154 DG "C3'" C N S 155 DG "O3'" O N N 156 DG "C2'" C N N 157 DG "C1'" C N R 158 DG N9 N Y N 159 DG C8 C Y N 160 DG N7 N Y N 161 DG C5 C Y N 162 DG C6 C N N 163 DG O6 O N N 164 DG N1 N N N 165 DG C2 C N N 166 DG N2 N N N 167 DG N3 N N N 168 DG C4 C Y N 169 DG HOP3 H N N 170 DG HOP2 H N N 171 DG "H5'" H N N 172 DG "H5''" H N N 173 DG "H4'" H N N 174 DG "H3'" H N N 175 DG "HO3'" H N N 176 DG "H2'" H N N 177 DG "H2''" H N N 178 DG "H1'" H N N 179 DG H8 H N N 180 DG H1 H N N 181 DG H21 H N N 182 DG H22 H N N 183 DT OP3 O N N 184 DT P P N N 185 DT OP1 O N N 186 DT OP2 O N N 187 DT "O5'" O N N 188 DT "C5'" C N N 189 DT "C4'" C N R 190 DT "O4'" O N N 191 DT "C3'" C N S 192 DT "O3'" O N N 193 DT "C2'" C N N 194 DT "C1'" C N R 195 DT N1 N N N 196 DT C2 C N N 197 DT O2 O N N 198 DT N3 N N N 199 DT C4 C N N 200 DT O4 O N N 201 DT C5 C N N 202 DT C7 C N N 203 DT C6 C N N 204 DT HOP3 H N N 205 DT HOP2 H N N 206 DT "H5'" H N N 207 DT "H5''" H N N 208 DT "H4'" H N N 209 DT "H3'" H N N 210 DT "HO3'" H N N 211 DT "H2'" H N N 212 DT "H2''" H N N 213 DT "H1'" H N N 214 DT H3 H N N 215 DT H71 H N N 216 DT H72 H N N 217 DT H73 H N N 218 DT H6 H N N 219 HOH O O N N 220 HOH H1 H N N 221 HOH H2 H N N 222 MG MG MG N N 223 T5S OP3 O N N 224 T5S P P N N 225 T5S OP1 O N N 226 T5S OP2 O N N 227 T5S "O5'" O N N 228 T5S N1 N N N 229 T5S C6 C N N 230 T5S C2 C N N 231 T5S O2 O N N 232 T5S N3 N N N 233 T5S C4 C N N 234 T5S O4 O N N 235 T5S C5 C N N 236 T5S SE SE N N 237 T5S CH3 C N N 238 T5S "C2'" C N N 239 T5S "C5'" C N N 240 T5S "C4'" C N R 241 T5S "O4'" O N N 242 T5S "C1'" C N R 243 T5S "C3'" C N S 244 T5S "O3'" O N N 245 T5S HOP3 H N N 246 T5S HOP2 H N N 247 T5S H6 H N N 248 T5S HN3 H N N 249 T5S HH3 H N N 250 T5S HH3A H N N 251 T5S HH3B H N N 252 T5S "H2'" H N N 253 T5S "H2'A" H N N 254 T5S "H5'" H N N 255 T5S "H5'A" H N N 256 T5S "H4'" H N N 257 T5S "H1'" H N N 258 T5S "H3'" H N N 259 T5S "HO3'" H N N 260 # 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 1W5 "O3'" "C3'" sing N N 1 1W5 N4 C4 sing N N 2 1W5 "C3'" "C2'" sing N N 3 1W5 "C3'" "C4'" sing N N 4 1W5 "C2'" "C1'" sing N N 5 1W5 N3 C4 doub Y N 6 1W5 N3 C2 sing Y N 7 1W5 O2 C2 sing N N 8 1W5 C4 C5 sing Y N 9 1W5 C2 C1 doub Y N 10 1W5 ON1 N doub N N 11 1W5 C5 N sing N N 12 1W5 C5 C6 doub Y N 13 1W5 C1 C6 sing Y N 14 1W5 C1 "C1'" sing N N 15 1W5 N ON2 sing N N 16 1W5 OP2 P doub N N 17 1W5 "C1'" "O4'" sing N N 18 1W5 "O5'" P sing N N 19 1W5 "O5'" "C5'" sing N N 20 1W5 "C4'" "C5'" sing N N 21 1W5 "C4'" "O4'" sing N N 22 1W5 P OP1 sing N N 23 1W5 P OP3 sing N N 24 1W5 N4 H1 sing N N 25 1W5 N4 H2 sing N N 26 1W5 C6 H4 sing N N 27 1W5 "C1'" H5 sing N N 28 1W5 "C2'" H6 sing N N 29 1W5 "C2'" H7 sing N N 30 1W5 "C3'" H8 sing N N 31 1W5 "O3'" H9 sing N N 32 1W5 "C4'" H10 sing N N 33 1W5 "C5'" H11 sing N N 34 1W5 "C5'" H12 sing N N 35 1W5 OP1 HOP1 sing N N 36 1W5 OP3 HOP3 sing N N 37 1W5 O2 H15 sing N N 38 1WA P OP3 sing N N 39 1WA OP3 HOP3 sing N N 40 1WA OP2 P doub N N 41 1WA "O5'" P sing N N 42 1WA P OP1 sing N N 43 1WA C2 N1 doub Y N 44 1WA N1 C6 sing Y N 45 1WA N2 C2 sing N N 46 1WA C2 N3 sing Y N 47 1WA N2 HN2 sing N N 48 1WA N2 HN2A sing N N 49 1WA N3 C4 sing Y N 50 1WA N3 HN3 sing N N 51 1WA C4 N5 sing Y N 52 1WA C4 N9 doub Y N 53 1WA C6 N5 doub Y N 54 1WA N5 C7 sing Y N 55 1WA C6 O6 sing N N 56 1WA C7 C8 doub Y N 57 1WA C7 H7 sing N N 58 1WA N9 C8 sing Y N 59 1WA C8 H8 sing N N 60 1WA N9 "C1'" sing N N 61 1WA "C2'" "C1'" sing N N 62 1WA "C1'" "O4'" sing N N 63 1WA "C1'" "H1'" sing N N 64 1WA "C2'" "C3'" sing N N 65 1WA "C2'" "H2'" sing N N 66 1WA "C2'" "H2'A" sing N N 67 1WA "O3'" "C3'" sing N N 68 1WA "C3'" "C4'" sing N N 69 1WA "C3'" "H3'" sing N N 70 1WA "O3'" "HO3'" sing N N 71 1WA "C4'" "O4'" sing N N 72 1WA "C4'" "C5'" sing N N 73 1WA "C4'" "H4'" sing N N 74 1WA "O5'" "C5'" sing N N 75 1WA "C5'" "H5'" sing N N 76 1WA "C5'" "H5'A" sing N N 77 1WA OP1 HOP1 sing N N 78 1WA O6 HO6 sing N N 79 DA OP3 P sing N N 80 DA OP3 HOP3 sing N N 81 DA P OP1 doub N N 82 DA P OP2 sing N N 83 DA P "O5'" sing N N 84 DA OP2 HOP2 sing N N 85 DA "O5'" "C5'" sing N N 86 DA "C5'" "C4'" sing N N 87 DA "C5'" "H5'" sing N N 88 DA "C5'" "H5''" sing N N 89 DA "C4'" "O4'" sing N N 90 DA "C4'" "C3'" sing N N 91 DA "C4'" "H4'" sing N N 92 DA "O4'" "C1'" sing N N 93 DA "C3'" "O3'" sing N N 94 DA "C3'" "C2'" sing N N 95 DA "C3'" "H3'" sing N N 96 DA "O3'" "HO3'" sing N N 97 DA "C2'" "C1'" sing N N 98 DA "C2'" "H2'" sing N N 99 DA "C2'" "H2''" sing N N 100 DA "C1'" N9 sing N N 101 DA "C1'" "H1'" sing N N 102 DA N9 C8 sing Y N 103 DA N9 C4 sing Y N 104 DA C8 N7 doub Y N 105 DA C8 H8 sing N N 106 DA N7 C5 sing Y N 107 DA C5 C6 sing Y N 108 DA C5 C4 doub Y N 109 DA C6 N6 sing N N 110 DA C6 N1 doub Y N 111 DA N6 H61 sing N N 112 DA N6 H62 sing N N 113 DA N1 C2 sing Y N 114 DA C2 N3 doub Y N 115 DA C2 H2 sing N N 116 DA N3 C4 sing Y N 117 DC OP3 P sing N N 118 DC OP3 HOP3 sing N N 119 DC P OP1 doub N N 120 DC P OP2 sing N N 121 DC P "O5'" sing N N 122 DC OP2 HOP2 sing N N 123 DC "O5'" "C5'" sing N N 124 DC "C5'" "C4'" sing N N 125 DC "C5'" "H5'" sing N N 126 DC "C5'" "H5''" sing N N 127 DC "C4'" "O4'" sing N N 128 DC "C4'" "C3'" sing N N 129 DC "C4'" "H4'" sing N N 130 DC "O4'" "C1'" sing N N 131 DC "C3'" "O3'" sing N N 132 DC "C3'" "C2'" sing N N 133 DC "C3'" "H3'" sing N N 134 DC "O3'" "HO3'" sing N N 135 DC "C2'" "C1'" sing N N 136 DC "C2'" "H2'" sing N N 137 DC "C2'" "H2''" sing N N 138 DC "C1'" N1 sing N N 139 DC "C1'" "H1'" sing N N 140 DC N1 C2 sing N N 141 DC N1 C6 sing N N 142 DC C2 O2 doub N N 143 DC C2 N3 sing N N 144 DC N3 C4 doub N N 145 DC C4 N4 sing N N 146 DC C4 C5 sing N N 147 DC N4 H41 sing N N 148 DC N4 H42 sing N N 149 DC C5 C6 doub N N 150 DC C5 H5 sing N N 151 DC C6 H6 sing N N 152 DG OP3 P sing N N 153 DG OP3 HOP3 sing N N 154 DG P OP1 doub N N 155 DG P OP2 sing N N 156 DG P "O5'" sing N N 157 DG OP2 HOP2 sing N N 158 DG "O5'" "C5'" sing N N 159 DG "C5'" "C4'" sing N N 160 DG "C5'" "H5'" sing N N 161 DG "C5'" "H5''" sing N N 162 DG "C4'" "O4'" sing N N 163 DG "C4'" "C3'" sing N N 164 DG "C4'" "H4'" sing N N 165 DG "O4'" "C1'" sing N N 166 DG "C3'" "O3'" sing N N 167 DG "C3'" "C2'" sing N N 168 DG "C3'" "H3'" sing N N 169 DG "O3'" "HO3'" sing N N 170 DG "C2'" "C1'" sing N N 171 DG "C2'" "H2'" sing N N 172 DG "C2'" "H2''" sing N N 173 DG "C1'" N9 sing N N 174 DG "C1'" "H1'" sing N N 175 DG N9 C8 sing Y N 176 DG N9 C4 sing Y N 177 DG C8 N7 doub Y N 178 DG C8 H8 sing N N 179 DG N7 C5 sing Y N 180 DG C5 C6 sing N N 181 DG C5 C4 doub Y N 182 DG C6 O6 doub N N 183 DG C6 N1 sing N N 184 DG N1 C2 sing N N 185 DG N1 H1 sing N N 186 DG C2 N2 sing N N 187 DG C2 N3 doub N N 188 DG N2 H21 sing N N 189 DG N2 H22 sing N N 190 DG N3 C4 sing N N 191 DT OP3 P sing N N 192 DT OP3 HOP3 sing N N 193 DT P OP1 doub N N 194 DT P OP2 sing N N 195 DT P "O5'" sing N N 196 DT OP2 HOP2 sing N N 197 DT "O5'" "C5'" sing N N 198 DT "C5'" "C4'" sing N N 199 DT "C5'" "H5'" sing N N 200 DT "C5'" "H5''" sing N N 201 DT "C4'" "O4'" sing N N 202 DT "C4'" "C3'" sing N N 203 DT "C4'" "H4'" sing N N 204 DT "O4'" "C1'" sing N N 205 DT "C3'" "O3'" sing N N 206 DT "C3'" "C2'" sing N N 207 DT "C3'" "H3'" sing N N 208 DT "O3'" "HO3'" sing N N 209 DT "C2'" "C1'" sing N N 210 DT "C2'" "H2'" sing N N 211 DT "C2'" "H2''" sing N N 212 DT "C1'" N1 sing N N 213 DT "C1'" "H1'" sing N N 214 DT N1 C2 sing N N 215 DT N1 C6 sing N N 216 DT C2 O2 doub N N 217 DT C2 N3 sing N N 218 DT N3 C4 sing N N 219 DT N3 H3 sing N N 220 DT C4 O4 doub N N 221 DT C4 C5 sing N N 222 DT C5 C7 sing N N 223 DT C5 C6 doub N N 224 DT C7 H71 sing N N 225 DT C7 H72 sing N N 226 DT C7 H73 sing N N 227 DT C6 H6 sing N N 228 HOH O H1 sing N N 229 HOH O H2 sing N N 230 T5S P OP3 sing N N 231 T5S OP3 HOP3 sing N N 232 T5S OP1 P doub N N 233 T5S P OP2 sing N N 234 T5S P "O5'" sing N N 235 T5S OP2 HOP2 sing N N 236 T5S "C5'" "O5'" sing N N 237 T5S "C1'" N1 sing N N 238 T5S C6 N1 sing N N 239 T5S N1 C2 sing N N 240 T5S C6 C5 doub N N 241 T5S C6 H6 sing N N 242 T5S C2 O2 doub N N 243 T5S C2 N3 sing N N 244 T5S C4 N3 sing N N 245 T5S N3 HN3 sing N N 246 T5S C5 C4 sing N N 247 T5S C4 O4 doub N N 248 T5S SE C5 sing N N 249 T5S CH3 SE sing N N 250 T5S CH3 HH3 sing N N 251 T5S CH3 HH3A sing N N 252 T5S CH3 HH3B sing N N 253 T5S "C3'" "C2'" sing N N 254 T5S "C2'" "C1'" sing N N 255 T5S "C2'" "H2'" sing N N 256 T5S "C2'" "H2'A" sing N N 257 T5S "C5'" "C4'" sing N N 258 T5S "C5'" "H5'" sing N N 259 T5S "C5'" "H5'A" sing N N 260 T5S "C3'" "C4'" sing N N 261 T5S "C4'" "O4'" sing N N 262 T5S "C4'" "H4'" sing N N 263 T5S "O4'" "C1'" sing N N 264 T5S "C1'" "H1'" sing N N 265 T5S "O3'" "C3'" sing N N 266 T5S "C3'" "H3'" sing N N 267 T5S "O3'" "HO3'" sing N N 268 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 4RHD 'double helix' 4RHD 'a-form double helix' 4RHD 'mismatched base pair' # 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 A DG 1 1_555 B DC 9 1_555 0.454 -0.299 -1.106 -21.545 -3.597 -8.149 1 A_DG1:DC9_B A 1 ? B 9 ? 19 1 1 A T5S 2 1_555 B DA 8 1_555 0.092 -0.397 -0.388 -6.103 -13.589 6.497 2 A_T5S2:DA8_B A 2 ? B 8 ? 20 1 1 A DG 3 1_555 B DC 7 1_555 -0.894 -0.551 -0.479 -0.023 8.247 -4.981 3 A_DG3:DC7_B A 3 ? B 7 ? 19 1 1 A DT 4 1_555 B DA 6 1_555 -1.082 0.432 -1.581 16.556 -24.370 -19.382 4 A_DT4:DA6_B A 4 ? B 6 ? ? ? 1 A DA 6 1_555 B DT 4 1_555 -0.315 0.051 1.067 9.771 -7.266 4.196 5 A_DA6:DT4_B A 6 ? B 4 ? 20 1 1 A DC 7 1_555 B DG 3 1_555 0.093 -0.195 -0.634 24.535 0.826 0.249 6 A_DC7:DG3_B A 7 ? B 3 ? 19 1 1 A DA 8 1_555 B T5S 2 1_555 -0.205 -0.321 0.307 9.954 -21.706 5.000 7 A_DA8:T5S2_B A 8 ? B 2 ? 20 1 1 A DC 9 1_555 B DG 1 1_555 -1.058 0.456 0.269 7.147 -9.653 -1.755 8 A_DC9:DG1_B A 9 ? B 1 ? ? 1 1 C DG 1 1_555 D DC 9 1_555 -0.835 -0.145 0.390 -1.005 -5.890 11.190 9 C_DG1:DC9_D C 1 ? D 9 ? 19 1 1 C T5S 2 1_555 D DA 8 1_555 -0.410 -0.179 -0.042 16.736 5.226 6.179 10 C_T5S2:DA8_D C 2 ? D 8 ? 20 1 1 C DG 3 1_555 D DC 7 1_555 -0.341 -0.508 0.812 18.800 4.506 -8.662 11 C_DG3:DC7_D C 3 ? D 7 ? 19 1 1 C DT 4 1_555 D DA 6 1_555 0.088 0.169 -0.318 5.753 11.879 -16.389 12 C_DT4:DA6_D C 4 ? D 6 ? 20 1 1 C DA 6 1_555 D DT 4 1_555 0.472 -0.077 -0.538 -18.779 5.512 -14.457 13 C_DA6:DT4_D C 6 ? D 4 ? 20 1 1 C DC 7 1_555 D DG 3 1_555 -0.317 0.443 -1.002 17.956 16.161 -3.127 14 C_DC7:DG3_D C 7 ? D 3 ? ? 1 1 C DA 8 1_555 D T5S 2 1_555 0.682 -0.206 0.843 15.103 10.436 -2.443 15 C_DA8:T5S2_D C 8 ? D 2 ? 20 1 1 C DC 9 1_555 D DG 1 1_555 0.259 0.187 0.065 16.577 6.502 6.508 16 C_DC9:DG1_D C 9 ? D 1 ? 19 1 1 E DG 1 1_555 F DC 9 1_555 -0.769 -0.161 -0.097 -20.417 -4.657 -0.471 17 E_DG1:DC9_F E 1 ? F 9 ? 19 1 1 E T5S 2 1_555 F DA 8 1_555 -1.058 0.428 -0.084 -15.431 -20.246 5.591 18 E_T5S2:DA8_F E 2 ? F 8 ? ? ? 1 E DG 3 1_555 F DC 7 1_555 -1.103 0.260 -0.074 10.398 7.801 4.739 19 E_DG3:DC7_F E 3 ? F 7 ? ? 1 1 E DT 4 1_555 F DA 6 1_555 -0.827 0.150 -0.723 22.425 -5.226 -16.815 20 E_DT4:DA6_F E 4 ? F 6 ? 20 1 1 E DA 6 1_555 F DT 4 1_555 -0.209 0.446 -0.063 12.045 2.727 9.779 21 E_DA6:DT4_F E 6 ? F 4 ? ? ? 1 E DC 7 1_555 F DG 3 1_555 -0.225 -0.045 -0.694 23.605 11.023 -0.556 22 E_DC7:DG3_F E 7 ? F 3 ? 19 1 1 E DA 8 1_555 F T5S 2 1_555 -0.641 -0.497 0.084 -7.730 -21.024 -3.895 23 E_DA8:T5S2_F E 8 ? F 2 ? 20 1 1 E DC 9 1_555 F DG 1 1_555 -1.021 0.085 -0.110 15.423 -16.912 -3.892 24 E_DC9:DG1_F E 9 ? F 1 ? 19 1 1 G DG 1 1_555 H DC 9 1_555 -0.023 -0.340 0.460 -1.895 16.213 5.326 25 G_DG1:DC9_H G 1 ? H 9 ? 19 1 1 G T5S 2 1_555 H DA 8 1_555 -0.078 0.241 0.492 4.117 13.331 1.099 26 G_T5S2:DA8_H G 2 ? H 8 ? 20 1 1 G DG 3 1_555 H DC 7 1_555 -0.074 -0.008 -0.180 -9.399 3.338 -0.349 27 G_DG3:DC7_H G 3 ? H 7 ? 19 1 1 G DT 4 1_555 H DA 6 1_555 -0.248 -0.165 0.002 -11.252 12.861 -8.300 28 G_DT4:DA6_H G 4 ? H 6 ? 20 1 1 G DA 6 1_555 H DT 4 1_555 -0.141 -0.338 0.352 -28.114 12.783 -7.026 29 G_DA6:DT4_H G 6 ? H 4 ? 20 1 1 G DC 7 1_555 H DG 3 1_555 -0.848 0.088 -0.327 -2.340 17.465 -5.274 30 G_DC7:DG3_H G 7 ? H 3 ? 19 1 1 G DA 8 1_555 H T5S 2 1_555 0.238 -0.608 0.848 4.819 10.747 -9.095 31 G_DA8:T5S2_H G 8 ? H 2 ? 20 1 1 G DC 9 1_555 H DG 1 1_555 0.006 -0.020 -0.496 15.688 4.029 -5.028 32 G_DC9:DG1_H G 9 ? H 1 ? 19 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 A DG 1 1_555 B DC 9 1_555 A T5S 2 1_555 B DA 8 1_555 -0.646 -1.237 3.322 -6.423 3.333 36.078 -2.423 0.135 3.262 5.316 10.244 36.773 1 AA_DG1T5S2:DA8DC9_BB A 1 ? B 9 ? A 2 ? B 8 ? 1 A T5S 2 1_555 B DA 8 1_555 A DG 3 1_555 B DC 7 1_555 -0.526 -1.152 3.180 -0.508 11.402 15.526 -8.396 1.352 1.905 36.460 1.623 19.249 2 AA_T5S2DG3:DC7DA8_BB A 2 ? B 8 ? A 3 ? B 7 ? 1 A DG 3 1_555 B DC 7 1_555 A DT 4 1_555 B DA 6 1_555 -0.577 -0.676 3.244 5.756 -0.888 32.859 -1.034 1.942 3.117 -1.555 -10.076 33.357 3 AA_DG3DT4:DA6DC7_BB A 3 ? B 7 ? A 4 ? B 6 ? 1 A DA 6 1_555 B DT 4 1_555 A DC 7 1_555 B DG 3 1_555 0.386 -1.513 3.320 14.959 7.499 31.937 -3.517 1.502 2.809 12.605 -25.146 35.954 4 AA_DA6DC7:DG3DT4_BB A 6 ? B 4 ? A 7 ? B 3 ? 1 A DC 7 1_555 B DG 3 1_555 A DA 8 1_555 B T5S 2 1_555 0.858 -0.994 3.813 -1.238 11.146 29.644 -4.107 -1.826 3.202 20.868 2.318 31.650 5 AA_DC7DA8:T5S2DG3_BB A 7 ? B 3 ? A 8 ? B 2 ? 1 A DA 8 1_555 B T5S 2 1_555 A DC 9 1_555 B DG 1 1_555 0.343 -1.844 3.223 2.489 12.347 23.644 -6.735 -0.186 2.047 27.753 -5.595 26.747 6 AA_DA8DC9:DG1T5S2_BB A 8 ? B 2 ? A 9 ? B 1 ? 1 C DG 1 1_555 D DC 9 1_555 C T5S 2 1_555 D DA 8 1_555 -0.259 -1.499 3.364 -3.920 -6.620 29.740 -1.421 -0.345 3.610 -12.633 7.481 30.697 7 CC_DG1T5S2:DA8DC9_DD C 1 ? D 9 ? C 2 ? D 8 ? 1 C T5S 2 1_555 D DA 8 1_555 C DG 3 1_555 D DC 7 1_555 -0.661 -1.531 2.990 -5.756 9.819 33.580 -3.772 0.351 2.532 16.420 9.626 35.404 8 CC_T5S2DG3:DC7DA8_DD C 2 ? D 8 ? C 3 ? D 7 ? 1 C DG 3 1_555 D DC 7 1_555 C DT 4 1_555 D DA 6 1_555 -0.044 -1.965 3.762 10.763 -7.833 36.464 -1.798 1.666 3.920 -12.036 -16.539 38.741 9 CC_DG3DT4:DA6DC7_DD C 3 ? D 7 ? C 4 ? D 6 ? 1 C DA 6 1_555 D DT 4 1_555 C DC 7 1_555 D DG 3 1_555 0.247 -1.435 2.877 4.861 9.792 22.312 -5.704 0.599 2.079 23.572 -11.701 24.816 10 CC_DA6DC7:DG3DT4_DD C 6 ? D 4 ? C 7 ? D 3 ? 1 C DC 7 1_555 D DG 3 1_555 C DA 8 1_555 D T5S 2 1_555 0.199 -1.743 3.428 -10.436 0.662 37.082 -2.730 -1.647 3.227 1.017 16.022 38.478 11 CC_DC7DA8:T5S2DG3_DD C 7 ? D 3 ? C 8 ? D 2 ? 1 C DA 8 1_555 D T5S 2 1_555 C DC 9 1_555 D DG 1 1_555 0.655 -1.742 3.394 7.747 7.427 27.743 -4.956 0.348 2.915 14.806 -15.444 29.709 12 CC_DA8DC9:DG1T5S2_DD C 8 ? D 2 ? C 9 ? D 1 ? 1 E DG 1 1_555 F DC 9 1_555 E T5S 2 1_555 F DA 8 1_555 -0.501 -1.702 3.304 2.155 -0.376 37.259 -2.609 1.070 3.287 -0.587 -3.369 37.321 13 EE_DG1T5S2:DA8DC9_FF E 1 ? F 9 ? E 2 ? F 8 ? 1 E T5S 2 1_555 F DA 8 1_555 E DG 3 1_555 F DC 7 1_555 0.747 -1.462 2.756 0.375 7.495 20.391 -6.152 -1.869 2.103 20.304 -1.016 21.714 14 EE_T5S2DG3:DC7DA8_FF E 2 ? F 8 ? E 3 ? F 7 ? 1 E DG 3 1_555 F DC 7 1_555 E DT 4 1_555 F DA 6 1_555 -0.378 -0.815 2.991 5.692 0.329 35.303 -1.371 1.360 2.890 0.538 -9.310 35.746 15 EE_DG3DT4:DA6DC7_FF E 3 ? F 7 ? E 4 ? F 6 ? 1 E DA 6 1_555 F DT 4 1_555 E DC 7 1_555 F DG 3 1_555 0.277 -1.446 3.244 4.498 8.508 28.645 -4.398 0.325 2.724 16.615 -8.784 30.187 16 EE_DA6DC7:DG3DT4_FF E 6 ? F 4 ? E 7 ? F 3 ? 1 E DC 7 1_555 F DG 3 1_555 E DA 8 1_555 F T5S 2 1_555 0.421 -1.168 4.070 1.444 18.945 31.077 -4.946 -0.442 2.922 31.899 -2.431 36.302 17 EE_DC7DA8:T5S2DG3_FF E 7 ? F 3 ? E 8 ? F 2 ? 1 E DA 8 1_555 F T5S 2 1_555 E DC 9 1_555 F DG 1 1_555 0.069 -1.688 2.941 0.189 9.434 26.389 -5.304 -0.106 2.217 19.875 -0.398 27.997 18 EE_DA8DC9:DG1T5S2_FF E 8 ? F 2 ? E 9 ? F 1 ? 1 G DG 1 1_555 H DC 9 1_555 G T5S 2 1_555 H DA 8 1_555 -0.873 -2.102 3.353 -0.348 -0.606 26.785 -4.374 1.790 3.409 -1.307 0.751 26.794 19 GG_DG1T5S2:DA8DC9_HH G 1 ? H 9 ? G 2 ? H 8 ? 1 G T5S 2 1_555 H DA 8 1_555 G DG 3 1_555 H DC 7 1_555 -0.571 -1.314 3.532 3.920 10.058 37.655 -3.199 1.335 3.024 15.204 -5.925 39.117 20 GG_T5S2DG3:DC7DA8_HH G 2 ? H 8 ? G 3 ? H 7 ? 1 G DG 3 1_555 H DC 7 1_555 G DT 4 1_555 H DA 6 1_555 -0.186 -2.208 3.410 -2.709 4.708 27.982 -5.551 -0.235 3.010 9.622 5.536 28.494 21 GG_DG3DT4:DA6DC7_HH G 3 ? H 7 ? G 4 ? H 6 ? 1 G DA 6 1_555 H DT 4 1_555 G DC 7 1_555 H DG 3 1_555 -0.508 -2.305 3.005 3.084 3.702 24.593 -6.254 1.955 2.554 8.587 -7.152 25.054 22 GG_DA6DC7:DG3DT4_HH G 6 ? H 4 ? G 7 ? H 3 ? 1 G DC 7 1_555 H DG 3 1_555 G DA 8 1_555 H T5S 2 1_555 -0.067 -1.067 3.154 -8.300 -9.018 40.180 -0.548 -0.774 3.261 -12.772 11.755 41.934 23 GG_DC7DA8:T5S2DG3_HH G 7 ? H 3 ? G 8 ? H 2 ? 1 G DA 8 1_555 H T5S 2 1_555 G DC 9 1_555 H DG 1 1_555 0.405 -2.130 3.433 11.297 7.242 26.861 -5.607 1.538 2.729 14.496 -22.614 29.971 24 GG_DA8DC9:DG1T5S2_HH G 8 ? H 2 ? G 9 ? H 1 ? # _atom_sites.entry_id 4RHD _atom_sites.fract_transf_matrix[1][1] 0.016827 _atom_sites.fract_transf_matrix[1][2] 0.009715 _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] 0.019430 _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] 0.011488 _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 MG N O P SE # loop_