data_1ZF6 # _entry.id 1ZF6 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _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 1ZF6 pdb_00001zf6 10.2210/pdb1zf6/pdb NDB AD0049 ? ? RCSB RCSB032649 ? ? WWPDB D_1000032649 ? ? # 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 2005-05-10 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-11 5 'Structure model' 1 4 2024-02-14 6 'Structure model' 1 5 2024-04-03 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Refinement description' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' 7 6 'Structure model' 'Refinement description' # 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' software 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 5 5 'Structure model' pdbx_struct_conn_angle 6 5 'Structure model' struct_conn 7 5 'Structure model' struct_site 8 6 'Structure model' pdbx_initial_refinement_model # 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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' 3 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 4 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 5 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 15 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 16 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 17 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 18 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 19 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 20 5 'Structure model' '_pdbx_struct_conn_angle.value' 21 5 'Structure model' '_struct_conn.pdbx_dist_value' 22 5 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 23 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 24 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 25 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 26 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 27 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 28 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 29 5 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 30 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 31 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 32 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 33 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 34 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 35 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 36 5 'Structure model' '_struct_conn.ptnr2_symmetry' 37 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 38 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 39 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.entry_id 1ZF6 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2005-04-19 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1P4Y . unspecified PDB 1P4Z . unspecified PDB 1DCW . unspecified PDB 1DCV . unspecified PDB 1ZEW . unspecified PDB 1ZEX . unspecified PDB 1ZEY . unspecified PDB 1ZEZ . unspecified PDB 1ZF0 . unspecified PDB 1ZF1 . unspecified PDB 1ZF2 . unspecified PDB 1ZF3 . unspecified PDB 1ZF4 . unspecified PDB 1ZF5 . unspecified PDB 1ZF7 . unspecified PDB 1ZF8 . unspecified PDB 1ZF9 . unspecified PDB 1ZFA . unspecified PDB 1ZFB . unspecified PDB 1ZFC . unspecified PDB 1ZFE . unspecified PDB 1ZFF . unspecified PDB 1ZFG . unspecified PDB 1ZFH . unspecified PDB 1ZFM . unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Hays, F.A.' 1 'Teegarden, A.T.' 2 'Jones, Z.J.R.' 3 'Harms, M.' 4 'Raup, D.' 5 'Watson, J.' 6 'Cavaliere, E.' 7 'Ho, P.S.' 8 # _citation.id primary _citation.title 'How sequence defines structure: a crystallographic map of DNA structure and conformation.' _citation.journal_abbrev Proc.Natl.Acad.Sci.Usa _citation.journal_volume 102 _citation.page_first 7157 _citation.page_last 7162 _citation.year 2005 _citation.journal_id_ASTM PNASA6 _citation.country US _citation.journal_id_ISSN 0027-8424 _citation.journal_id_CSD 0040 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 15870206 _citation.pdbx_database_id_DOI 10.1073/pnas.0409455102 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Hays, F.A.' 1 ? primary 'Teegarden, A.' 2 ? primary 'Jones, Z.J.' 3 ? primary 'Harms, M.' 4 ? primary 'Raup, D.' 5 ? primary 'Watson, J.' 6 ? primary 'Cavaliere, E.' 7 ? primary 'Ho, P.S.' 8 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn "5'-D(*CP*CP*CP*CP*AP*TP*GP*GP*GP*G)-3'" 3045.992 2 ? ? ? ? 2 non-polymer syn 'CALCIUM ION' 40.078 3 ? ? ? ? 3 non-polymer syn 'SODIUM ION' 22.990 1 ? ? ? ? 4 water nat water 18.015 116 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DC)(DC)(DC)(DC)(DA)(DT)(DG)(DG)(DG)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CCCCATGGGG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CALCIUM ION' CA 3 'SODIUM ION' NA 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DC n 1 3 DC n 1 4 DC n 1 5 DA n 1 6 DT n 1 7 DG n 1 8 DG n 1 9 DG n 1 10 DG n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details ;DNA WAS SYNTHESIZED ON AN APPLIED BIOSYSTEMS DNA SYNTHESIZER USING PHOSPHORAMIDITE CHEMISTRY, WITH THE TRITYL-PROTECTING GROUP LEFT INTACT AT THE 5'-TERMINAL NUCLEOTIDE THEN DEPROTECTED BY TREATMENT WITH 3% ACETIC ACID FOR FIFTEEN MINUTES, NEUTRALIZED WITH AMMONIUM HYDROXIDE, AND DESALTED ON A SIGMA G-25 SEPHADEX COLUMN. ; # 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 CA non-polymer . 'CALCIUM ION' ? 'Ca 2' 40.078 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 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 # 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 DC 1 1 1 DC C A . n A 1 2 DC 2 2 2 DC C A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 DC 4 4 4 DC C A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DT 6 6 6 DT T A . n A 1 7 DG 7 7 7 DG G A . n A 1 8 DG 8 8 8 DG G A . n A 1 9 DG 9 9 9 DG G A . n A 1 10 DG 10 10 10 DG G A . n B 1 1 DC 1 11 11 DC C B . n B 1 2 DC 2 12 12 DC C B . n B 1 3 DC 3 13 13 DC C B . n B 1 4 DC 4 14 14 DC C B . n B 1 5 DA 5 15 15 DA A B . n B 1 6 DT 6 16 16 DT T B . n B 1 7 DG 7 17 17 DG G B . n B 1 8 DG 8 18 18 DG G B . n B 1 9 DG 9 19 19 DG G B . n B 1 10 DG 10 20 20 DG G B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 CA 1 22 22 CA CA A . D 2 CA 1 24 24 CA CA A . E 2 CA 1 25 25 CA CA A . F 3 NA 1 23 23 NA NA B . G 4 HOH 1 21 21 HOH HOH A . G 4 HOH 2 26 26 HOH HOH A . G 4 HOH 3 27 27 HOH HOH A . G 4 HOH 4 28 28 HOH HOH A . G 4 HOH 5 29 29 HOH HOH A . G 4 HOH 6 30 30 HOH HOH A . G 4 HOH 7 31 31 HOH HOH A . G 4 HOH 8 32 32 HOH HOH A . G 4 HOH 9 33 33 HOH HOH A . G 4 HOH 10 35 35 HOH HOH A . G 4 HOH 11 36 36 HOH HOH A . G 4 HOH 12 37 37 HOH HOH A . G 4 HOH 13 38 38 HOH HOH A . G 4 HOH 14 39 39 HOH HOH A . G 4 HOH 15 40 40 HOH HOH A . G 4 HOH 16 44 44 HOH HOH A . G 4 HOH 17 45 45 HOH HOH A . G 4 HOH 18 46 46 HOH HOH A . G 4 HOH 19 47 47 HOH HOH A . G 4 HOH 20 48 48 HOH HOH A . G 4 HOH 21 49 49 HOH HOH A . G 4 HOH 22 50 50 HOH HOH A . G 4 HOH 23 51 51 HOH HOH A . G 4 HOH 24 52 52 HOH HOH A . G 4 HOH 25 53 53 HOH HOH A . G 4 HOH 26 55 55 HOH HOH A . G 4 HOH 27 56 56 HOH HOH A . G 4 HOH 28 57 57 HOH HOH A . G 4 HOH 29 58 58 HOH HOH A . G 4 HOH 30 59 59 HOH HOH A . G 4 HOH 31 60 60 HOH HOH A . G 4 HOH 32 61 61 HOH HOH A . G 4 HOH 33 62 62 HOH HOH A . G 4 HOH 34 65 65 HOH HOH A . G 4 HOH 35 66 66 HOH HOH A . G 4 HOH 36 67 67 HOH HOH A . G 4 HOH 37 70 70 HOH HOH A . G 4 HOH 38 71 71 HOH HOH A . G 4 HOH 39 73 73 HOH HOH A . G 4 HOH 40 76 76 HOH HOH A . G 4 HOH 41 80 80 HOH HOH A . G 4 HOH 42 82 82 HOH HOH A . G 4 HOH 43 84 84 HOH HOH A . G 4 HOH 44 87 87 HOH HOH A . G 4 HOH 45 89 89 HOH HOH A . G 4 HOH 46 91 91 HOH HOH A . G 4 HOH 47 94 94 HOH HOH A . G 4 HOH 48 95 95 HOH HOH A . G 4 HOH 49 96 96 HOH HOH A . G 4 HOH 50 98 98 HOH HOH A . G 4 HOH 51 101 101 HOH HOH A . G 4 HOH 52 104 104 HOH HOH A . G 4 HOH 53 107 107 HOH HOH A . G 4 HOH 54 110 110 HOH HOH A . G 4 HOH 55 111 111 HOH HOH A . G 4 HOH 56 115 115 HOH HOH A . G 4 HOH 57 116 116 HOH HOH A . G 4 HOH 58 118 118 HOH HOH A . G 4 HOH 59 119 119 HOH HOH A . G 4 HOH 60 121 121 HOH HOH A . G 4 HOH 61 122 122 HOH HOH A . G 4 HOH 62 123 123 HOH HOH A . G 4 HOH 63 124 124 HOH HOH A . G 4 HOH 64 125 125 HOH HOH A . G 4 HOH 65 127 127 HOH HOH A . G 4 HOH 66 132 132 HOH HOH A . G 4 HOH 67 134 134 HOH HOH A . G 4 HOH 68 140 140 HOH HOH A . H 4 HOH 1 34 34 HOH HOH B . H 4 HOH 2 41 41 HOH HOH B . H 4 HOH 3 42 42 HOH HOH B . H 4 HOH 4 43 43 HOH HOH B . H 4 HOH 5 54 54 HOH HOH B . H 4 HOH 6 63 63 HOH HOH B . H 4 HOH 7 64 64 HOH HOH B . H 4 HOH 8 68 68 HOH HOH B . H 4 HOH 9 69 69 HOH HOH B . H 4 HOH 10 72 72 HOH HOH B . H 4 HOH 11 74 74 HOH HOH B . H 4 HOH 12 75 75 HOH HOH B . H 4 HOH 13 77 77 HOH HOH B . H 4 HOH 14 78 78 HOH HOH B . H 4 HOH 15 79 79 HOH HOH B . H 4 HOH 16 81 81 HOH HOH B . H 4 HOH 17 83 83 HOH HOH B . H 4 HOH 18 85 85 HOH HOH B . H 4 HOH 19 86 86 HOH HOH B . H 4 HOH 20 88 88 HOH HOH B . H 4 HOH 21 90 90 HOH HOH B . H 4 HOH 22 92 92 HOH HOH B . H 4 HOH 23 93 93 HOH HOH B . H 4 HOH 24 97 97 HOH HOH B . H 4 HOH 25 99 99 HOH HOH B . H 4 HOH 26 100 100 HOH HOH B . H 4 HOH 27 102 102 HOH HOH B . H 4 HOH 28 103 103 HOH HOH B . H 4 HOH 29 105 105 HOH HOH B . H 4 HOH 30 106 106 HOH HOH B . H 4 HOH 31 108 108 HOH HOH B . H 4 HOH 32 109 109 HOH HOH B . H 4 HOH 33 112 112 HOH HOH B . H 4 HOH 34 113 113 HOH HOH B . H 4 HOH 35 114 114 HOH HOH B . H 4 HOH 36 117 117 HOH HOH B . H 4 HOH 37 120 120 HOH HOH B . H 4 HOH 38 126 126 HOH HOH B . H 4 HOH 39 128 128 HOH HOH B . H 4 HOH 40 129 129 HOH HOH B . H 4 HOH 41 130 130 HOH HOH B . H 4 HOH 42 131 131 HOH HOH B . H 4 HOH 43 133 133 HOH HOH B . H 4 HOH 44 135 135 HOH HOH B . H 4 HOH 45 136 136 HOH HOH B . H 4 HOH 46 137 137 HOH HOH B . H 4 HOH 47 138 138 HOH HOH B . H 4 HOH 48 139 139 HOH HOH B . # loop_ _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id _software.pdbx_ordinal DENZO . ? package 'Zbyszek Otwinowski' zbyszek@mix.swmed.edu 'data reduction' http://www.lnls.br/infra/linhasluz/denzo-hkl.htm ? ? 1 SCALEPACK . ? package 'Zbyszek Otwinowski' zbyszek@mix.swmed.edu 'data scaling' http://www.lnls.br/infra/linhasluz/denzo-hkl.htm ? ? 2 REFMAC 5.2.0005 ? program 'Murshudov, G.N.' ccp4@dl.ac.uk refinement http://www.ccp4.ac.uk/main.html Fortran ? 3 EPMR . ? ? ? ? phasing ? ? ? 4 # _cell.length_a 25.239 _cell.length_b 41.179 _cell.length_c 44.410 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.entry_id 1ZF6 _cell.pdbx_unique_axis ? _cell.Z_PDB 8 # _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.Int_Tables_number 19 _symmetry.entry_id 1ZF6 _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # _exptl.crystals_number 1 _exptl.method 'X-RAY DIFFRACTION' _exptl.entry_id 1ZF6 # _exptl_crystal.id 1 _exptl_crystal.density_percent_sol 35.06 _exptl_crystal.density_Matthews 1.89 _exptl_crystal.density_meas ? _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.temp 298 _exptl_crystal_grow.pdbx_details 'Na Cacodylate, CaCl2, Spermine, MPD in resevoir, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range . # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.details 1 1 1 'Na Cacodylate' ? ? ? 1 2 1 CaCl2 ? ? ? 1 3 1 Spermine ? ? ? 1 4 1 MPD ? ? ? 1 5 1 H2O ? ? ? 1 6 2 'Na Cacodylate' ? ? ? 1 7 2 CaCl2 ? ? ? 1 8 2 MPD ? ? ? 1 9 2 H2O ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 103 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 4' _diffrn_detector.pdbx_collection_date 2004-02-25 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.wavelength_id 1 _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_monochromatic_or_laue_m_l ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9795 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 14-BM-D' _diffrn_source.pdbx_wavelength_list 0.9795 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 14-BM-D # _reflns.entry_id 1ZF6 _reflns.d_resolution_low 16.0 _reflns.d_resolution_high 1.45 _reflns.number_obs 8116 _reflns.percent_possible_obs 93.000 _reflns.pdbx_Rmerge_I_obs 0.051 _reflns.pdbx_chi_squared 1.173 _reflns.pdbx_redundancy ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_netI_over_sigmaI 28.5 _reflns.pdbx_Rsym_value ? _reflns.observed_criterion_sigma_F 0 _reflns.observed_criterion_sigma_I 0 _reflns.number_all ? _reflns.B_iso_Wilson_estimate ? _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_low 1.50 _reflns_shell.d_res_high 1.45 _reflns_shell.number_measured_obs 439 _reflns_shell.percent_possible_obs 51.900 _reflns_shell.Rmerge_I_obs 0.289 _reflns_shell.pdbx_chi_squared 1.138 _reflns_shell.pdbx_redundancy ? _reflns_shell.number_unique_obs ? _reflns_shell.meanI_over_sigI_obs 2.71 _reflns_shell.pdbx_Rsym_value 0.289 _reflns_shell.percent_possible_all 51.9 _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.ls_d_res_high 1.500 _refine.ls_d_res_low 15.950 _refine.ls_percent_reflns_obs 100.000 _refine.ls_number_reflns_obs 6829 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.ls_R_factor_all 0.262 _refine.ls_R_factor_R_work 0.256 _refine.ls_R_factor_R_free 0.306 _refine.ls_percent_reflns_R_free 10.700 _refine.ls_number_reflns_R_free 815 _refine.B_iso_mean 5.034 _refine.aniso_B[1][1] -0.100 _refine.aniso_B[2][2] 0.260 _refine.aniso_B[3][3] -0.160 _refine.aniso_B[1][2] 0.000 _refine.aniso_B[1][3] 0.000 _refine.aniso_B[2][3] 0.000 _refine.correlation_coeff_Fo_to_Fc 0.829 _refine.correlation_coeff_Fo_to_Fc_free 0.768 _refine.pdbx_overall_ESU_R 0.131 _refine.pdbx_overall_ESU_R_Free 0.131 _refine.overall_SU_ML 0.100 _refine.overall_SU_B 2.622 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.200 _refine.pdbx_solvent_ion_probe_radii 0.800 _refine.pdbx_solvent_shrinkage_radii 0.800 _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.entry_id 1ZF6 _refine.pdbx_ls_sigma_F 0 _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all ? _refine.ls_R_factor_obs ? _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 'ndb entry AHJ060' _refine.pdbx_stereochem_target_val_spec_case ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.details 'STRUCTURE IS NOT REFINED TO ITS LOWEST R VALUES, REFER TO CITATION.' _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_data_cutoff_high_rms_absF ? _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.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 404 _refine_hist.pdbx_number_atoms_ligand 4 _refine_hist.number_atoms_solvent 116 _refine_hist.number_atoms_total 524 _refine_hist.d_res_high 1.500 _refine_hist.d_res_low 15.950 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 452 0.010 0.021 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 694 2.786 3.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 78 0.112 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 208 0.011 0.020 ? 'X-RAY DIFFRACTION' ? r_nbd_refined 185 0.250 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 266 0.322 0.200 ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 102 0.228 0.200 ? 'X-RAY DIFFRACTION' ? 'POTENTIAL METAL-ION REFINED ATOMS (A)' 9 0.084 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 38 0.247 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 17 0.142 0.200 ? 'X-RAY DIFFRACTION' ? 'SYMMETRY METAL-ION REFINED ATOMS (A)' 1 0.138 0.200 ? 'X-RAY DIFFRACTION' ? r_scbond_it 544 1.151 3.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 694 1.449 4.500 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 1.500 _refine_ls_shell.d_res_low 1.539 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 100.000 _refine_ls_shell.number_reflns_R_work 458 _refine_ls_shell.R_factor_R_work 0.305 _refine_ls_shell.R_factor_R_free 0.386 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 57 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # _struct.entry_id 1ZF6 _struct.title 'TGG DUPLEX A-DNA' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text 'Crystallographic Screen, DNA Structure, Holliday Junction, Molecular Structure, DNA' _struct_keywords.entry_id 1ZF6 _struct_keywords.pdbx_keywords 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 1 ? C N N 2 ? D N N 2 ? E N N 2 ? F N N 3 ? G N N 4 ? H N N 4 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1ZF6 _struct_ref.pdbx_db_accession 1ZF6 _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1ZF6 A 1 ? 10 ? 1ZF6 1 ? 10 ? 1 10 2 1 1ZF6 B 1 ? 10 ? 1ZF6 11 ? 20 ? 11 20 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H # _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.pdbx_parent_biol_id ? _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 metalc1 metalc ? ? A DC 2 OP1 ? ? ? 1_555 E CA . CA ? ? A DC 2 A CA 25 1_555 ? ? ? ? ? ? ? 2.468 ? ? metalc2 metalc ? ? A DG 10 OP1 ? ? ? 1_555 D CA . CA ? ? A DG 10 A CA 24 1_555 ? ? ? ? ? ? ? 2.257 ? ? metalc3 metalc ? ? G HOH . O ? ? ? 1_555 C CA . CA ? ? A HOH 21 A CA 22 1_555 ? ? ? ? ? ? ? 2.561 ? ? metalc4 metalc ? ? C CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 22 A HOH 35 1_555 ? ? ? ? ? ? ? 2.339 ? ? metalc5 metalc ? ? C CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 22 A HOH 36 1_555 ? ? ? ? ? ? ? 2.620 ? ? metalc6 metalc ? ? C CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 22 A HOH 38 1_555 ? ? ? ? ? ? ? 2.343 ? ? metalc7 metalc ? ? C CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 22 A HOH 47 1_555 ? ? ? ? ? ? ? 2.292 ? ? metalc8 metalc ? ? C CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 22 A HOH 50 1_555 ? ? ? ? ? ? ? 2.422 ? ? metalc9 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 24 A HOH 33 1_555 ? ? ? ? ? ? ? 2.420 ? ? metalc10 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 24 A HOH 40 1_555 ? ? ? ? ? ? ? 2.453 ? ? metalc11 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 24 A HOH 52 1_555 ? ? ? ? ? ? ? 2.396 ? ? metalc12 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 24 A HOH 53 1_555 ? ? ? ? ? ? ? 2.417 ? ? metalc13 metalc ? ? D CA . CA ? ? ? 1_555 B DG 10 OP2 ? ? A CA 24 B DG 20 3_545 ? ? ? ? ? ? ? 2.282 ? ? metalc14 metalc ? ? E CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 25 A HOH 80 1_555 ? ? ? ? ? ? ? 3.335 ? ? metalc15 metalc ? ? E CA . CA ? ? ? 1_555 B DC 2 OP1 ? ? A CA 25 B DC 12 1_555 ? ? ? ? ? ? ? 2.341 ? ? metalc16 metalc ? ? E CA . CA ? ? ? 1_555 H HOH . O ? ? A CA 25 B HOH 42 1_555 ? ? ? ? ? ? ? 2.447 ? ? metalc17 metalc ? ? E CA . CA ? ? ? 1_555 H HOH . O ? ? A CA 25 B HOH 54 1_555 ? ? ? ? ? ? ? 2.388 ? ? metalc18 metalc ? ? E CA . CA ? ? ? 1_555 H HOH . O ? ? A CA 25 B HOH 81 1_555 ? ? ? ? ? ? ? 2.724 ? ? metalc19 metalc ? ? E CA . CA ? ? ? 1_555 H HOH . O ? ? A CA 25 B HOH 100 1_555 ? ? ? ? ? ? ? 3.043 ? ? metalc20 metalc ? ? B DG 8 O6 ? ? ? 1_555 F NA . NA ? ? B DG 18 B NA 23 1_555 ? ? ? ? ? ? ? 2.604 ? ? metalc21 metalc ? ? F NA . NA ? ? ? 1_555 H HOH . O ? ? B NA 23 B HOH 34 1_555 ? ? ? ? ? ? ? 2.475 ? ? metalc22 metalc ? ? F NA . NA ? ? ? 1_555 H HOH . O ? ? B NA 23 B HOH 77 1_555 ? ? ? ? ? ? ? 2.757 ? ? metalc23 metalc ? ? F NA . NA ? ? ? 1_555 H HOH . O ? ? B NA 23 B HOH 79 1_555 ? ? ? ? ? ? ? 2.576 ? ? metalc24 metalc ? ? F NA . NA ? ? ? 1_555 H HOH . O ? ? B NA 23 B HOH 92 1_555 ? ? ? ? ? ? ? 2.782 ? ? metalc25 metalc ? ? F NA . NA ? ? ? 1_555 H HOH . O ? ? B NA 23 B HOH 133 1_555 ? ? ? ? ? ? ? 2.866 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 1 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 1 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 1 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 9 N1 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 9 O6 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 9 N2 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 8 N1 ? ? A DC 3 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 8 O6 ? ? A DC 3 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 8 N2 ? ? A DC 3 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 4 N3 ? ? ? 1_555 B DG 7 N1 ? ? A DC 4 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 4 N4 ? ? ? 1_555 B DG 7 O6 ? ? A DC 4 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 4 O2 ? ? ? 1_555 B DG 7 N2 ? ? A DC 4 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 6 N3 ? ? A DA 5 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 6 O4 ? ? A DA 5 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DT 6 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 6 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DT 6 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 6 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 7 N1 ? ? ? 1_555 B DC 4 N3 ? ? A DG 7 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B DC 4 O2 ? ? A DG 7 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 7 O6 ? ? ? 1_555 B DC 4 N4 ? ? A DG 7 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DG 8 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 8 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DG 8 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 8 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 8 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 8 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 9 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 9 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 9 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 10 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 10 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 10 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 OP1 ? A DC 2 ? A DC 2 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? G HOH . ? A HOH 80 ? 1_555 99.0 ? 2 OP1 ? A DC 2 ? A DC 2 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 OP1 ? B DC 2 ? B DC 12 ? 1_555 166.4 ? 3 O ? G HOH . ? A HOH 80 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 OP1 ? B DC 2 ? B DC 12 ? 1_555 94.4 ? 4 OP1 ? A DC 2 ? A DC 2 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 42 ? 1_555 86.4 ? 5 O ? G HOH . ? A HOH 80 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 42 ? 1_555 152.9 ? 6 OP1 ? B DC 2 ? B DC 12 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 42 ? 1_555 82.4 ? 7 OP1 ? A DC 2 ? A DC 2 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 54 ? 1_555 94.2 ? 8 O ? G HOH . ? A HOH 80 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 54 ? 1_555 63.6 ? 9 OP1 ? B DC 2 ? B DC 12 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 54 ? 1_555 93.5 ? 10 O ? H HOH . ? B HOH 42 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 54 ? 1_555 89.7 ? 11 OP1 ? A DC 2 ? A DC 2 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 81 ? 1_555 121.0 ? 12 O ? G HOH . ? A HOH 80 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 81 ? 1_555 63.9 ? 13 OP1 ? B DC 2 ? B DC 12 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 81 ? 1_555 63.8 ? 14 O ? H HOH . ? B HOH 42 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 81 ? 1_555 134.8 ? 15 O ? H HOH . ? B HOH 54 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 81 ? 1_555 119.8 ? 16 OP1 ? A DC 2 ? A DC 2 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 100 ? 1_555 81.5 ? 17 O ? G HOH . ? A HOH 80 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 100 ? 1_555 157.0 ? 18 OP1 ? B DC 2 ? B DC 12 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 100 ? 1_555 85.3 ? 19 O ? H HOH . ? B HOH 42 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 100 ? 1_555 49.9 ? 20 O ? H HOH . ? B HOH 54 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 100 ? 1_555 139.4 ? 21 O ? H HOH . ? B HOH 81 ? 1_555 CA ? E CA . ? A CA 25 ? 1_555 O ? H HOH . ? B HOH 100 ? 1_555 95.9 ? 22 OP1 ? A DG 10 ? A DG 10 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 O ? G HOH . ? A HOH 33 ? 1_555 100.5 ? 23 OP1 ? A DG 10 ? A DG 10 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 O ? G HOH . ? A HOH 40 ? 1_555 158.2 ? 24 O ? G HOH . ? A HOH 33 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 O ? G HOH . ? A HOH 40 ? 1_555 98.3 ? 25 OP1 ? A DG 10 ? A DG 10 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 O ? G HOH . ? A HOH 52 ? 1_555 81.5 ? 26 O ? G HOH . ? A HOH 33 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 O ? G HOH . ? A HOH 52 ? 1_555 177.7 ? 27 O ? G HOH . ? A HOH 40 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 O ? G HOH . ? A HOH 52 ? 1_555 79.6 ? 28 OP1 ? A DG 10 ? A DG 10 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 O ? G HOH . ? A HOH 53 ? 1_555 74.2 ? 29 O ? G HOH . ? A HOH 33 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 O ? G HOH . ? A HOH 53 ? 1_555 92.5 ? 30 O ? G HOH . ? A HOH 40 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 O ? G HOH . ? A HOH 53 ? 1_555 94.0 ? 31 O ? G HOH . ? A HOH 52 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 O ? G HOH . ? A HOH 53 ? 1_555 86.7 ? 32 OP1 ? A DG 10 ? A DG 10 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 OP2 ? B DG 10 ? B DG 20 ? 3_545 96.3 ? 33 O ? G HOH . ? A HOH 33 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 OP2 ? B DG 10 ? B DG 20 ? 3_545 93.8 ? 34 O ? G HOH . ? A HOH 40 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 OP2 ? B DG 10 ? B DG 20 ? 3_545 93.4 ? 35 O ? G HOH . ? A HOH 52 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 OP2 ? B DG 10 ? B DG 20 ? 3_545 87.3 ? 36 O ? G HOH . ? A HOH 53 ? 1_555 CA ? D CA . ? A CA 24 ? 1_555 OP2 ? B DG 10 ? B DG 20 ? 3_545 169.5 ? 37 O ? G HOH . ? A HOH 21 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 35 ? 1_555 80.6 ? 38 O ? G HOH . ? A HOH 21 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 36 ? 1_555 86.2 ? 39 O ? G HOH . ? A HOH 35 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 36 ? 1_555 85.5 ? 40 O ? G HOH . ? A HOH 21 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 38 ? 1_555 136.8 ? 41 O ? G HOH . ? A HOH 35 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 38 ? 1_555 134.6 ? 42 O ? G HOH . ? A HOH 36 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 38 ? 1_555 75.2 ? 43 O ? G HOH . ? A HOH 21 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 47 ? 1_555 60.1 ? 44 O ? G HOH . ? A HOH 35 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 47 ? 1_555 139.5 ? 45 O ? G HOH . ? A HOH 36 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 47 ? 1_555 82.7 ? 46 O ? G HOH . ? A HOH 38 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 47 ? 1_555 78.8 ? 47 O ? G HOH . ? A HOH 21 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 50 ? 1_555 147.5 ? 48 O ? G HOH . ? A HOH 35 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 50 ? 1_555 69.8 ? 49 O ? G HOH . ? A HOH 36 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 50 ? 1_555 104.0 ? 50 O ? G HOH . ? A HOH 38 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 50 ? 1_555 75.6 ? 51 O ? G HOH . ? A HOH 47 ? 1_555 CA ? C CA . ? A CA 22 ? 1_555 O ? G HOH . ? A HOH 50 ? 1_555 150.7 ? 52 O6 ? B DG 8 ? B DG 18 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 34 ? 1_555 100.7 ? 53 O6 ? B DG 8 ? B DG 18 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 77 ? 1_555 163.7 ? 54 O ? H HOH . ? B HOH 34 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 77 ? 1_555 82.3 ? 55 O6 ? B DG 8 ? B DG 18 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 79 ? 1_555 97.1 ? 56 O ? H HOH . ? B HOH 34 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 79 ? 1_555 78.1 ? 57 O ? H HOH . ? B HOH 77 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 79 ? 1_555 67.6 ? 58 O6 ? B DG 8 ? B DG 18 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 92 ? 1_555 55.0 ? 59 O ? H HOH . ? B HOH 34 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 92 ? 1_555 127.9 ? 60 O ? H HOH . ? B HOH 77 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 92 ? 1_555 110.5 ? 61 O ? H HOH . ? B HOH 79 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 92 ? 1_555 63.1 ? 62 O6 ? B DG 8 ? B DG 18 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 133 ? 1_555 105.4 ? 63 O ? H HOH . ? B HOH 34 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 133 ? 1_555 151.2 ? 64 O ? H HOH . ? B HOH 77 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 133 ? 1_555 69.3 ? 65 O ? H HOH . ? B HOH 79 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 133 ? 1_555 86.8 ? 66 O ? H HOH . ? B HOH 92 ? 1_555 NA ? F NA . ? B NA 23 ? 1_555 O ? H HOH . ? B HOH 133 ? 1_555 62.3 ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A CA 22 ? 6 'BINDING SITE FOR RESIDUE CA A 22' AC2 Software B NA 23 ? 6 'BINDING SITE FOR RESIDUE NA B 23' AC3 Software A CA 24 ? 6 'BINDING SITE FOR RESIDUE CA A 24' AC4 Software A CA 25 ? 6 'BINDING SITE FOR RESIDUE CA A 25' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 6 HOH G . ? HOH A 21 . ? 1_555 ? 2 AC1 6 HOH G . ? HOH A 35 . ? 1_555 ? 3 AC1 6 HOH G . ? HOH A 36 . ? 1_555 ? 4 AC1 6 HOH G . ? HOH A 38 . ? 1_555 ? 5 AC1 6 HOH G . ? HOH A 47 . ? 1_555 ? 6 AC1 6 HOH G . ? HOH A 50 . ? 1_555 ? 7 AC2 6 DG B 8 ? DG B 18 . ? 1_555 ? 8 AC2 6 HOH H . ? HOH B 34 . ? 1_555 ? 9 AC2 6 HOH H . ? HOH B 77 . ? 1_555 ? 10 AC2 6 HOH H . ? HOH B 79 . ? 1_555 ? 11 AC2 6 HOH H . ? HOH B 92 . ? 1_555 ? 12 AC2 6 HOH H . ? HOH B 133 . ? 1_555 ? 13 AC3 6 DG A 10 ? DG A 10 . ? 1_555 ? 14 AC3 6 HOH G . ? HOH A 33 . ? 1_555 ? 15 AC3 6 HOH G . ? HOH A 40 . ? 1_555 ? 16 AC3 6 HOH G . ? HOH A 52 . ? 1_555 ? 17 AC3 6 HOH G . ? HOH A 53 . ? 1_555 ? 18 AC3 6 DG B 10 ? DG B 20 . ? 3_545 ? 19 AC4 6 DC A 2 ? DC A 2 . ? 1_555 ? 20 AC4 6 DC B 2 ? DC B 12 . ? 1_555 ? 21 AC4 6 HOH H . ? HOH B 42 . ? 1_555 ? 22 AC4 6 HOH H . ? HOH B 54 . ? 1_555 ? 23 AC4 6 HOH H . ? HOH B 81 . ? 1_555 ? 24 AC4 6 HOH H . ? HOH B 100 . ? 1_555 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O B HOH 109 ? ? O B HOH 120 ? ? 1.94 2 1 O B HOH 75 ? ? O B HOH 86 ? ? 2.05 3 1 O A HOH 47 ? ? O A HOH 67 ? ? 2.10 # _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 A _pdbx_validate_symm_contact.auth_comp_id_1 HOH _pdbx_validate_symm_contact.auth_seq_id_1 57 _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 B _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 114 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 4_566 _pdbx_validate_symm_contact.dist 2.12 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 "O3'" _pdbx_validate_rmsd_bond.auth_asym_id_1 B _pdbx_validate_rmsd_bond.auth_comp_id_1 DC _pdbx_validate_rmsd_bond.auth_seq_id_1 12 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 "C3'" _pdbx_validate_rmsd_bond.auth_asym_id_2 B _pdbx_validate_rmsd_bond.auth_comp_id_2 DC _pdbx_validate_rmsd_bond.auth_seq_id_2 12 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.382 _pdbx_validate_rmsd_bond.bond_target_value 1.419 _pdbx_validate_rmsd_bond.bond_deviation -0.037 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.006 _pdbx_validate_rmsd_bond.linker_flag N # 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 N1 A DC 1 ? ? "C1'" A DC 1 ? ? "C2'" A DC 1 ? ? 101.18 112.60 -11.42 1.90 N 2 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 111.94 108.30 3.64 0.30 N 3 1 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 110.69 108.30 2.39 0.30 N 4 1 "C3'" A DC 2 ? ? "O3'" A DC 2 ? ? P A DC 3 ? ? 110.80 119.70 -8.90 1.20 Y 5 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 111.29 108.30 2.99 0.30 N 6 1 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 112.85 108.30 4.55 0.30 N 7 1 N9 A DA 5 ? ? "C1'" A DA 5 ? ? "C2'" A DA 5 ? ? 98.22 112.60 -14.38 1.90 N 8 1 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 116.82 108.30 8.52 0.30 N 9 1 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 111.07 108.30 2.77 0.30 N 10 1 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 113.73 108.30 5.43 0.30 N 11 1 "O4'" A DG 8 ? ? "C1'" A DG 8 ? ? N9 A DG 8 ? ? 111.85 108.30 3.55 0.30 N 12 1 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 117.02 108.30 8.72 0.30 N 13 1 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 111.85 108.30 3.55 0.30 N 14 1 "O4'" B DC 12 ? ? "C1'" B DC 12 ? ? N1 B DC 12 ? ? 111.71 108.30 3.41 0.30 N 15 1 "O4'" B DC 13 ? ? "C1'" B DC 13 ? ? "C2'" B DC 13 ? ? 109.92 106.80 3.12 0.50 N 16 1 "O4'" B DC 13 ? ? "C1'" B DC 13 ? ? N1 B DC 13 ? ? 113.27 108.30 4.97 0.30 N 17 1 "O4'" B DA 15 ? ? "C1'" B DA 15 ? ? N9 B DA 15 ? ? 112.44 108.30 4.14 0.30 N 18 1 "O4'" B DT 16 ? ? "C1'" B DT 16 ? ? N1 B DT 16 ? ? 111.77 108.30 3.47 0.30 N 19 1 "O4'" B DG 17 ? ? "C1'" B DG 17 ? ? N9 B DG 17 ? ? 114.01 108.30 5.71 0.30 N 20 1 N9 B DG 18 ? ? "C1'" B DG 18 ? ? "C2'" B DG 18 ? ? 96.96 112.60 -15.64 1.90 N 21 1 "O4'" B DG 18 ? ? "C1'" B DG 18 ? ? N9 B DG 18 ? ? 116.23 108.30 7.93 0.30 N 22 1 "O4'" B DG 19 ? ? "C1'" B DG 19 ? ? N9 B DG 19 ? ? 111.02 108.30 2.72 0.30 N # 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 CA CA CA N N 1 DA OP3 O N N 2 DA P P N N 3 DA OP1 O N N 4 DA OP2 O N N 5 DA "O5'" O N N 6 DA "C5'" C N N 7 DA "C4'" C N R 8 DA "O4'" O N N 9 DA "C3'" C N S 10 DA "O3'" O N N 11 DA "C2'" C N N 12 DA "C1'" C N R 13 DA N9 N Y N 14 DA C8 C Y N 15 DA N7 N Y N 16 DA C5 C Y N 17 DA C6 C Y N 18 DA N6 N N N 19 DA N1 N Y N 20 DA C2 C Y N 21 DA N3 N Y N 22 DA C4 C Y N 23 DA HOP3 H N N 24 DA HOP2 H N N 25 DA "H5'" H N N 26 DA "H5''" H N N 27 DA "H4'" H N N 28 DA "H3'" H N N 29 DA "HO3'" H N N 30 DA "H2'" H N N 31 DA "H2''" H N N 32 DA "H1'" H N N 33 DA H8 H N N 34 DA H61 H N N 35 DA H62 H N N 36 DA H2 H N N 37 DC OP3 O N N 38 DC P P N N 39 DC OP1 O N N 40 DC OP2 O N N 41 DC "O5'" O N N 42 DC "C5'" C N N 43 DC "C4'" C N R 44 DC "O4'" O N N 45 DC "C3'" C N S 46 DC "O3'" O N N 47 DC "C2'" C N N 48 DC "C1'" C N R 49 DC N1 N N N 50 DC C2 C N N 51 DC O2 O N N 52 DC N3 N N N 53 DC C4 C N N 54 DC N4 N N N 55 DC C5 C N N 56 DC C6 C N N 57 DC HOP3 H N N 58 DC HOP2 H N N 59 DC "H5'" H N N 60 DC "H5''" H N N 61 DC "H4'" H N N 62 DC "H3'" H N N 63 DC "HO3'" H N N 64 DC "H2'" H N N 65 DC "H2''" H N N 66 DC "H1'" H N N 67 DC H41 H N N 68 DC H42 H N N 69 DC H5 H N N 70 DC H6 H N N 71 DG OP3 O N N 72 DG P P N N 73 DG OP1 O N N 74 DG OP2 O N N 75 DG "O5'" O N N 76 DG "C5'" C N N 77 DG "C4'" C N R 78 DG "O4'" O N N 79 DG "C3'" C N S 80 DG "O3'" O N N 81 DG "C2'" C N N 82 DG "C1'" C N R 83 DG N9 N Y N 84 DG C8 C Y N 85 DG N7 N Y N 86 DG C5 C Y N 87 DG C6 C N N 88 DG O6 O N N 89 DG N1 N N N 90 DG C2 C N N 91 DG N2 N N N 92 DG N3 N N N 93 DG C4 C Y N 94 DG HOP3 H N N 95 DG HOP2 H N N 96 DG "H5'" H N N 97 DG "H5''" H N N 98 DG "H4'" H N N 99 DG "H3'" H N N 100 DG "HO3'" H N N 101 DG "H2'" H N N 102 DG "H2''" H N N 103 DG "H1'" H N N 104 DG H8 H N N 105 DG H1 H N N 106 DG H21 H N N 107 DG H22 H N N 108 DT OP3 O N N 109 DT P P N N 110 DT OP1 O N N 111 DT OP2 O N N 112 DT "O5'" O N N 113 DT "C5'" C N N 114 DT "C4'" C N R 115 DT "O4'" O N N 116 DT "C3'" C N S 117 DT "O3'" O N N 118 DT "C2'" C N N 119 DT "C1'" C N R 120 DT N1 N N N 121 DT C2 C N N 122 DT O2 O N N 123 DT N3 N N N 124 DT C4 C N N 125 DT O4 O N N 126 DT C5 C N N 127 DT C7 C N N 128 DT C6 C N N 129 DT HOP3 H N N 130 DT HOP2 H N N 131 DT "H5'" H N N 132 DT "H5''" H N N 133 DT "H4'" H N N 134 DT "H3'" H N N 135 DT "HO3'" H N N 136 DT "H2'" H N N 137 DT "H2''" H N N 138 DT "H1'" H N N 139 DT H3 H N N 140 DT H71 H N N 141 DT H72 H N N 142 DT H73 H N N 143 DT H6 H N N 144 HOH O O N N 145 HOH H1 H N N 146 HOH H2 H N N 147 NA NA NA N N 148 # 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 DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1ZF6 'double helix' 1ZF6 '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 A DC 1 1_555 B DG 10 1_555 0.168 -0.238 -0.859 13.236 -1.842 -4.271 1 A_DC1:DG20_B A 1 ? B 20 ? 19 1 1 A DC 2 1_555 B DG 9 1_555 0.055 -0.288 -0.247 12.201 -2.926 -4.728 2 A_DC2:DG19_B A 2 ? B 19 ? 19 1 1 A DC 3 1_555 B DG 8 1_555 0.125 -0.300 -0.696 1.292 -10.017 -0.270 3 A_DC3:DG18_B A 3 ? B 18 ? 19 1 1 A DC 4 1_555 B DG 7 1_555 0.331 -0.359 -0.277 -12.466 -1.100 -3.159 4 A_DC4:DG17_B A 4 ? B 17 ? 19 1 1 A DA 5 1_555 B DT 6 1_555 0.196 -0.263 -0.149 -4.037 1.681 -1.141 5 A_DA5:DT16_B A 5 ? B 16 ? 20 1 1 A DT 6 1_555 B DA 5 1_555 0.062 -0.227 -0.534 -1.535 2.675 2.684 6 A_DT6:DA15_B A 6 ? B 15 ? 20 1 1 A DG 7 1_555 B DC 4 1_555 -0.118 -0.252 -0.643 -10.342 -5.084 -4.261 7 A_DG7:DC14_B A 7 ? B 14 ? 19 1 1 A DG 8 1_555 B DC 3 1_555 -0.038 -0.262 -0.674 -9.989 -3.265 -1.665 8 A_DG8:DC13_B A 8 ? B 13 ? 19 1 1 A DG 9 1_555 B DC 2 1_555 0.046 -0.200 -0.393 -8.987 -3.780 -4.895 9 A_DG9:DC12_B A 9 ? B 12 ? 19 1 1 A DG 10 1_555 B DC 1 1_555 -0.234 -0.176 -0.390 -7.850 0.097 -1.395 10 A_DG10:DC11_B A 10 ? B 11 ? 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 DC 1 1_555 B DG 10 1_555 A DC 2 1_555 B DG 9 1_555 -0.507 -1.684 3.332 -10.520 14.019 31.522 -4.616 -0.595 2.437 23.657 17.752 35.959 1 AA_DC1DC2:DG19DG20_BB A 1 ? B 20 ? A 2 ? B 19 ? 1 A DC 2 1_555 B DG 9 1_555 A DC 3 1_555 B DG 8 1_555 0.625 -1.441 3.681 4.276 3.402 33.635 -3.065 -0.307 3.573 5.832 -7.330 34.063 2 AA_DC2DC3:DG18DG19_BB A 2 ? B 19 ? A 3 ? B 18 ? 1 A DC 3 1_555 B DG 8 1_555 A DC 4 1_555 B DG 7 1_555 -0.991 -1.423 3.670 -4.181 24.491 33.433 -4.666 0.947 2.264 36.911 6.301 41.442 3 AA_DC3DC4:DG17DG18_BB A 3 ? B 18 ? A 4 ? B 17 ? 1 A DC 4 1_555 B DG 7 1_555 A DA 5 1_555 B DT 6 1_555 0.950 -1.327 3.110 1.692 17.237 24.573 -5.547 -1.543 1.860 35.422 -3.477 29.986 4 AA_DC4DA5:DT16DG17_BB A 4 ? B 17 ? A 5 ? B 16 ? 1 A DA 5 1_555 B DT 6 1_555 A DT 6 1_555 B DA 5 1_555 0.317 -1.673 3.329 1.224 4.358 32.065 -3.758 -0.356 3.090 7.841 -2.202 32.374 5 AA_DA5DT6:DA15DT16_BB A 5 ? B 16 ? A 6 ? B 15 ? 1 A DT 6 1_555 B DA 5 1_555 A DG 7 1_555 B DC 4 1_555 -0.541 -1.266 3.639 1.051 17.287 26.728 -5.499 1.182 2.379 33.320 -2.027 31.763 6 AA_DT6DG7:DC14DA15_BB A 6 ? B 15 ? A 7 ? B 14 ? 1 A DG 7 1_555 B DC 4 1_555 A DG 8 1_555 B DC 3 1_555 0.704 -1.393 3.445 1.905 12.238 29.523 -4.702 -0.940 2.708 22.792 -3.548 31.962 7 AA_DG7DG8:DC13DC14_BB A 7 ? B 14 ? A 8 ? B 13 ? 1 A DG 8 1_555 B DC 3 1_555 A DG 9 1_555 B DC 2 1_555 0.418 -1.520 3.448 3.976 7.279 27.947 -4.623 0.043 2.995 14.667 -8.012 29.128 8 AA_DG8DG9:DC12DC13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A DG 9 1_555 B DC 2 1_555 A DG 10 1_555 B DC 1 1_555 0.474 -1.650 3.446 4.783 -0.161 34.717 -2.716 -0.023 3.485 -0.268 -7.968 35.035 9 AA_DG9DG10:DC11DC12_BB A 9 ? B 12 ? A 10 ? B 11 ? # _pdbx_initial_refinement_model.accession_code 100D _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.details 'ndb entry AHJ060' # _atom_sites.entry_id 1ZF6 _atom_sites.fract_transf_matrix[1][1] 0.03962 _atom_sites.fract_transf_matrix[1][2] 0.00000 _atom_sites.fract_transf_matrix[1][3] 0.00000 _atom_sites.fract_transf_matrix[2][1] 0.00000 _atom_sites.fract_transf_matrix[2][2] 0.02428 _atom_sites.fract_transf_matrix[2][3] 0.00000 _atom_sites.fract_transf_matrix[3][1] 0.00000 _atom_sites.fract_transf_matrix[3][2] 0.00000 _atom_sites.fract_transf_matrix[3][3] 0.02252 _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 CA N NA O P # loop_