data_3SD3 # _entry.id 3SD3 # _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 3SD3 pdb_00003sd3 10.2210/pdb3sd3/pdb NDB NA1169 ? ? RCSB RCSB066056 ? ? WWPDB D_1000066056 ? ? # 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 2011-09-21 2 'Structure model' 1 1 2011-09-28 3 'Structure model' 1 2 2011-11-02 4 'Structure model' 2 0 2019-11-20 5 'Structure model' 2 1 2024-02-28 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Database references' 3 4 'Structure model' Advisory 4 4 'Structure model' 'Atomic model' 5 4 'Structure model' 'Data collection' 6 4 'Structure model' 'Derived calculations' 7 4 'Structure model' 'Non-polymer description' 8 4 'Structure model' 'Structure summary' 9 5 'Structure model' Advisory 10 5 'Structure model' 'Data collection' 11 5 'Structure model' 'Database references' 12 5 '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' atom_site 2 4 'Structure model' chem_comp 3 4 'Structure model' entity 4 4 'Structure model' pdbx_entity_nonpoly 5 4 'Structure model' pdbx_nonpoly_scheme 6 4 'Structure model' pdbx_unobs_or_zero_occ_atoms 7 5 'Structure model' chem_comp_atom 8 5 'Structure model' chem_comp_bond 9 5 'Structure model' database_2 10 5 'Structure model' pdbx_unobs_or_zero_occ_atoms 11 5 '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' '_atom_site.B_iso_or_equiv' 2 4 'Structure model' '_atom_site.Cartn_x' 3 4 'Structure model' '_atom_site.Cartn_y' 4 4 'Structure model' '_atom_site.Cartn_z' 5 4 'Structure model' '_atom_site.auth_atom_id' 6 4 'Structure model' '_atom_site.auth_comp_id' 7 4 'Structure model' '_atom_site.label_atom_id' 8 4 'Structure model' '_atom_site.label_comp_id' 9 4 'Structure model' '_atom_site.type_symbol' 10 4 'Structure model' '_chem_comp.id' 11 4 'Structure model' '_chem_comp.name' 12 4 'Structure model' '_chem_comp.pdbx_synonyms' 13 4 'Structure model' '_entity.pdbx_description' 14 4 'Structure model' '_pdbx_entity_nonpoly.comp_id' 15 4 'Structure model' '_pdbx_entity_nonpoly.name' 16 4 'Structure model' '_pdbx_nonpoly_scheme.mon_id' 17 4 'Structure model' '_pdbx_nonpoly_scheme.pdb_mon_id' 18 5 'Structure model' '_database_2.pdbx_DOI' 19 5 'Structure model' '_database_2.pdbx_database_accession' 20 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 21 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 22 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.entry_id 3SD3 _pdbx_database_status.status_code REL _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2011-06-08 _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.pdb_format_compatible Y _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 3SD1 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Reyes, F.E.' 1 'Trausch, J.J.' 2 'Ceres, P.' 3 'Batey, R.T.' 4 # _citation.id primary _citation.title 'The structure of a tetrahydrofolate-sensing riboswitch reveals two ligand binding sites in a single aptamer.' _citation.journal_abbrev Structure _citation.journal_volume 19 _citation.page_first 1413 _citation.page_last 1423 _citation.year 2011 _citation.journal_id_ASTM STRUE6 _citation.country UK _citation.journal_id_ISSN 0969-2126 _citation.journal_id_CSD 2005 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 21906956 _citation.pdbx_database_id_DOI 10.1016/j.str.2011.06.019 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Trausch, J.J.' 1 ? primary 'Ceres, P.' 2 ? primary 'Reyes, F.E.' 3 ? primary 'Batey, R.T.' 4 ? # 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 'Tetrahydrofolate riboswitch' 28848.162 1 ? ? ? ? 2 non-polymer syn 'IRIDIUM HEXAMMINE ION' 294.400 5 ? ? ? ? 3 non-polymer syn 'N-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)benzoyl]-L-glutamic acid' 473.439 1 ? ? ? ? 4 water nat water 18.015 103 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;GGAGAGUAGAUGAUUCGCGUUAAGCGUGUGUGAAUGGGAUGUCGUCACACAACGAAGCGAGAGCGCGGUGAAUCAUUGCA UCCGCUCCA ; _entity_poly.pdbx_seq_one_letter_code_can ;GGAGAGUAGAUGAUUCGCGUUAAGCGUGUGUGAAUGGGAUGUCGUCACACAACGAAGCGAGAGCGCGGUGAAUCAUUGCA UCCGCUCCA ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'IRIDIUM HEXAMMINE ION' IRI 3 'N-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)benzoyl]-L-glutamic acid' FFO 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 G n 1 3 A n 1 4 G n 1 5 A n 1 6 G n 1 7 U n 1 8 A n 1 9 G n 1 10 A n 1 11 U n 1 12 G n 1 13 A n 1 14 U n 1 15 U n 1 16 C n 1 17 G n 1 18 C n 1 19 G n 1 20 U n 1 21 U n 1 22 A n 1 23 A n 1 24 G n 1 25 C n 1 26 G n 1 27 U n 1 28 G n 1 29 U n 1 30 G n 1 31 U n 1 32 G n 1 33 A n 1 34 A n 1 35 U n 1 36 G n 1 37 G n 1 38 G n 1 39 A n 1 40 U n 1 41 G n 1 42 U n 1 43 C n 1 44 G n 1 45 U n 1 46 C n 1 47 A n 1 48 C n 1 49 A n 1 50 C n 1 51 A n 1 52 A n 1 53 C n 1 54 G n 1 55 A n 1 56 A n 1 57 G n 1 58 C n 1 59 G n 1 60 A n 1 61 G n 1 62 A n 1 63 G n 1 64 C n 1 65 G n 1 66 C n 1 67 G n 1 68 G n 1 69 U n 1 70 G n 1 71 A n 1 72 A n 1 73 U n 1 74 C n 1 75 A n 1 76 U n 1 77 U n 1 78 G n 1 79 C n 1 80 A n 1 81 U n 1 82 C n 1 83 C n 1 84 G n 1 85 C n 1 86 U n 1 87 C n 1 88 C n 1 89 A 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 'Synthesized from T7 RNA polymerase using a recombinant PCR template' # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 FFO non-polymer . 'N-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)benzoyl]-L-glutamic acid' '[6S]-5-FORMYL-TETRAHYDROFOLATE; 6S-FOLINIC ACID' 'C20 H23 N7 O7' 473.439 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 IRI non-polymer . 'IRIDIUM HEXAMMINE ION' ? 'H18 Ir N6 3' 294.400 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 G 1 1 1 G G A . n A 1 2 G 2 2 2 G G A . n A 1 3 A 3 3 3 A A A . n A 1 4 G 4 4 4 G G A . n A 1 5 A 5 5 5 A A A . n A 1 6 G 6 6 6 G G A . n A 1 7 U 7 7 7 U U A . n A 1 8 A 8 8 8 A A A . n A 1 9 G 9 9 9 G G A . n A 1 10 A 10 10 10 A A A . n A 1 11 U 11 11 11 U U A . n A 1 12 G 12 12 12 G G A . n A 1 13 A 13 13 13 A A A . n A 1 14 U 14 14 14 U U A . n A 1 15 U 15 15 15 U U A . n A 1 16 C 16 16 16 C C A . n A 1 17 G 17 17 17 G G A . n A 1 18 C 18 18 18 C C A . n A 1 19 G 19 19 19 G G A . n A 1 20 U 20 20 20 U U A . n A 1 21 U 21 21 21 U U A . n A 1 22 A 22 22 22 A A A . n A 1 23 A 23 23 23 A A A . n A 1 24 G 24 24 24 G G A . n A 1 25 C 25 25 25 C C A . n A 1 26 G 26 26 26 G G A . n A 1 27 U 27 27 27 U U A . n A 1 28 G 28 28 28 G G A . n A 1 29 U 29 29 29 U U A . n A 1 30 G 30 30 30 G G A . n A 1 31 U 31 31 31 U U A . n A 1 32 G 32 32 32 G G A . n A 1 33 A 33 33 33 A A A . n A 1 34 A 34 34 34 A A A . n A 1 35 U 35 35 35 U U A . n A 1 36 G 36 36 36 G G A . n A 1 37 G 37 37 37 G G A . n A 1 38 G 38 38 38 G G A . n A 1 39 A 39 39 39 A A A . n A 1 40 U 40 40 40 U U A . n A 1 41 G 41 41 41 G G A . n A 1 42 U 42 42 42 U U A . n A 1 43 C 43 43 43 C C A . n A 1 44 G 44 44 44 G G A . n A 1 45 U 45 45 45 U U A . n A 1 46 C 46 46 46 C C A . n A 1 47 A 47 47 47 A A A . n A 1 48 C 48 48 48 C C A . n A 1 49 A 49 49 49 A A A . n A 1 50 C 50 50 50 C C A . n A 1 51 A 51 51 51 A A A . n A 1 52 A 52 52 52 A A A . n A 1 53 C 53 53 53 C C A . n A 1 54 G 54 54 54 G G A . n A 1 55 A 55 55 55 A A A . n A 1 56 A 56 56 56 A A A . n A 1 57 G 57 57 57 G G A . n A 1 58 C 58 58 58 C C A . n A 1 59 G 59 59 59 G G A . n A 1 60 A 60 60 60 A A A . n A 1 61 G 61 61 61 G G A . n A 1 62 A 62 62 62 A A A . n A 1 63 G 63 63 63 G G A . n A 1 64 C 64 64 64 C C A . n A 1 65 G 65 65 65 G G A . n A 1 66 C 66 66 66 C C A . n A 1 67 G 67 67 67 G G A . n A 1 68 G 68 68 68 G G A . n A 1 69 U 69 69 69 U U A . n A 1 70 G 70 70 70 G G A . n A 1 71 A 71 71 71 A A A . n A 1 72 A 72 72 72 A A A . n A 1 73 U 73 73 73 U U A . n A 1 74 C 74 74 74 C C A . n A 1 75 A 75 75 75 A A A . n A 1 76 U 76 76 76 U U A . n A 1 77 U 77 77 77 U U A . n A 1 78 G 78 78 78 G G A . n A 1 79 C 79 79 79 C C A . n A 1 80 A 80 80 80 A A A . n A 1 81 U 81 81 81 U U A . n A 1 82 C 82 82 82 C C A . n A 1 83 C 83 83 83 C C A . n A 1 84 G 84 84 84 G G A . n A 1 85 C 85 85 85 C C A . n A 1 86 U 86 86 86 U U A . n A 1 87 C 87 87 87 C C A . n A 1 88 C 88 88 88 C C A . n A 1 89 A 89 89 89 A A A . 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 B 2 IRI 1 90 1 IRI IRI A . C 2 IRI 1 91 2 IRI IRI A . D 2 IRI 1 92 3 IRI IRI A . E 2 IRI 1 93 4 IRI IRI A . F 2 IRI 1 94 5 IRI IRI A . G 3 FFO 1 3631 3631 FFO FOZ A . H 4 HOH 1 95 95 HOH HOH A . H 4 HOH 2 96 96 HOH HOH A . H 4 HOH 3 97 97 HOH HOH A . H 4 HOH 4 98 98 HOH HOH A . H 4 HOH 5 99 99 HOH HOH A . H 4 HOH 6 100 100 HOH HOH A . H 4 HOH 7 101 101 HOH HOH A . H 4 HOH 8 102 102 HOH HOH A . H 4 HOH 9 103 103 HOH HOH A . H 4 HOH 10 104 1 HOH HOH A . H 4 HOH 11 105 2 HOH HOH A . H 4 HOH 12 106 3 HOH HOH A . H 4 HOH 13 107 4 HOH HOH A . H 4 HOH 14 108 5 HOH HOH A . H 4 HOH 15 109 6 HOH HOH A . H 4 HOH 16 110 7 HOH HOH A . H 4 HOH 17 111 8 HOH HOH A . H 4 HOH 18 112 9 HOH HOH A . H 4 HOH 19 113 10 HOH HOH A . H 4 HOH 20 114 11 HOH HOH A . H 4 HOH 21 115 12 HOH HOH A . H 4 HOH 22 116 13 HOH HOH A . H 4 HOH 23 117 14 HOH HOH A . H 4 HOH 24 118 15 HOH HOH A . H 4 HOH 25 119 16 HOH HOH A . H 4 HOH 26 120 17 HOH HOH A . H 4 HOH 27 121 18 HOH HOH A . H 4 HOH 28 122 19 HOH HOH A . H 4 HOH 29 123 20 HOH HOH A . H 4 HOH 30 124 21 HOH HOH A . H 4 HOH 31 125 22 HOH HOH A . H 4 HOH 32 126 23 HOH HOH A . H 4 HOH 33 127 24 HOH HOH A . H 4 HOH 34 128 25 HOH HOH A . H 4 HOH 35 129 26 HOH HOH A . H 4 HOH 36 130 27 HOH HOH A . H 4 HOH 37 131 28 HOH HOH A . H 4 HOH 38 132 29 HOH HOH A . H 4 HOH 39 133 30 HOH HOH A . H 4 HOH 40 134 31 HOH HOH A . H 4 HOH 41 135 32 HOH HOH A . H 4 HOH 42 136 33 HOH HOH A . H 4 HOH 43 137 34 HOH HOH A . H 4 HOH 44 138 35 HOH HOH A . H 4 HOH 45 139 36 HOH HOH A . H 4 HOH 46 140 37 HOH HOH A . H 4 HOH 47 141 38 HOH HOH A . H 4 HOH 48 142 39 HOH HOH A . H 4 HOH 49 143 40 HOH HOH A . H 4 HOH 50 144 41 HOH HOH A . H 4 HOH 51 145 42 HOH HOH A . H 4 HOH 52 146 43 HOH HOH A . H 4 HOH 53 147 44 HOH HOH A . H 4 HOH 54 148 45 HOH HOH A . H 4 HOH 55 149 46 HOH HOH A . H 4 HOH 56 150 47 HOH HOH A . H 4 HOH 57 151 48 HOH HOH A . H 4 HOH 58 152 49 HOH HOH A . H 4 HOH 59 153 50 HOH HOH A . H 4 HOH 60 154 51 HOH HOH A . H 4 HOH 61 155 52 HOH HOH A . H 4 HOH 62 156 53 HOH HOH A . H 4 HOH 63 157 54 HOH HOH A . H 4 HOH 64 158 55 HOH HOH A . H 4 HOH 65 159 56 HOH HOH A . H 4 HOH 66 160 57 HOH HOH A . H 4 HOH 67 161 58 HOH HOH A . H 4 HOH 68 162 59 HOH HOH A . H 4 HOH 69 163 60 HOH HOH A . H 4 HOH 70 164 61 HOH HOH A . H 4 HOH 71 165 62 HOH HOH A . H 4 HOH 72 166 63 HOH HOH A . H 4 HOH 73 167 64 HOH HOH A . H 4 HOH 74 168 65 HOH HOH A . H 4 HOH 75 169 66 HOH HOH A . H 4 HOH 76 170 67 HOH HOH A . H 4 HOH 77 171 68 HOH HOH A . H 4 HOH 78 172 69 HOH HOH A . H 4 HOH 79 173 70 HOH HOH A . H 4 HOH 80 174 71 HOH HOH A . H 4 HOH 81 175 72 HOH HOH A . H 4 HOH 82 176 73 HOH HOH A . H 4 HOH 83 177 74 HOH HOH A . H 4 HOH 84 178 75 HOH HOH A . H 4 HOH 85 179 76 HOH HOH A . H 4 HOH 86 180 77 HOH HOH A . H 4 HOH 87 181 78 HOH HOH A . H 4 HOH 88 182 79 HOH HOH A . H 4 HOH 89 183 80 HOH HOH A . H 4 HOH 90 184 81 HOH HOH A . H 4 HOH 91 185 82 HOH HOH A . H 4 HOH 92 186 83 HOH HOH A . H 4 HOH 93 187 84 HOH HOH A . H 4 HOH 94 188 85 HOH HOH A . H 4 HOH 95 189 86 HOH HOH A . H 4 HOH 96 190 87 HOH HOH A . H 4 HOH 97 191 88 HOH HOH A . H 4 HOH 98 192 89 HOH HOH A . H 4 HOH 99 193 90 HOH HOH A . H 4 HOH 100 194 91 HOH HOH A . H 4 HOH 101 195 92 HOH HOH A . H 4 HOH 102 196 93 HOH HOH A . H 4 HOH 103 197 94 HOH HOH A . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 N 0 A IRI 90 ? N1 ? B IRI ? N1 2 1 N 0 A IRI 90 ? N2 ? B IRI ? N2 3 1 N 0 A IRI 90 ? N5 ? B IRI ? N5 4 1 N 0 A IRI 93 ? N1 ? E IRI ? N1 5 1 N 0 A IRI 93 ? N4 ? E IRI ? N4 6 1 N 0 A IRI 94 ? N4 ? F IRI ? N4 7 1 N 1 A FFO 3631 ? C ? G FFO 1 C 8 1 N 1 A FFO 3631 ? O ? G FFO 1 O 9 1 N 1 A FFO 3631 ? N ? G FFO 1 N 10 1 N 1 A FFO 3631 ? CA ? G FFO 1 CA 11 1 N 1 A FFO 3631 ? CB ? G FFO 1 CB 12 1 N 1 A FFO 3631 ? CG ? G FFO 1 CG 13 1 N 1 A FFO 3631 ? CD ? G FFO 1 CD 14 1 N 1 A FFO 3631 ? OE1 ? G FFO 1 OE1 15 1 N 1 A FFO 3631 ? OE2 ? G FFO 1 OE2 16 1 N 1 A FFO 3631 ? CT ? G FFO 1 CT 17 1 N 1 A FFO 3631 ? O1 ? G FFO 1 O1 18 1 N 1 A FFO 3631 ? O2 ? G FFO 1 O2 # loop_ _software.pdbx_ordinal _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id 1 SCALA 3.3.15 2009/03/31 other 'Phil R. Evans' pre@mrc-lmb.cam.ac.uk 'data scaling' http://www.ccp4.ac.uk/dist/html/scala.html Fortran_77 ? 2 PHASER . ? program 'Randy J. Read' cimr-phaser@lists.cam.ac.uk phasing http://www-structmed.cimr.cam.ac.uk/phaser/ ? ? 3 RESOLVE 2.15 20-Mar-2010 program 'Thomas C. Terwilliger' terwilliger@lanl.gov phasing http://www.solve.lanl.gov/ ? ? 4 PHENIX dev_572 ? package 'Paul D. Adams' PDAdams@lbl.gov refinement http://www.phenix-online.org/ C++ ? 5 PDB_EXTRACT 3.10 'June 10, 2010' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 6 BOS . ? ? ? ? 'data collection' ? ? ? 7 XSCALE . ? ? ? ? 'data scaling' ? ? ? # _cell.length_a 27.520 _cell.length_b 68.590 _cell.length_c 158.080 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.entry_id 3SD3 _cell.pdbx_unique_axis ? _cell.Z_PDB 4 _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.entry_id 3SD3 _symmetry.Int_Tables_number 19 _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # _exptl.crystals_number 1 _exptl.entry_id 3SD3 _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_percent_sol 52.43 _exptl_crystal.density_Matthews 2.59 _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, HANGING DROP' _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.temp 303 _exptl_crystal_grow.pdbx_details ;2,4-methyl-pentanediol, spermine, sodium cacodylate, sodium chloride, dithiothreitol, pH 7.0, vapor diffusion, hanging drop, temperature 303K ; _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315r' _diffrn_detector.pdbx_collection_date 2010-12-04 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.1051 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ALS BEAMLINE 5.0.2' _diffrn_source.pdbx_wavelength_list 1.1051 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site ALS _diffrn_source.pdbx_synchrotron_beamline 5.0.2 # _reflns.entry_id 3SD3 _reflns.d_resolution_high 1.95 _reflns.d_resolution_low 62.922 _reflns.number_all 22136 _reflns.number_obs 22136 _reflns.pdbx_netI_over_sigmaI 20.200 _reflns.pdbx_Rsym_value 0.027 _reflns.pdbx_redundancy 3.500 _reflns.percent_possible_obs 98.100 _reflns.observed_criterion_sigma_F 2 _reflns.observed_criterion_sigma_I 2 _reflns.pdbx_Rmerge_I_obs ? _reflns.B_iso_Wilson_estimate ? _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.number_unique_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 1.950 2.010 ? 5747 ? 0.456 1.700 0.456 ? 3.700 ? 1572 98.000 1 1 2.010 2.060 ? 5641 ? 0.341 2.300 0.341 ? 3.600 ? 1569 99.200 2 1 2.060 2.120 ? 5362 ? 0.269 2.900 0.269 ? 3.600 ? 1492 94.600 3 1 2.120 2.190 ? 5329 ? 0.228 3.400 0.228 ? 3.600 ? 1474 99.700 4 1 2.190 2.260 ? 5137 ? 0.171 4.600 0.171 ? 3.500 ? 1458 98.700 5 1 2.260 2.340 ? 4878 ? 0.136 5.700 0.136 ? 3.600 ? 1354 97.000 6 1 2.340 2.420 ? 4900 ? 0.101 7.700 0.101 ? 3.600 ? 1372 99.500 7 1 2.420 2.520 ? 4661 ? 0.081 9.600 0.081 ? 3.500 ? 1313 97.600 8 1 2.520 2.640 ? 4457 ? 0.058 13.200 0.058 ? 3.500 ? 1258 99.900 9 1 2.640 2.760 ? 4270 ? 0.047 15.800 0.047 ? 3.500 ? 1226 98.300 10 1 2.760 2.910 ? 3977 ? 0.033 21.200 0.033 ? 3.500 ? 1128 99.200 11 1 2.910 3.090 ? 3824 ? 0.026 19.900 0.026 ? 3.500 ? 1106 98.000 12 1 3.090 3.300 ? 3441 ? 0.021 27.900 0.021 ? 3.500 ? 989 97.300 13 1 3.300 3.570 ? 3136 ? 0.020 28.200 0.020 ? 3.300 ? 960 97.500 14 1 3.570 3.910 ? 2872 ? 0.019 25.800 0.019 ? 3.200 ? 910 97.900 15 1 3.910 4.370 ? 2673 ? 0.019 30.900 0.019 ? 3.300 ? 803 98.700 16 1 4.370 5.050 ? 2303 ? 0.020 29.900 0.020 ? 3.200 ? 723 99.300 17 1 5.050 6.180 ? 2130 ? 0.017 35.300 0.017 ? 3.300 ? 650 99.100 18 1 6.180 8.740 ? 1663 ? 0.014 42.900 0.014 ? 3.300 ? 511 99.400 19 1 8.740 62.895 ? 767 ? 0.015 39.500 0.015 ? 2.900 ? 268 86.900 20 1 # _refine.entry_id 3SD3 _refine.ls_d_res_high 1.95 _refine.ls_d_res_low 62.895 _refine.pdbx_ls_sigma_F 0.230 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 96.1600 _refine.ls_number_reflns_obs 22038 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_R_Free_selection_details 'From phenix.refine' _refine.details ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2307 _refine.ls_R_factor_R_work 0.2294 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2431 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 8.9000 _refine.ls_number_reflns_R_free 1962 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 40.1859 _refine.solvent_model_param_bsol 25.2580 _refine.solvent_model_param_ksol 0.3640 _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 17.9289 _refine.aniso_B[2][2] -6.9843 _refine.aniso_B[3][3] 10.3856 _refine.aniso_B[1][2] -0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] -0.0000 _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.3200 _refine.overall_SU_B ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.pdbx_solvent_vdw_probe_radii 1.0000 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.7200 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set 0.7699 _refine.B_iso_max 324.690 _refine.B_iso_min 16.870 _refine.occupancy_max 1.000 _refine.occupancy_min 0.000 _refine.pdbx_ls_sigma_I ? _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R ? _refine.pdbx_TLS_residual_ADP_flag ? _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 1913 _refine_hist.pdbx_number_atoms_ligand 57 _refine_hist.number_atoms_solvent 103 _refine_hist.number_atoms_total 2073 _refine_hist.d_res_high 1.95 _refine_hist.d_res_low 62.895 # 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_restraint_function _refine_ls_restr.pdbx_refine_id f_bond_d 2196 0.002 ? ? ? 'X-RAY DIFFRACTION' f_angle_d 3448 0.502 ? ? ? 'X-RAY DIFFRACTION' f_chiral_restr 446 0.052 ? ? ? 'X-RAY DIFFRACTION' f_plane_restr 92 0.004 ? ? ? 'X-RAY DIFFRACTION' f_dihedral_angle_d 1076 16.272 ? ? ? 'X-RAY DIFFRACTION' # loop_ _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.percent_reflns_obs _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_R_work _refine_ls_shell.R_factor_R_free _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.pdbx_refine_id 1.95 1.9947 14 90.0000 1294 . 0.3460 0.3751 . 129 . 1423 . . 'X-RAY DIFFRACTION' 1.9947 2.0486 14 94.0000 1368 . 0.3231 0.3351 . 136 . 1504 . . 'X-RAY DIFFRACTION' 2.0486 2.1089 14 91.0000 1354 . 0.3155 0.3266 . 129 . 1483 . . 'X-RAY DIFFRACTION' 2.1089 2.1770 14 96.0000 1377 . 0.3108 0.3372 . 136 . 1513 . . 'X-RAY DIFFRACTION' 2.1770 2.2548 14 97.0000 1438 . 0.3083 0.3194 . 140 . 1578 . . 'X-RAY DIFFRACTION' 2.2548 2.3451 14 95.0000 1378 . 0.3031 0.3919 . 133 . 1511 . . 'X-RAY DIFFRACTION' 2.3451 2.4518 14 98.0000 1466 . 0.2838 0.2365 . 143 . 1609 . . 'X-RAY DIFFRACTION' 2.4518 2.5811 14 97.0000 1413 . 0.2806 0.3270 . 137 . 1550 . . 'X-RAY DIFFRACTION' 2.5811 2.7428 14 99.0000 1498 . 0.2952 0.3083 . 148 . 1646 . . 'X-RAY DIFFRACTION' 2.7428 2.9545 14 98.0000 1442 . 0.2772 0.3052 . 141 . 1583 . . 'X-RAY DIFFRACTION' 2.9545 3.2519 14 98.0000 1466 . 0.2300 0.2263 . 143 . 1609 . . 'X-RAY DIFFRACTION' 3.2519 3.7224 14 98.0000 1476 . 0.2138 0.2445 . 144 . 1620 . . 'X-RAY DIFFRACTION' 3.7224 4.6896 14 98.0000 1526 . 0.1734 0.1774 . 150 . 1676 . . 'X-RAY DIFFRACTION' 4.6896 62.9551 14 96.0000 1580 . 0.1815 0.1872 . 153 . 1733 . . 'X-RAY DIFFRACTION' # _struct.entry_id 3SD3 _struct.title 'The structure of the tetrahydrofolate riboswitch containing a U25C mutation' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3SD3 _struct_keywords.text 'tetrahydrofolate rna riboswitch, RNA' _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 2 ? D N N 2 ? E N N 2 ? F N N 2 ? G N N 3 ? H N N 4 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3SD3 _struct_ref.pdbx_db_accession 3SD3 _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3SD3 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 89 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 3SD3 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 89 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 89 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _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.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 hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 A C 88 N3 ? ? A G 1 A C 88 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 88 O2 ? ? A G 1 A C 88 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 88 N4 ? ? A G 1 A C 88 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 87 N3 ? ? A G 2 A C 87 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 87 O2 ? ? A G 2 A C 87 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 87 N4 ? ? A G 2 A C 87 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 3 N1 ? ? ? 1_555 A U 86 N3 ? ? A A 3 A U 86 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 3 N6 ? ? ? 1_555 A U 86 O4 ? ? A A 3 A U 86 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N1 ? ? ? 1_555 A C 85 N3 ? ? A G 4 A C 85 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 A C 85 O2 ? ? A G 4 A C 85 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 A C 85 N4 ? ? A G 4 A C 85 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A A 5 N1 ? ? ? 1_555 A G 84 N1 ? ? A A 5 A G 84 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog13 hydrog ? ? A A 5 N6 ? ? ? 1_555 A G 84 O6 ? ? A A 5 A G 84 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog14 hydrog ? ? A G 6 N2 ? ? ? 1_555 A G 37 O6 ? ? A G 6 A G 37 1_555 ? ? ? ? ? ? 'G-G MISPAIR' ? ? ? hydrog15 hydrog ? ? A A 8 N3 ? ? ? 1_555 A G 44 N2 ? ? A A 8 A G 44 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? hydrog16 hydrog ? ? A A 8 N7 ? ? ? 1_555 A G 78 N2 ? ? A A 8 A G 78 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? hydrog17 hydrog ? ? A G 9 N1 ? ? ? 1_555 A U 77 O2 ? ? A G 9 A U 77 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog18 hydrog ? ? A G 9 O6 ? ? ? 1_555 A U 77 N3 ? ? A G 9 A U 77 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog19 hydrog ? ? A A 10 N1 ? ? ? 1_555 A U 76 N3 ? ? A A 10 A U 76 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 10 N6 ? ? ? 1_555 A U 76 O4 ? ? A A 10 A U 76 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A U 11 N3 ? ? ? 1_555 A A 75 N1 ? ? A U 11 A A 75 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A U 11 O4 ? ? ? 1_555 A A 75 N6 ? ? A U 11 A A 75 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 12 N1 ? ? ? 1_555 A C 74 N3 ? ? A G 12 A C 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 12 N2 ? ? ? 1_555 A C 74 O2 ? ? A G 12 A C 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 12 O6 ? ? ? 1_555 A C 74 N4 ? ? A G 12 A C 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A A 13 N1 ? ? ? 1_555 A U 73 N3 ? ? A A 13 A U 73 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A A 13 N6 ? ? ? 1_555 A U 73 O4 ? ? A A 13 A U 73 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A U 14 N3 ? ? ? 1_555 A A 72 N1 ? ? A U 14 A A 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A U 14 O4 ? ? ? 1_555 A A 72 N6 ? ? A U 14 A A 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A U 15 N3 ? ? ? 1_555 A A 71 N1 ? ? A U 15 A A 71 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A U 15 O4 ? ? ? 1_555 A A 71 N6 ? ? A U 15 A A 71 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A C 16 N3 ? ? ? 1_555 A G 70 N1 ? ? A C 16 A G 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A C 16 N4 ? ? ? 1_555 A G 70 O6 ? ? A C 16 A G 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 16 O2 ? ? ? 1_555 A G 70 N2 ? ? A C 16 A G 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 17 N1 ? ? ? 1_555 A U 69 O2 ? ? A G 17 A U 69 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog36 hydrog ? ? A G 17 O6 ? ? ? 1_555 A U 69 N3 ? ? A G 17 A U 69 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog37 hydrog ? ? A C 18 N3 ? ? ? 1_555 A G 67 N1 ? ? A C 18 A G 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A C 18 N4 ? ? ? 1_555 A G 67 O6 ? ? A C 18 A G 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A C 18 O2 ? ? ? 1_555 A G 67 N2 ? ? A C 18 A G 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A G 19 N2 ? ? ? 1_555 A A 22 N1 ? ? A G 19 A A 22 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog41 hydrog ? ? A G 19 N1 ? ? ? 1_555 A C 66 N3 ? ? A G 19 A C 66 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A G 19 N2 ? ? ? 1_555 A C 66 O2 ? ? A G 19 A C 66 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A G 19 O6 ? ? ? 1_555 A C 66 N4 ? ? A G 19 A C 66 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A U 20 N3 ? ? ? 1_555 A G 65 O6 ? ? A U 20 A G 65 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog45 hydrog ? ? A U 20 O2 ? ? ? 1_555 A G 65 N1 ? ? A U 20 A G 65 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog46 hydrog ? ? A A 23 N6 ? ? ? 1_555 A A 55 N1 ? ? A A 23 A A 55 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog47 hydrog ? ? A A 23 N7 ? ? ? 1_555 A A 55 N6 ? ? A A 23 A A 55 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog48 hydrog ? ? A A 23 N1 ? ? ? 1_555 A G 67 N2 ? ? A A 23 A G 67 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? hydrog49 hydrog ? ? A G 24 O6 ? ? ? 1_555 A G 54 N2 ? ? A G 24 A G 54 1_555 ? ? ? ? ? ? 'G-G MISPAIR' ? ? ? hydrog50 hydrog ? ? A G 26 N1 ? ? ? 1_555 A A 52 N1 ? ? A G 26 A A 52 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog51 hydrog ? ? A G 26 O6 ? ? ? 1_555 A A 52 N6 ? ? A G 26 A A 52 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog52 hydrog ? ? A U 27 N3 ? ? ? 1_555 A A 51 N1 ? ? A U 27 A A 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? A U 27 O4 ? ? ? 1_555 A A 51 N6 ? ? A U 27 A A 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? A G 28 N1 ? ? ? 1_555 A C 50 N3 ? ? A G 28 A C 50 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? A G 28 N2 ? ? ? 1_555 A C 50 O2 ? ? A G 28 A C 50 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? A G 28 O6 ? ? ? 1_555 A C 50 N4 ? ? A G 28 A C 50 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? A U 29 N3 ? ? ? 1_555 A A 49 N1 ? ? A U 29 A A 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? A U 29 O4 ? ? ? 1_555 A A 49 N6 ? ? A U 29 A A 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? A G 30 N1 ? ? ? 1_555 A C 48 N3 ? ? A G 30 A C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? A G 30 N2 ? ? ? 1_555 A C 48 O2 ? ? A G 30 A C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? A G 30 O6 ? ? ? 1_555 A C 48 N4 ? ? A G 30 A C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? A U 31 N3 ? ? ? 1_555 A A 47 N1 ? ? A U 31 A A 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? A U 31 O4 ? ? ? 1_555 A A 47 N6 ? ? A U 31 A A 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? A G 32 N1 ? ? ? 1_555 A C 46 N3 ? ? A G 32 A C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? A G 32 N2 ? ? ? 1_555 A C 46 O2 ? ? A G 32 A C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? A G 32 O6 ? ? ? 1_555 A C 46 N4 ? ? A G 32 A C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? A A 33 N1 ? ? ? 1_555 A U 45 N3 ? ? A A 33 A U 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? A A 33 N6 ? ? ? 1_555 A U 45 O4 ? ? A A 33 A U 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? A A 34 N1 ? ? ? 1_555 A G 44 N1 ? ? A A 34 A G 44 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog70 hydrog ? ? A A 34 N6 ? ? ? 1_555 A G 44 O6 ? ? A A 34 A G 44 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog71 hydrog ? ? A U 35 N3 ? ? ? 1_555 A U 42 O4 ? ? A U 35 A U 42 1_555 ? ? ? ? ? ? 'U-U MISPAIR' ? ? ? hydrog72 hydrog ? ? A G 37 N1 ? ? ? 1_555 A C 83 O2 ? ? A G 37 A C 83 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog73 hydrog ? ? A G 38 N1 ? ? ? 1_555 A C 82 N3 ? ? A G 38 A C 82 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog74 hydrog ? ? A G 38 N2 ? ? ? 1_555 A C 82 O2 ? ? A G 38 A C 82 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog75 hydrog ? ? A G 38 O6 ? ? ? 1_555 A C 82 N4 ? ? A G 38 A C 82 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog76 hydrog ? ? A A 39 N1 ? ? ? 1_555 A U 81 N3 ? ? A A 39 A U 81 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog77 hydrog ? ? A A 39 N6 ? ? ? 1_555 A U 81 O4 ? ? A A 39 A U 81 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog78 hydrog ? ? A U 40 N3 ? ? ? 1_555 A A 80 N1 ? ? A U 40 A A 80 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog79 hydrog ? ? A U 40 O4 ? ? ? 1_555 A A 80 N6 ? ? A U 40 A A 80 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog80 hydrog ? ? A G 41 N1 ? ? ? 1_555 A C 79 N3 ? ? A G 41 A C 79 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog81 hydrog ? ? A G 41 N2 ? ? ? 1_555 A C 79 O2 ? ? A G 41 A C 79 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog82 hydrog ? ? A G 41 O6 ? ? ? 1_555 A C 79 N4 ? ? A G 41 A C 79 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog83 hydrog ? ? A A 56 N3 ? ? ? 1_555 A G 65 N2 ? ? A A 56 A G 65 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? hydrog84 hydrog ? ? A G 57 N1 ? ? ? 1_555 A C 64 N3 ? ? A G 57 A C 64 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog85 hydrog ? ? A G 57 N2 ? ? ? 1_555 A C 64 O2 ? ? A G 57 A C 64 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog86 hydrog ? ? A G 57 O6 ? ? ? 1_555 A C 64 N4 ? ? A G 57 A C 64 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog87 hydrog ? ? A C 58 N3 ? ? ? 1_555 A G 63 N1 ? ? A C 58 A G 63 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog88 hydrog ? ? A C 58 N4 ? ? ? 1_555 A G 63 O6 ? ? A C 58 A G 63 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog89 hydrog ? ? A C 58 O2 ? ? ? 1_555 A G 63 N2 ? ? A C 58 A G 63 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog90 hydrog ? ? A G 59 N2 ? ? ? 1_555 A A 62 N7 ? ? A G 59 A A 62 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A IRI 90 ? 2 'BINDING SITE FOR RESIDUE IRI A 90' AC2 Software A IRI 91 ? 5 'BINDING SITE FOR RESIDUE IRI A 91' AC3 Software A IRI 92 ? 8 'BINDING SITE FOR RESIDUE IRI A 92' AC4 Software A IRI 93 ? 5 'BINDING SITE FOR RESIDUE IRI A 93' AC5 Software A IRI 94 ? 4 'BINDING SITE FOR RESIDUE IRI A 94' AC6 Software ? ? ? ? 7 'BINDING SITE FOR RESIDUE FOZ A 3631' # 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 G A 61 ? G A 61 . ? 1_555 ? 2 AC1 2 A A 62 ? A A 62 . ? 1_555 ? 3 AC2 5 G A 9 ? G A 9 . ? 1_555 ? 4 AC2 5 A A 72 ? A A 72 . ? 1_555 ? 5 AC2 5 HOH H . ? HOH A 101 . ? 1_555 ? 6 AC2 5 HOH H . ? HOH A 120 . ? 1_555 ? 7 AC2 5 HOH H . ? HOH A 134 . ? 1_555 ? 8 AC3 8 U A 7 ? U A 7 . ? 1_555 ? 9 AC3 8 G A 9 ? G A 9 . ? 1_555 ? 10 AC3 8 U A 77 ? U A 77 . ? 1_555 ? 11 AC3 8 G A 78 ? G A 78 . ? 1_555 ? 12 AC3 8 HOH H . ? HOH A 104 . ? 1_555 ? 13 AC3 8 HOH H . ? HOH A 120 . ? 1_555 ? 14 AC3 8 HOH H . ? HOH A 125 . ? 1_555 ? 15 AC3 8 HOH H . ? HOH A 166 . ? 1_555 ? 16 AC4 5 G A 32 ? G A 32 . ? 1_555 ? 17 AC4 5 A A 33 ? A A 33 . ? 1_555 ? 18 AC4 5 U A 42 ? U A 42 . ? 1_555 ? 19 AC4 5 HOH H . ? HOH A 123 . ? 1_555 ? 20 AC4 5 HOH H . ? HOH A 131 . ? 1_555 ? 21 AC5 4 U A 29 ? U A 29 . ? 1_555 ? 22 AC5 4 G A 30 ? G A 30 . ? 1_555 ? 23 AC5 4 U A 31 ? U A 31 . ? 1_555 ? 24 AC5 4 HOH H . ? HOH A 188 . ? 1_555 ? 25 AC6 7 U A 7 ? U A 7 . ? 1_555 ? 26 AC6 7 A A 8 ? A A 8 . ? 1_555 ? 27 AC6 7 U A 35 ? U A 35 . ? 1_555 ? 28 AC6 7 U A 42 ? U A 42 . ? 1_555 ? 29 AC6 7 G A 44 ? G A 44 . ? 1_555 ? 30 AC6 7 C A 79 ? C A 79 . ? 1_555 ? 31 AC6 7 A A 80 ? A A 80 . ? 1_555 ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 O _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 HOH _pdbx_validate_close_contact.auth_seq_id_1 161 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 173 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.03 # _diffrn_reflns.diffrn_id 1 _diffrn_reflns.pdbx_d_res_high 1.955 _diffrn_reflns.pdbx_d_res_low 62.895 _diffrn_reflns.pdbx_number_obs 22136 _diffrn_reflns.pdbx_Rmerge_I_obs ? _diffrn_reflns.pdbx_Rsym_value 0.027 _diffrn_reflns.pdbx_chi_squared ? _diffrn_reflns.av_sigmaI_over_netI 16.90 _diffrn_reflns.pdbx_redundancy 3.50 _diffrn_reflns.pdbx_percent_possible_obs 98.10 _diffrn_reflns.number 77168 _diffrn_reflns.pdbx_observed_criterion ? _diffrn_reflns.limit_h_max ? _diffrn_reflns.limit_h_min ? _diffrn_reflns.limit_k_max ? _diffrn_reflns.limit_k_min ? _diffrn_reflns.limit_l_max ? _diffrn_reflns.limit_l_min ? # loop_ _pdbx_diffrn_reflns_shell.diffrn_id _pdbx_diffrn_reflns_shell.d_res_high _pdbx_diffrn_reflns_shell.d_res_low _pdbx_diffrn_reflns_shell.number_obs _pdbx_diffrn_reflns_shell.rejects _pdbx_diffrn_reflns_shell.Rmerge_I_obs _pdbx_diffrn_reflns_shell.Rsym_value _pdbx_diffrn_reflns_shell.chi_squared _pdbx_diffrn_reflns_shell.redundancy _pdbx_diffrn_reflns_shell.percent_possible_obs 1 8.74 62.90 ? ? 0.015 0.015 ? 2.90 86.90 1 6.18 8.74 ? ? 0.014 0.014 ? 3.30 99.40 1 5.05 6.18 ? ? 0.017 0.017 ? 3.30 99.10 1 4.37 5.05 ? ? 0.020 0.020 ? 3.20 99.30 1 3.91 4.37 ? ? 0.019 0.019 ? 3.30 98.70 1 3.57 3.91 ? ? 0.019 0.019 ? 3.20 97.90 1 3.30 3.57 ? ? 0.020 0.020 ? 3.30 97.50 1 3.09 3.30 ? ? 0.021 0.021 ? 3.50 97.30 1 2.91 3.09 ? ? 0.026 0.026 ? 3.50 98.00 1 2.76 2.91 ? ? 0.033 0.033 ? 3.50 99.20 1 2.64 2.76 ? ? 0.047 0.047 ? 3.50 98.30 1 2.52 2.64 ? ? 0.058 0.058 ? 3.50 99.90 1 2.42 2.52 ? ? 0.081 0.081 ? 3.50 97.60 1 2.34 2.42 ? ? 0.101 0.101 ? 3.60 99.50 1 2.26 2.34 ? ? 0.136 0.136 ? 3.60 97.00 1 2.19 2.26 ? ? 0.171 0.171 ? 3.50 98.70 1 2.12 2.19 ? ? 0.228 0.228 ? 3.60 99.70 1 2.06 2.12 ? ? 0.269 0.269 ? 3.60 94.60 1 2.01 2.06 ? ? 0.341 0.341 ? 3.60 99.20 1 1.95 2.01 ? ? 0.456 0.456 ? 3.70 98.00 # loop_ _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] 'X-RAY DIFFRACTION' 1 ? refined 10.3440 -16.9718 15.3993 0.5477 0.3848 0.3606 0.3889 -0.0878 0.1061 0.4674 0.8952 0.1934 -0.0090 0.0911 -0.1448 0.0217 -0.0504 -0.0339 0.0466 0.1102 -0.1216 -0.0114 0.0466 -0.0159 'X-RAY DIFFRACTION' 2 ? refined 6.5979 -1.6680 28.7864 0.1661 0.2392 0.1135 0.1012 0.0083 0.0744 0.0183 0.5624 0.2209 0.0147 -0.0414 -0.2874 0.0364 -0.0355 -0.0613 0.0959 0.0436 -0.0026 0.0583 -0.0987 -0.0669 'X-RAY DIFFRACTION' 3 ? refined 10.1873 -10.5908 31.2087 0.3103 0.3430 0.2366 0.0852 0.0260 0.0531 0.3150 0.2918 0.5082 -0.0262 0.2115 -0.3101 0.0009 -0.0265 -0.1134 0.2221 0.1773 -0.0070 0.1746 -0.1278 0.1289 'X-RAY DIFFRACTION' 4 ? refined 2.3964 9.1789 7.5665 0.0521 0.3438 0.2286 0.1873 -0.0596 0.2725 0.0160 0.0237 0.0127 0.0034 0.0083 -0.0077 -0.0019 -0.0046 -0.0113 -0.0066 -0.0354 -0.0027 0.0539 0.0989 0.1005 'X-RAY DIFFRACTION' 5 ? refined 13.4808 -30.0767 18.0629 0.6521 0.3141 0.2361 0.3776 -0.0321 0.0047 0.0984 0.1119 0.1029 0.0402 0.0728 -0.0304 -0.0016 -0.1060 -0.0871 0.1236 0.0742 0.0306 -0.1480 0.1393 0.0649 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.selection_details _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection 'X-RAY DIFFRACTION' 1 1 ? ? ? ? 'CHAIN A AND RESID 1:18' ? ? ? ? ? 'X-RAY DIFFRACTION' 2 2 ? ? ? ? 'CHAIN A AND RESID 19:35' ? ? ? ? ? 'X-RAY DIFFRACTION' 3 3 ? ? ? ? 'CHAIN A AND RESID 36:55' ? ? ? ? ? 'X-RAY DIFFRACTION' 4 4 ? ? ? ? 'CHAIN A AND RESID 56:71' ? ? ? ? ? 'X-RAY DIFFRACTION' 5 5 ? ? ? ? 'CHAIN A AND RESID 72:89' ? ? ? ? ? # loop_ _pdbx_phasing_MAD_shell.d_res_high _pdbx_phasing_MAD_shell.d_res_low _pdbx_phasing_MAD_shell.reflns_acentric _pdbx_phasing_MAD_shell.fom_acentric _pdbx_phasing_MAD_shell.reflns_centric _pdbx_phasing_MAD_shell.fom_centric _pdbx_phasing_MAD_shell.reflns _pdbx_phasing_MAD_shell.fom 9.09 12.77 87 0.655 67 0.126 159 0.420 7.44 9.09 135 0.655 74 0.167 212 0.477 6.45 7.44 164 0.624 78 0.114 245 0.456 5.77 6.45 183 0.652 70 0.200 256 0.522 5.27 5.77 208 0.619 80 0.131 294 0.475 4.88 5.27 221 0.561 75 0.152 312 0.440 4.57 4.88 225 0.577 71 0.120 320 0.440 4.31 4.57 268 0.547 77 0.128 364 0.435 4.09 4.31 274 0.576 79 0.117 369 0.457 3.90 4.09 273 0.570 69 0.117 369 0.453 3.73 3.90 285 0.555 81 0.108 414 0.415 3.58 3.73 265 0.578 74 0.114 407 0.416 3.45 3.58 300 0.486 68 0.092 416 0.379 3.34 3.45 324 0.508 84 0.073 455 0.384 3.23 3.34 346 0.501 73 0.091 458 0.400 3.14 3.23 373 0.510 68 0.108 457 0.436 3.05 3.14 391 0.548 75 0.110 477 0.468 2.97 3.05 416 0.503 83 0.098 515 0.425 2.89 2.97 433 0.497 78 0.120 534 0.426 2.82 2.89 410 0.512 77 0.130 507 0.439 2.76 2.82 428 0.497 66 0.127 511 0.438 2.70 2.76 459 0.484 81 0.122 565 0.419 2.64 2.70 456 0.463 71 0.197 554 0.414 2.59 2.64 475 0.483 82 0.144 580 0.423 2.54 2.59 479 0.451 70 0.123 566 0.402 2.49 2.54 485 0.462 79 0.162 583 0.414 2.44 2.49 503 0.416 70 0.122 595 0.375 2.40 2.44 552 0.393 78 0.156 643 0.361 2.36 2.40 517 0.407 67 0.144 607 0.372 2.32 2.36 525 0.381 80 0.171 620 0.350 2.29 2.32 540 0.346 68 0.199 616 0.328 2.25 2.29 545 0.324 78 0.148 652 0.300 2.22 2.25 557 0.305 70 0.187 653 0.291 2.19 2.22 580 0.322 78 0.159 673 0.302 2.16 2.19 592 0.332 73 0.195 675 0.316 2.13 2.16 590 0.300 81 0.220 681 0.288 2.10 2.13 579 0.307 64 0.174 654 0.293 2.07 2.10 610 0.287 78 0.169 710 0.272 2.05 2.07 604 0.278 74 0.163 706 0.266 2.02 2.05 639 0.302 77 0.190 727 0.289 2.00 2.02 623 0.276 75 0.149 709 0.263 1.97 2.00 648 0.295 74 0.178 729 0.283 1.95 1.97 639 0.274 75 0.135 720 0.260 # _pdbx_phasing_dm.entry_id 3SD3 _pdbx_phasing_dm.fom_acentric 0.610 _pdbx_phasing_dm.fom_centric 0.550 _pdbx_phasing_dm.fom 0.600 _pdbx_phasing_dm.reflns_acentric 19090 _pdbx_phasing_dm.reflns_centric 3252 _pdbx_phasing_dm.reflns 22342 # loop_ _pdbx_phasing_dm_shell.d_res_high _pdbx_phasing_dm_shell.d_res_low _pdbx_phasing_dm_shell.delta_phi_final _pdbx_phasing_dm_shell.delta_phi_initial _pdbx_phasing_dm_shell.fom_acentric _pdbx_phasing_dm_shell.fom_centric _pdbx_phasing_dm_shell.fom _pdbx_phasing_dm_shell.reflns_acentric _pdbx_phasing_dm_shell.reflns_centric _pdbx_phasing_dm_shell.reflns 3.500 5.600 ? ? 0.940 0.870 0.920 2440 633 3073 2.800 3.500 ? ? 0.850 0.710 0.830 3196 592 3788 2.400 2.800 ? ? 0.660 0.420 0.630 3268 492 3760 2.100 2.400 ? ? 0.440 0.290 0.420 5868 751 6619 2.000 2.100 ? ? 0.340 0.200 0.320 3635 426 4061 # _phasing.method SAD # _phasing_MAD.entry_id 3SD3 _phasing_MAD.pdbx_d_res_high 1.95 _phasing_MAD.pdbx_d_res_low 79.04 _phasing_MAD.pdbx_reflns_acentric 18232 _phasing_MAD.pdbx_fom_acentric 0.414 _phasing_MAD.pdbx_reflns_centric 3252 _phasing_MAD.pdbx_fom_centric 0.142 _phasing_MAD.pdbx_reflns 22339 _phasing_MAD.pdbx_fom 0.365 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 FFO N1 N N N 73 FFO C2 C N N 74 FFO NA2 N N N 75 FFO N3 N N N 76 FFO C4 C N N 77 FFO O4 O N N 78 FFO C4A C N N 79 FFO N5 N N N 80 FFO C6 C N S 81 FFO C7 C N N 82 FFO N8 N N N 83 FFO C8A C N N 84 FFO C9 C N N 85 FFO N10 N N N 86 FFO C11 C Y N 87 FFO C12 C Y N 88 FFO C13 C Y N 89 FFO C14 C Y N 90 FFO C15 C Y N 91 FFO C16 C Y N 92 FFO C C N N 93 FFO O O N N 94 FFO N N N N 95 FFO CA C N S 96 FFO CB C N N 97 FFO CG C N N 98 FFO CD C N N 99 FFO OE1 O N N 100 FFO OE2 O N N 101 FFO CT C N N 102 FFO O1 O N N 103 FFO O2 O N N 104 FFO C5A C N N 105 FFO O5B O N N 106 FFO HN21 H N N 107 FFO HN22 H N N 108 FFO H6 H N N 109 FFO H7 H N N 110 FFO H91 H N N 111 FFO H92 H N N 112 FFO HN0 H N N 113 FFO H12 H N N 114 FFO H13 H N N 115 FFO H15 H N N 116 FFO H16 H N N 117 FFO HN H N N 118 FFO HA H N N 119 FFO HB1 H N N 120 FFO HB2 H N N 121 FFO HG1 H N N 122 FFO HG2 H N N 123 FFO HOE2 H N N 124 FFO HO2 H N N 125 FFO H5A H N N 126 FFO H22 H N N 127 FFO H23 H N N 128 FFO H24 H N N 129 G OP3 O N N 130 G P P N N 131 G OP1 O N N 132 G OP2 O N N 133 G "O5'" O N N 134 G "C5'" C N N 135 G "C4'" C N R 136 G "O4'" O N N 137 G "C3'" C N S 138 G "O3'" O N N 139 G "C2'" C N R 140 G "O2'" O N N 141 G "C1'" C N R 142 G N9 N Y N 143 G C8 C Y N 144 G N7 N Y N 145 G C5 C Y N 146 G C6 C N N 147 G O6 O N N 148 G N1 N N N 149 G C2 C N N 150 G N2 N N N 151 G N3 N N N 152 G C4 C Y N 153 G HOP3 H N N 154 G HOP2 H N N 155 G "H5'" H N N 156 G "H5''" H N N 157 G "H4'" H N N 158 G "H3'" H N N 159 G "HO3'" H N N 160 G "H2'" H N N 161 G "HO2'" H N N 162 G "H1'" H N N 163 G H8 H N N 164 G H1 H N N 165 G H21 H N N 166 G H22 H N N 167 HOH O O N N 168 HOH H1 H N N 169 HOH H2 H N N 170 IRI IR IR N N 171 IRI N1 N N N 172 IRI N2 N N N 173 IRI N3 N N N 174 IRI N4 N N N 175 IRI N5 N N N 176 IRI N6 N N N 177 IRI HN11 H N N 178 IRI HN12 H N N 179 IRI HN13 H N N 180 IRI HN21 H N N 181 IRI HN22 H N N 182 IRI HN23 H N N 183 IRI HN31 H N N 184 IRI HN32 H N N 185 IRI HN33 H N N 186 IRI HN41 H N N 187 IRI HN42 H N N 188 IRI HN43 H N N 189 IRI HN51 H N N 190 IRI HN52 H N N 191 IRI HN53 H N N 192 IRI HN61 H N N 193 IRI HN62 H N N 194 IRI HN63 H N N 195 U OP3 O N N 196 U P P N N 197 U OP1 O N N 198 U OP2 O N N 199 U "O5'" O N N 200 U "C5'" C N N 201 U "C4'" C N R 202 U "O4'" O N N 203 U "C3'" C N S 204 U "O3'" O N N 205 U "C2'" C N R 206 U "O2'" O N N 207 U "C1'" C N R 208 U N1 N N N 209 U C2 C N N 210 U O2 O N N 211 U N3 N N N 212 U C4 C N N 213 U O4 O N N 214 U C5 C N N 215 U C6 C N N 216 U HOP3 H N N 217 U HOP2 H N N 218 U "H5'" H N N 219 U "H5''" H N N 220 U "H4'" H N N 221 U "H3'" H N N 222 U "HO3'" H N N 223 U "H2'" H N N 224 U "HO2'" H N N 225 U "H1'" H N N 226 U H3 H N N 227 U H5 H N N 228 U H6 H N N 229 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 FFO N1 C2 doub N N 76 FFO N1 C8A sing N N 77 FFO C2 NA2 sing N N 78 FFO C2 N3 sing N N 79 FFO NA2 HN21 sing N N 80 FFO NA2 HN22 sing N N 81 FFO N3 C4 sing N N 82 FFO N3 H22 sing N N 83 FFO C4 O4 doub N N 84 FFO C4 C4A sing N N 85 FFO C4A N5 sing N N 86 FFO C4A C8A doub N N 87 FFO N5 C6 sing N N 88 FFO N5 C5A sing N N 89 FFO C6 C7 sing N N 90 FFO C6 C9 sing N N 91 FFO C6 H6 sing N N 92 FFO C7 N8 sing N N 93 FFO C7 H7 sing N N 94 FFO C7 H23 sing N N 95 FFO N8 C8A sing N N 96 FFO N8 H24 sing N N 97 FFO C9 N10 sing N N 98 FFO C9 H91 sing N N 99 FFO C9 H92 sing N N 100 FFO N10 C14 sing N N 101 FFO N10 HN0 sing N N 102 FFO C11 C12 doub Y N 103 FFO C11 C16 sing Y N 104 FFO C11 C sing N N 105 FFO C12 C13 sing Y N 106 FFO C12 H12 sing N N 107 FFO C13 C14 doub Y N 108 FFO C13 H13 sing N N 109 FFO C14 C15 sing Y N 110 FFO C15 C16 doub Y N 111 FFO C15 H15 sing N N 112 FFO C16 H16 sing N N 113 FFO C O doub N N 114 FFO C N sing N N 115 FFO N CA sing N N 116 FFO N HN sing N N 117 FFO CA CB sing N N 118 FFO CA CT sing N N 119 FFO CA HA sing N N 120 FFO CB CG sing N N 121 FFO CB HB1 sing N N 122 FFO CB HB2 sing N N 123 FFO CG CD sing N N 124 FFO CG HG1 sing N N 125 FFO CG HG2 sing N N 126 FFO CD OE1 doub N N 127 FFO CD OE2 sing N N 128 FFO OE2 HOE2 sing N N 129 FFO CT O1 doub N N 130 FFO CT O2 sing N N 131 FFO O2 HO2 sing N N 132 FFO C5A O5B doub N N 133 FFO C5A H5A sing N N 134 G OP3 P sing N N 135 G OP3 HOP3 sing N N 136 G P OP1 doub N N 137 G P OP2 sing N N 138 G P "O5'" sing N N 139 G OP2 HOP2 sing N N 140 G "O5'" "C5'" sing N N 141 G "C5'" "C4'" sing N N 142 G "C5'" "H5'" sing N N 143 G "C5'" "H5''" sing N N 144 G "C4'" "O4'" sing N N 145 G "C4'" "C3'" sing N N 146 G "C4'" "H4'" sing N N 147 G "O4'" "C1'" sing N N 148 G "C3'" "O3'" sing N N 149 G "C3'" "C2'" sing N N 150 G "C3'" "H3'" sing N N 151 G "O3'" "HO3'" sing N N 152 G "C2'" "O2'" sing N N 153 G "C2'" "C1'" sing N N 154 G "C2'" "H2'" sing N N 155 G "O2'" "HO2'" sing N N 156 G "C1'" N9 sing N N 157 G "C1'" "H1'" sing N N 158 G N9 C8 sing Y N 159 G N9 C4 sing Y N 160 G C8 N7 doub Y N 161 G C8 H8 sing N N 162 G N7 C5 sing Y N 163 G C5 C6 sing N N 164 G C5 C4 doub Y N 165 G C6 O6 doub N N 166 G C6 N1 sing N N 167 G N1 C2 sing N N 168 G N1 H1 sing N N 169 G C2 N2 sing N N 170 G C2 N3 doub N N 171 G N2 H21 sing N N 172 G N2 H22 sing N N 173 G N3 C4 sing N N 174 HOH O H1 sing N N 175 HOH O H2 sing N N 176 IRI IR N1 sing N N 177 IRI IR N2 sing N N 178 IRI IR N3 sing N N 179 IRI IR N4 sing N N 180 IRI IR N5 sing N N 181 IRI IR N6 sing N N 182 IRI N1 HN11 sing N N 183 IRI N1 HN12 sing N N 184 IRI N1 HN13 sing N N 185 IRI N2 HN21 sing N N 186 IRI N2 HN22 sing N N 187 IRI N2 HN23 sing N N 188 IRI N3 HN31 sing N N 189 IRI N3 HN32 sing N N 190 IRI N3 HN33 sing N N 191 IRI N4 HN41 sing N N 192 IRI N4 HN42 sing N N 193 IRI N4 HN43 sing N N 194 IRI N5 HN51 sing N N 195 IRI N5 HN52 sing N N 196 IRI N5 HN53 sing N N 197 IRI N6 HN61 sing N N 198 IRI N6 HN62 sing N N 199 IRI N6 HN63 sing N N 200 U OP3 P sing N N 201 U OP3 HOP3 sing N N 202 U P OP1 doub N N 203 U P OP2 sing N N 204 U P "O5'" sing N N 205 U OP2 HOP2 sing N N 206 U "O5'" "C5'" sing N N 207 U "C5'" "C4'" sing N N 208 U "C5'" "H5'" sing N N 209 U "C5'" "H5''" sing N N 210 U "C4'" "O4'" sing N N 211 U "C4'" "C3'" sing N N 212 U "C4'" "H4'" sing N N 213 U "O4'" "C1'" sing N N 214 U "C3'" "O3'" sing N N 215 U "C3'" "C2'" sing N N 216 U "C3'" "H3'" sing N N 217 U "O3'" "HO3'" sing N N 218 U "C2'" "O2'" sing N N 219 U "C2'" "C1'" sing N N 220 U "C2'" "H2'" sing N N 221 U "O2'" "HO2'" sing N N 222 U "C1'" N1 sing N N 223 U "C1'" "H1'" sing N N 224 U N1 C2 sing N N 225 U N1 C6 sing N N 226 U C2 O2 doub N N 227 U C2 N3 sing N N 228 U N3 C4 sing N N 229 U N3 H3 sing N N 230 U C4 O4 doub N N 231 U C4 C5 sing N N 232 U C5 C6 doub N N 233 U C5 H5 sing N N 234 U C6 H6 sing N N 235 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3SD3 'double helix' 3SD3 'a-form double helix' 3SD3 'bulge loop' 3SD3 'mismatched base pair' 3SD3 'triple 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 G 1 1_555 A C 88 1_555 -0.935 -0.117 0.029 -0.711 -7.218 2.564 1 A_G1:C88_A A 1 ? A 88 ? 19 1 1 A G 2 1_555 A C 87 1_555 -0.678 -0.090 -0.168 -10.993 -15.596 3.851 2 A_G2:C87_A A 2 ? A 87 ? 19 1 1 A A 3 1_555 A U 86 1_555 0.138 -0.061 0.235 -6.333 -13.153 3.294 3 A_A3:U86_A A 3 ? A 86 ? 20 1 1 A G 4 1_555 A C 85 1_555 -0.007 0.134 -0.087 -14.891 -22.476 -0.580 4 A_G4:C85_A A 4 ? A 85 ? 19 1 1 A A 5 1_555 A G 84 1_555 -0.004 1.606 -0.395 -18.088 -12.496 -15.458 5 A_A5:G84_A A 5 ? A 84 ? 8 1 1 A G 37 1_555 A C 83 1_555 -0.926 0.123 -0.418 -9.431 -3.528 7.607 6 A_G37:C83_A A 37 ? A 83 ? ? 1 1 A G 38 1_555 A C 82 1_555 -0.681 -0.153 -0.380 -12.697 -8.098 3.282 7 A_G38:C82_A A 38 ? A 82 ? 19 1 1 A A 39 1_555 A U 81 1_555 0.214 -0.071 0.110 -1.095 -0.456 1.286 8 A_A39:U81_A A 39 ? A 81 ? 20 1 1 A U 40 1_555 A A 80 1_555 0.528 -0.037 -0.043 -13.485 -20.162 3.362 9 A_U40:A80_A A 40 ? A 80 ? 20 1 1 A G 41 1_555 A C 79 1_555 -0.389 0.227 -0.580 -39.744 -8.156 5.428 10 A_G41:C79_A A 41 ? A 79 ? 19 1 1 A U 42 1_555 A U 35 1_555 -3.752 -0.614 -1.184 15.625 -15.425 -94.027 11 A_U42:U35_A A 42 ? A 35 ? ? 4 1 A G 44 1_555 A A 34 1_555 -0.115 1.518 -0.299 4.717 -15.865 -18.503 12 A_G44:A34_A A 44 ? A 34 ? 8 1 1 A U 45 1_555 A A 33 1_555 0.012 -0.022 0.246 3.439 -15.489 -0.915 13 A_U45:A33_A A 45 ? A 33 ? 20 1 1 A C 46 1_555 A G 32 1_555 0.283 -0.104 0.083 4.722 -13.754 -0.838 14 A_C46:G32_A A 46 ? A 32 ? 19 1 1 A A 47 1_555 A U 31 1_555 0.151 -0.020 0.137 5.820 -16.630 1.404 15 A_A47:U31_A A 47 ? A 31 ? 20 1 1 A C 48 1_555 A G 30 1_555 0.307 -0.025 -0.241 15.067 -20.472 4.903 16 A_C48:G30_A A 48 ? A 30 ? 19 1 1 A A 49 1_555 A U 29 1_555 0.076 -0.118 -0.197 0.925 -14.042 -0.331 17 A_A49:U29_A A 49 ? A 29 ? 20 1 1 A C 50 1_555 A G 28 1_555 0.412 -0.242 -0.456 10.245 -20.742 4.829 18 A_C50:G28_A A 50 ? A 28 ? 19 1 1 A A 51 1_555 A U 27 1_555 -0.220 0.120 -0.154 -6.641 -19.768 6.419 19 A_A51:U27_A A 51 ? A 27 ? 20 1 1 A A 52 1_555 A G 26 1_555 -0.564 1.265 -0.886 -17.730 -22.243 -9.608 20 A_A52:G26_A A 52 ? A 26 ? 8 1 1 A G 54 1_555 A G 24 1_555 7.289 -2.505 0.706 -15.957 -9.136 -18.128 21 A_G54:G24_A A 54 ? A 24 ? ? ? 1 A A 55 1_555 A A 23 1_555 4.186 1.435 -0.525 20.979 -11.591 -110.369 22 A_A55:A23_A A 55 ? A 23 ? 5 4 1 A G 67 1_555 A C 18 1_555 -0.158 -0.186 -0.141 -5.240 -12.435 -2.599 23 A_G67:C18_A A 67 ? A 18 ? 19 1 1 A G 19 1_555 A C 66 1_555 -0.255 -0.102 0.044 -10.474 -27.974 2.621 24 A_G19:C66_A A 19 ? A 66 ? 19 1 1 A U 20 1_555 A G 65 1_555 2.142 -0.424 0.122 -7.459 -14.081 -10.093 25 A_U20:G65_A A 20 ? A 65 ? 28 1 1 A G 57 1_555 A C 64 1_555 -0.080 0.012 -0.170 -10.777 -6.599 -0.160 26 A_G57:C64_A A 57 ? A 64 ? 19 1 1 A C 58 1_555 A G 63 1_555 0.363 -0.248 -0.119 5.594 -4.070 -1.550 27 A_C58:G63_A A 58 ? A 63 ? 19 1 1 A G 59 1_555 A A 62 1_555 8.213 -5.218 0.313 13.289 -4.774 -51.135 28 A_G59:A62_A A 59 ? A 62 ? ? ? 1 A A 8 1_555 A G 78 1_555 -7.402 -5.370 0.148 -14.318 3.304 -23.340 29 A_A8:G78_A A 8 ? A 78 ? ? ? 1 A G 9 1_555 A U 77 1_555 -2.098 -0.442 -0.259 1.020 -2.488 2.968 30 A_G9:U77_A A 9 ? A 77 ? 28 1 1 A A 10 1_555 A U 76 1_555 -0.447 -0.106 -0.142 -4.508 -8.365 1.972 31 A_A10:U76_A A 10 ? A 76 ? 20 1 1 A U 11 1_555 A A 75 1_555 0.081 -0.168 -0.242 -1.726 -14.019 3.465 32 A_U11:A75_A A 11 ? A 75 ? 20 1 1 A G 12 1_555 A C 74 1_555 -0.155 -0.050 0.039 -7.801 -12.467 2.005 33 A_G12:C74_A A 12 ? A 74 ? 19 1 1 A A 13 1_555 A U 73 1_555 -0.003 -0.030 -0.042 -4.078 -16.323 -0.284 34 A_A13:U73_A A 13 ? A 73 ? 20 1 1 A U 14 1_555 A A 72 1_555 0.243 0.013 0.110 -7.389 -20.440 -1.454 35 A_U14:A72_A A 14 ? A 72 ? 20 1 1 A U 15 1_555 A A 71 1_555 0.162 0.025 0.073 -8.144 -16.002 -0.218 36 A_U15:A71_A A 15 ? A 71 ? 20 1 1 A C 16 1_555 A G 70 1_555 0.456 -0.017 0.188 3.430 -7.756 -2.881 37 A_C16:G70_A A 16 ? A 70 ? 19 1 1 A G 17 1_555 A U 69 1_555 -2.255 -0.510 -0.147 2.624 -9.283 0.973 38 A_G17:U69_A A 17 ? A 69 ? 28 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 G 1 1_555 A C 88 1_555 A G 2 1_555 A C 87 1_555 -0.260 -1.814 3.439 0.008 7.067 34.852 -4.002 0.426 3.025 11.651 -0.012 35.540 1 AA_G1G2:C87C88_AA A 1 ? A 88 ? A 2 ? A 87 ? 1 A G 2 1_555 A C 87 1_555 A A 3 1_555 A U 86 1_555 0.137 -1.339 3.155 -2.007 1.806 35.548 -2.437 -0.501 3.073 2.952 3.281 35.647 2 AA_G2A3:U86C87_AA A 2 ? A 87 ? A 3 ? A 86 ? 1 A A 3 1_555 A U 86 1_555 A G 4 1_555 A C 85 1_555 0.290 -1.766 3.347 6.428 9.035 33.308 -4.241 0.450 2.795 15.246 -10.847 35.056 3 AA_A3G4:C85U86_AA A 3 ? A 86 ? A 4 ? A 85 ? 1 A G 4 1_555 A C 85 1_555 A A 5 1_555 A G 84 1_555 -0.974 -1.565 3.263 6.072 -0.223 36.143 -2.460 2.362 3.074 -0.356 -9.702 36.633 4 AA_G4A5:G84C85_AA A 4 ? A 85 ? A 5 ? A 84 ? 1 A A 5 1_555 A G 84 1_555 A G 37 1_555 A C 83 1_555 -1.601 -3.341 3.542 13.318 6.020 45.375 -4.608 3.012 2.564 7.575 -16.759 47.552 5 AA_A5G37:C83G84_AA A 5 ? A 84 ? A 37 ? A 83 ? 1 A G 37 1_555 A C 83 1_555 A G 38 1_555 A C 82 1_555 -0.760 -1.790 3.256 -2.108 8.195 35.516 -3.929 0.938 2.826 13.204 3.396 36.479 6 AA_G37G38:C82C83_AA A 37 ? A 83 ? A 38 ? A 82 ? 1 A G 38 1_555 A C 82 1_555 A A 39 1_555 A U 81 1_555 -0.639 -1.600 2.892 -5.348 8.255 30.703 -4.120 0.351 2.464 15.111 9.790 32.204 7 AA_G38A39:U81C82_AA A 38 ? A 82 ? A 39 ? A 81 ? 1 A A 39 1_555 A U 81 1_555 A U 40 1_555 A A 80 1_555 0.951 -1.651 3.562 6.654 16.558 33.457 -4.701 -0.604 2.625 26.546 -10.668 37.798 8 AA_A39U40:A80U81_AA A 39 ? A 81 ? A 40 ? A 80 ? 1 A U 40 1_555 A A 80 1_555 A G 41 1_555 A C 79 1_555 1.868 -0.847 3.640 16.778 14.050 37.593 -2.788 -0.573 3.612 19.879 -23.739 43.299 9 AA_U40G41:C79A80_AA A 40 ? A 80 ? A 41 ? A 79 ? 1 A G 41 1_555 A C 79 1_555 A U 42 1_555 A U 35 1_555 -2.972 1.794 2.690 -13.565 11.723 46.289 1.263 2.532 3.700 14.298 16.545 49.461 10 AA_G41U42:U35C79_AA A 41 ? A 79 ? A 42 ? A 35 ? 1 A U 42 1_555 A U 35 1_555 A G 44 1_555 A A 34 1_555 1.915 -2.362 3.388 -8.340 -0.559 58.979 -2.351 -2.350 3.136 -0.565 8.425 59.516 11 AA_U42G44:A34U35_AA A 42 ? A 35 ? A 44 ? A 34 ? 1 A G 44 1_555 A A 34 1_555 A U 45 1_555 A A 33 1_555 0.835 -1.625 3.204 -5.747 1.592 34.624 -2.920 -2.199 2.957 2.651 9.567 35.119 12 AA_G44U45:A33A34_AA A 44 ? A 34 ? A 45 ? A 33 ? 1 A U 45 1_555 A A 33 1_555 A C 46 1_555 A G 32 1_555 0.339 -1.608 3.256 0.010 -1.174 35.724 -2.450 -0.551 3.305 -1.912 -0.017 35.743 13 AA_U45C46:G32A33_AA A 45 ? A 33 ? A 46 ? A 32 ? 1 A C 46 1_555 A G 32 1_555 A A 47 1_555 A U 31 1_555 -0.666 -1.562 3.147 -1.309 6.934 30.720 -4.060 1.002 2.763 12.875 2.430 31.501 14 AA_C46A47:U31G32_AA A 46 ? A 32 ? A 47 ? A 31 ? 1 A A 47 1_555 A U 31 1_555 A C 48 1_555 A G 30 1_555 0.440 -1.161 3.107 4.174 3.060 32.666 -2.529 -0.108 3.020 5.398 -7.363 33.062 15 AA_A47C48:G30U31_AA A 47 ? A 31 ? A 48 ? A 30 ? 1 A C 48 1_555 A G 30 1_555 A A 49 1_555 A U 29 1_555 -0.655 -1.328 3.540 -1.012 15.848 31.283 -4.589 0.938 2.607 27.298 1.742 34.993 16 AA_C48A49:U29G30_AA A 48 ? A 30 ? A 49 ? A 29 ? 1 A A 49 1_555 A U 29 1_555 A C 50 1_555 A G 28 1_555 0.475 -1.021 3.074 4.042 7.537 32.385 -2.911 -0.216 2.809 13.227 -7.093 33.466 17 AA_A49C50:G28U29_AA A 49 ? A 29 ? A 50 ? A 28 ? 1 A C 50 1_555 A G 28 1_555 A A 51 1_555 A U 27 1_555 0.466 -1.534 3.606 0.441 16.422 30.003 -5.201 -0.725 2.467 29.136 -0.782 34.115 18 AA_C50A51:U27G28_AA A 50 ? A 28 ? A 51 ? A 27 ? 1 A A 51 1_555 A U 27 1_555 A A 52 1_555 A G 26 1_555 -0.641 -2.002 3.585 6.055 10.369 29.204 -5.573 2.283 2.562 19.554 -11.419 31.527 19 AA_A51A52:G26U27_AA A 51 ? A 27 ? A 52 ? A 26 ? 1 A A 52 1_555 A G 26 1_555 A G 54 1_555 A G 24 1_555 0.250 -2.415 6.794 7.058 15.364 91.636 -2.256 0.098 6.430 10.640 -4.888 92.840 20 AA_A52G54:G24G26_AA A 52 ? A 26 ? A 54 ? A 24 ? 1 A G 54 1_555 A G 24 1_555 A A 55 1_555 A A 23 1_555 -4.650 -0.241 2.661 10.176 -2.885 16.705 -0.114 15.633 -0.090 -8.865 -31.273 19.751 21 AA_G54A55:A23G24_AA A 54 ? A 24 ? A 55 ? A 23 ? 1 A A 55 1_555 A A 23 1_555 A G 67 1_555 A C 18 1_555 0.797 1.345 6.957 -38.817 -130.448 35.508 3.568 -1.274 0.836 -79.547 23.671 138.292 22 AA_A55G67:C18A23_AA A 55 ? A 23 ? A 67 ? A 18 ? 1 A G 19 1_555 A C 66 1_555 A U 20 1_555 A G 65 1_555 -0.352 -1.023 3.071 1.227 3.457 46.185 -1.573 0.544 2.981 4.398 -1.561 46.322 23 AA_G19U20:G65C66_AA A 19 ? A 66 ? A 20 ? A 65 ? 1 A U 20 1_555 A G 65 1_555 A G 57 1_555 A C 64 1_555 -1.960 -2.307 3.244 4.192 5.300 30.984 -5.098 4.280 2.544 9.775 -7.732 31.694 24 AA_U20G57:C64G65_AA A 20 ? A 65 ? A 57 ? A 64 ? 1 A G 57 1_555 A C 64 1_555 A C 58 1_555 A G 63 1_555 0.954 -2.331 2.965 1.867 -0.703 27.573 -4.720 -1.578 3.079 -1.473 -3.910 27.643 25 AA_G57C58:G63C64_AA A 57 ? A 64 ? A 58 ? A 63 ? 1 A C 58 1_555 A G 63 1_555 A G 59 1_555 A A 62 1_555 -4.687 -1.916 3.171 -1.580 2.913 55.306 -2.227 4.951 3.197 3.135 1.701 55.397 26 AA_C58G59:A62G63_AA A 58 ? A 63 ? A 59 ? A 62 ? 1 A A 8 1_555 A G 78 1_555 A G 9 1_555 A U 77 1_555 2.580 -1.362 2.950 0.291 5.823 48.582 -2.034 -3.097 2.794 7.048 -0.352 48.910 27 AA_A8G9:U77G78_AA A 8 ? A 78 ? A 9 ? A 77 ? 1 A G 9 1_555 A U 77 1_555 A A 10 1_555 A U 76 1_555 -0.656 -1.927 3.412 -3.647 5.434 37.423 -3.664 0.537 3.159 8.391 5.631 37.970 28 AA_G9A10:U76U77_AA A 9 ? A 77 ? A 10 ? A 76 ? 1 A A 10 1_555 A U 76 1_555 A U 11 1_555 A A 75 1_555 -0.159 -1.355 3.175 2.907 7.602 34.315 -3.284 0.662 2.798 12.664 -4.843 35.239 29 AA_A10U11:A75U76_AA A 10 ? A 76 ? A 11 ? A 75 ? 1 A U 11 1_555 A A 75 1_555 A G 12 1_555 A C 74 1_555 0.195 -1.246 3.275 -1.027 12.892 30.852 -4.154 -0.497 2.557 23.007 1.832 33.392 30 AA_U11G12:C74A75_AA A 11 ? A 75 ? A 12 ? A 74 ? 1 A G 12 1_555 A C 74 1_555 A A 13 1_555 A U 73 1_555 -0.176 -1.060 3.109 0.972 6.497 33.310 -2.775 0.445 2.851 11.198 -1.676 33.933 31 AA_G12A13:U73C74_AA A 12 ? A 74 ? A 13 ? A 73 ? 1 A A 13 1_555 A U 73 1_555 A U 14 1_555 A A 72 1_555 -0.140 -1.232 3.277 -0.338 13.034 32.342 -3.914 0.186 2.604 22.302 0.578 34.806 32 AA_A13U14:A72U73_AA A 13 ? A 73 ? A 14 ? A 72 ? 1 A U 14 1_555 A A 72 1_555 A U 15 1_555 A A 71 1_555 0.220 -1.041 3.213 -0.083 8.691 33.650 -3.000 -0.380 2.863 14.709 0.140 34.723 33 AA_U14U15:A71A72_AA A 14 ? A 72 ? A 15 ? A 71 ? 1 A U 15 1_555 A A 71 1_555 A C 16 1_555 A G 70 1_555 -0.178 -1.058 3.038 -2.042 1.444 31.650 -2.179 -0.021 2.993 2.643 3.736 31.746 34 AA_U15C16:G70A71_AA A 15 ? A 71 ? A 16 ? A 70 ? 1 A C 16 1_555 A G 70 1_555 A G 17 1_555 A U 69 1_555 1.677 -2.464 3.251 2.698 5.064 20.471 -8.638 -3.505 2.763 13.900 -7.407 21.252 35 AA_C16G17:U69G70_AA A 16 ? A 70 ? A 17 ? A 69 ? # _atom_sites.entry_id 3SD3 _atom_sites.fract_transf_matrix[1][1] 0.036337 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.014579 _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] 0.006326 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C IR N O P # loop_