Equivalence class DNA_3.0_93929.1 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 1EGW|1|H+ 1EGW|1|G (rep) | DNA (5'-D(*AP*AP*AP*GP*CP*TP*AP*TP*TP*AP*TP*TP*AP*GP*CP*TP*T)-3'), DNA (5'-D(*TP*AP*AP*GP*CP*TP*AP*AP*TP*AP*AP*TP*AP*GP*CP*TP*T)-3') | CRYSTAL STRUCTURE OF MEF2A CORE BOUND TO DNA | X-ray diffraction | 1.5 | 34 | 2000-03-20 | ||||
| 2 | 3DPG|1|C+ 3DPG|1|D | DNA (5'-D(*DAP*DAP*DGP*DTP*DCP*DGP*DAP*DCP*DCP*DGP*DGP*DTP*DGP*DGP*DAP*DCP*DT)-3') | SgrAI with noncognate DNA bound | X-ray diffraction | 1.91 | 33 | 2008-08-19 | ||||
| 3 | 1R71|1|G+ 1R71|1|H | 5'-D(*AP*(BRU)P*TP*TP*TP*AP*GP*CP*GP*GP*CP*TP*AP*AP*AP*AP*G)-3', 5'-D(*CP*(BRU)P*TP*TP*TP*AP*GP*CP*CP*GP*CP*TP*AP*AP*AP*AP*(BRU))-3' | Crystal Structure of the DNA binding domain of KorB in complex with the operator DNA | X-ray diffraction | 2.2 | 34 | 2004-06-01 | ||||
| 4 | 3K59|1|T+ 3K59|1|P | DNA (5'-D(*GP*TP*GP*CP*CP*TP*AP*GP*CP*GP*TP*AP*(DOC))-3'), DNA (5'-D(*TP*AP*GP*GP*TP*AP*CP*GP*CP*TP*AP*GP*GP*CP*AP*CP*A)-3') | Crystal structure of E.coli Pol II-normal DNA-dCTP ternary complex | X-ray diffraction | 1.92 | 30 | 2010-02-09 | ||||
| 5 | 3K58|1|T+ 3K58|1|P | DNA (5'-D(*GP*TP*GP*CP*CP*TP*AP*GP*CP*GP*TP*AP*(DOC))-3'), DNA (5'-D(*TP*AP*AP*GP*TP*AP*CP*GP*CP*TP*AP*GP*GP*CP*AP*CP*A)-3') | Crystal structure of E.coli Pol II-normal DNA-dTTP ternary complex | X-ray diffraction | 2.05 | 30 | 2010-02-09 | ||||
| 6 | 2AGQ|1|C+ 2AGQ|1|B | 5'-D(*GP*GP*CP*TP*AP*CP*AP*GP*GP*AP*CP*TP*(DOC))-3', 5'-D(*TP*CP*AP*TP*GP*AP*GP*TP*CP*CP*TP*GP*TP*AP*GP*CP*C)-3' | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis | X-ray diffraction | 2.1 | 30 | 2005-09-06 | ||||
| 7 | 1O3T|1|D+ 1O3T|1|E+ 1O3T|1|C+ 1O3T|1|F | 5'-D(*CP*TP*AP*GP*AP*TP*CP*GP*CP*AP*TP*TP*TP*TP*TP*CP*G)-3', 5'-D(*GP*CP*GP*AP*AP*AP*AP*AP*TP*GP*CP*GP*AP*T)-3' | PROTEIN-DNA RECOGNITION AND DNA DEFORMATION REVEALED IN CRYSTAL STRUCTURES OF CAP-DNA COMPLEXES | X-ray diffraction | 2.8 | 62 | 2003-04-08 | ||||
| 8 | 3MQ6|1|O+ 3MQ6|1|P | DNA (5'-D(*AP*AP*GP*TP*CP*CP*AP*CP*CP*GP*GP*TP*GP*GP*AP*CP*T)-3') | Domain swapped SgrAI with DNA and calcium bound | X-ray diffraction | 2 | 33 | 2010-11-10 | ||||
| 9 | 2ACJ|1|E+ 2ACJ|1|F | 5'-D(*AP*CP*GP*GP*TP*TP*TP*AP*TP*GP*GP*CP*GP*CP*GP*CP*G)-3', 5'-D(*GP*TP*CP*GP*CP*GP*CP*GP*CP*CP*AP*TP*AP*AP*AP*CP*C)-3' | Crystal structure of the B/Z junction containing DNA bound to Z-DNA binding proteins | X-ray diffraction | 2.6 | 34 | 2005-10-25 | ||||
| 10 | 3MQ6|1|Q+ 3MQ6|1|R | DNA (5'-D(*AP*AP*GP*TP*CP*CP*AP*CP*CP*GP*GP*TP*GP*GP*AP*CP*T)-3') | Domain swapped SgrAI with DNA and calcium bound | X-ray diffraction | 2 | 34 | 2010-11-10 | ||||
| 11 | 1S10|1|C+ 1S10|1|B | 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*A)-3', 5'-D(*TP*CP*AP*GP*TP*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' | Snapshots of replication through an abasic lesion: structural basis for base substitution and frameshift | X-ray diffraction | 2.1 | 30 | 2004-03-30 | ||||
| 12 | 1R71|1|E+ 1R71|1|F | 5'-D(*AP*(BRU)P*TP*TP*TP*AP*GP*CP*GP*GP*CP*TP*AP*AP*AP*AP*G)-3', 5'-D(*CP*(BRU)P*TP*TP*TP*AP*GP*CP*CP*GP*CP*TP*AP*AP*AP*AP*(BRU))-3' | Crystal Structure of the DNA binding domain of KorB in complex with the operator DNA | X-ray diffraction | 2.2 | 34 | 2004-06-01 | ||||
| 13 | 2IA6|1|F+ 2IA6|1|E | 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*A)-3', 5'-D(*TP*CP*AP*TP*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' | Bypass of Major Benzopyrene-dG Adduct by Y-Family DNA Polymerase with Unique Structural Gap | X-ray diffraction | 2.5 | 29 | 2007-09-11 | ||||
| 14 | 1R71|1|K+ 1R71|1|L | 5'-D(*AP*(BRU)P*TP*TP*TP*AP*GP*CP*GP*GP*CP*TP*AP*AP*AP*AP*G)-3', 5'-D(*CP*(BRU)P*TP*TP*TP*AP*GP*CP*CP*GP*CP*TP*AP*AP*AP*AP*(BRU))-3' | Crystal Structure of the DNA binding domain of KorB in complex with the operator DNA | X-ray diffraction | 2.2 | 34 | 2004-06-01 | ||||
| 15 | 3MQ6|1|M+ 3MQ6|1|N | DNA (5'-D(*AP*AP*GP*TP*CP*CP*AP*CP*CP*GP*GP*TP*GP*GP*AP*CP*T)-3') | Domain swapped SgrAI with DNA and calcium bound | X-ray diffraction | 2 | 34 | 2010-11-10 | ||||
| 16 | 3MQ6|1|K+ 3MQ6|1|L | DNA (5'-D(*AP*AP*GP*TP*CP*CP*AP*CP*CP*GP*GP*TP*GP*GP*AP*CP*T)-3') | Domain swapped SgrAI with DNA and calcium bound | X-ray diffraction | 2 | 34 | 2010-11-10 | ||||
| 17 | 3MAQ|1|T+ 3MAQ|1|P | DNA (5'-D(*GP*TP*GP*CP*CP*TP*AP*GP*CP*GP*TP*AP*(DOC))-3'), DNA (5'-D(*TP*AP*CP*GP*TP*AP*CP*GP*CP*TP*AP*GP*GP*CP*AP*CP*A)-3') | Crystal structure of E.coli Pol II-normal DNA-dGTP ternary complex | X-ray diffraction | 2.4 | 30 | 2010-04-07 | ||||
| 18 | 1R71|1|I+ 1R71|1|J | 5'-D(*AP*(BRU)P*TP*TP*TP*AP*GP*CP*GP*GP*CP*TP*AP*AP*AP*AP*G)-3', 5'-D(*CP*(BRU)P*TP*TP*TP*AP*GP*CP*CP*GP*CP*TP*AP*AP*AP*AP*(BRU))-3' | Crystal Structure of the DNA binding domain of KorB in complex with the operator DNA | X-ray diffraction | 2.2 | 34 | 2004-06-01 | ||||
| 19 | 2IBK|1|E+ 2IBK|1|D | 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*AP*T)-3', 5'-D(*TP*CP*AP*TP*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' | Bypass of Major Benzopyrene-dG Adduct by Y-Family DNA Polymerase with Unique Structural Gap | X-ray diffraction | 2.25 | 31 | 2007-09-11 | ||||
| 20 | 1NVP|1|E+ 1NVP|1|F | 5'-D(*CP*CP*TP*TP*TP*TP*AP*TP*AP*GP*CP*CP*CP*CP*CP*CP*C)-3', 5'-D(*GP*GP*GP*GP*GP*GP*GP*CP*TP*AP*TP*AP*AP*AP*AP*GP*G)-3' | HUMAN TFIIA/TBP/DNA COMPLEX | X-ray diffraction | 2.1 | 34 | 2003-10-21 | ||||
| 21 | 1N56|1|F+ 1N56|1|E | 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*AP*A)-3', 5'-D(*TP*CP*AP*TP*(3DR)P*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' | synthetic construct | Y-family DNA polymerase Dpo4 in complex with DNA containing abasic lesion | X-ray diffraction | 2.4 | 31 | 2004-02-24 | |||
| 22 | 2IA6|1|D+ 2IA6|1|C | 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*A)-3', 5'-D(*TP*CP*AP*TP*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' | Bypass of Major Benzopyrene-dG Adduct by Y-Family DNA Polymerase with Unique Structural Gap | X-ray diffraction | 2.5 | 27 | 2007-09-11 | ||||
| 23 | 3A01|1|C+ 3A01|1|D | 5'-D(*CP*CP*GP*CP*AP*AP*TP*TP*AP*AP*TP*TP*AP*AP*GP*CP*C)-3', 5'-D(*GP*GP*CP*TP*TP*AP*AP*TP*TP*AP*AP*TP*TP*GP*CP*GP*G)-3' | Crystal structure of Aristaless and Clawless homeodomains bound to DNA | X-ray diffraction | 2.7 | 34 | 2010-03-09 | ||||
| 24 | 1ZME|1|A+ 1ZME|1|B | DNA (5'-D(*AP*CP*GP*GP*AP*GP*(5IU)P*TP*GP*GP*CP*TP*(5IU)P*CP*CP*CP*G)-3'), DNA (5'-D(*AP*CP*GP*GP*GP*AP*AP*GP*CP*CP*AP*AP*CP*TP*CP*CP*G)-3') | Saccharomyces cerevisiae | CRYSTAL STRUCTURE OF PUT3/DNA COMPLEX | X-ray diffraction | 2.5 | 34 | 1998-09-16 | |||
| 25 | 1S0O|1|D+ 1S0O|1|C | 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*C)-3', 5'-D(*TP*CP*AP*GP*TP*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' | Snapshots of replication through an abasic lesion: structural basis for base substitution and frameshift | X-ray diffraction | 2.1 | 30 | 2004-03-30 | ||||
| 26 | 1S0O|1|F+ 1S0O|1|E | 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*C)-3', 5'-D(*TP*CP*AP*GP*TP*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' | Snapshots of replication through an abasic lesion: structural basis for base substitution and frameshift | X-ray diffraction | 2.1 | 30 | 2004-03-30 | ||||
| 27 | 3A01|1|G+ 3A01|1|H | 5'-D(*CP*CP*GP*CP*AP*AP*TP*TP*AP*AP*TP*TP*AP*AP*GP*CP*C)-3', 5'-D(*GP*GP*CP*TP*TP*AP*AP*TP*TP*AP*AP*TP*TP*GP*CP*GP*G)-3' | Crystal structure of Aristaless and Clawless homeodomains bound to DNA | X-ray diffraction | 2.7 | 34 | 2010-03-09 | ||||
| 28 | 1N56|1|D+ 1N56|1|C | 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*AP*A)-3', 5'-D(*TP*CP*AP*TP*(3DR)P*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' | synthetic construct | Y-family DNA polymerase Dpo4 in complex with DNA containing abasic lesion | X-ray diffraction | 2.4 | 31 | 2004-02-24 | |||
| 29 | 1IAW|1|E+ 1IAW|1|F | 5'-D(*TP*GP*CP*CP*AP*CP*GP*CP*CP*GP*GP*CP*GP*TP*GP*GP*C)-3' | CRYSTAL STRUCTURE OF NAEI COMPLEXED WITH 17MER DNA | X-ray diffraction | 2.4 | 34 | 2001-08-03 | ||||
| 30 | 1IAW|1|C+ 1IAW|1|D | 5'-D(*TP*GP*CP*CP*AP*CP*GP*CP*CP*GP*GP*CP*GP*TP*GP*GP*C)-3' | CRYSTAL STRUCTURE OF NAEI COMPLEXED WITH 17MER DNA | X-ray diffraction | 2.4 | 33 | 2001-08-03 | ||||
| 31 | 2PZS|1|Y+ 2PZS|1|X | 5'-d(CTAACACGTAAGCAGTC)-3', 5'-d(GACTGCTTAC)-3' | Phi29 DNA polymerase complexed with primer-template DNA (post-translocation binary complex) | X-ray diffraction | 2.6 | 24 | 2007-07-17 | ||||
| 32 | 2I9T|1|C+ 2I9T|1|D | 5'-D(*AP*GP*TP*GP*GP*GP*AP*AP*AP*TP*TP*CP*CP*TP*CP*TP*G)-3', 5'-D(*CP*AP*GP*AP*GP*GP*AP*AP*TP*TP*TP*CP*CP*CP*AP*CP*T)-3' | Structure of NF-kB p65-p50 heterodimer bound to PRDII element of B-interferon promoter | X-ray diffraction | 2.8 | 34 | 2007-02-06 | ||||
| 33 | 3OS0|1|T+ 3OS0|1|t | DNA (5'-D(*CP*CP*CP*GP*AP*G*GP*CP*AP*CP*GP*TP*G)-3'), DNA (5'-D(P*CP*TP*AP*GP*CP*AP*CP*GP*TP*GP*CP*CP*TP*CP*GP*GP*G)-3') | PFV strand transfer complex (STC) at 2.81 A resolution | X-ray diffraction | 2.81 | 18 | 2010-11-17 | ||||
| 34 | 2AGP|1|D+ 2AGP|1|C | DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*(DOC)-3'), DNA (5'-D(*TP*TP*TP*TP*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3') | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis | X-ray diffraction | 2.9 | 30 | 2005-09-06 | ||||
| 35 | 2WTF|1|O+ 2WTF|1|P | 5'-D(*GP*TP*GP*GP*TP*GP*AP*GP*CP)-3', 5'-D(*TP*CP*TP*TP*CP*TP*GP*TP*GP*CP *TP*CP*AP*CP*CP*AP*CP)-3' | DNA polymerase eta in complex with the cis-diammineplatinum (II) 1,3- GTG intrastrand cross-link | X-ray diffraction | 2.5 | 23 | 2010-03-31 | ||||
| 36 | 2AGO|1|C+ 2AGO|1|B | DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*G)-3'), DNA (5'-D(*TP*TP*TP*TP*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3') | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis | X-ray diffraction | 2.85 | 31 | 2005-09-06 | ||||
| 37 | 2PZS|1|S+ 2PZS|1|R | 5'-d(CTAACACGTAAGCAGTC)-3', 5'-d(GACTGCTTAC)-3' | Phi29 DNA polymerase complexed with primer-template DNA (post-translocation binary complex) | X-ray diffraction | 2.6 | 24 | 2007-07-17 | ||||
| 38 | 2WTF|1|S+ 2WTF|1|T | 5'-D(*GP*TP*GP*GP*TP*GP*AP*GP*CP)-3', 5'-D(*TP*CP*TP*TP*CP*TP*GP*TP*GP*CP *TP*CP*AP*CP*CP*AP*CP)-3' | DNA polymerase eta in complex with the cis-diammineplatinum (II) 1,3- GTG intrastrand cross-link | X-ray diffraction | 2.5 | 21 | 2010-03-31 | ||||
| 39 | 2AGP|1|F+ 2AGP|1|E | DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*(DOC)-3'), DNA (5'-D(*TP*TP*TP*TP*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3') | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis | X-ray diffraction | 2.9 | 30 | 2005-09-06 | ||||
| 40 | 2IS1|1|E+ 2IS1|1|F | 5'-D(*CP*GP*AP*GP*CP*AP*CP*TP*GP*C)-3', 5'-D(*GP*CP*AP*GP*TP*GP*CP*TP*CP*GP*TP*TP*TP*TP*TP*TP*T)-3' | Crystal structure of UvrD-DNA-SO4 complex | X-ray diffraction | 2.9 | 25 | 2007-01-09 | ||||
| 41 | 2IS1|1|C+ 2IS1|1|D | 5'-D(*CP*GP*AP*GP*CP*AP*CP*TP*GP*C)-3', 5'-D(*GP*CP*AP*GP*TP*GP*CP*TP*CP*GP*TP*TP*TP*TP*TP*TP*T)-3' | Crystal structure of UvrD-DNA-SO4 complex | X-ray diffraction | 2.9 | 26 | 2007-01-09 | ||||
| 42 | 2PZS|1|T | 5'-d(CTAACACGTAAGCAGTC)-3' | Phi29 DNA polymerase complexed with primer-template DNA (post-translocation binary complex) | X-ray diffraction | 2.6 | 5 | 2007-07-17 | ||||
| 43 | 2PZS|1|U | 5'-d(CTAACACGTAAGCAGTC)-3' | Phi29 DNA polymerase complexed with primer-template DNA (post-translocation binary complex) | X-ray diffraction | 2.6 | 7 | 2007-07-17 | ||||
| 44 | 1W0U|1|C+ 1W0U|1|D | 5'-D(*CP*TP*AP*AP*CP*CP*CP*TP*AP*AP *CP*CP*CP*TP*AP*GP*A)-3', 5'-D(*TP*CP*TP*AP*GP*GP*GP*TP*TP*AP *GP*GP*GP*TP*TP*AP*G)-3' | hTRF2 DNA-binding domain in complex with telomeric DNA. | X-ray diffraction | 1.8 | 33 | 2004-12-22 | ||||
| 45 | 1RUN|1|D+ 1RUN|1|F+ 1RUN|1|C+ 1RUN|1|E | DNA (5'-D(*CP*TP*AP*GP*AP*TP*CP*AP*CP*AP*TP*TP*TP*TP*TP*CP*G )-3'), DNA (5'-D(*GP*CP*GP*AP*AP*AP*AP*AP*TP*GP*TP*GP*AP*T)-3') | CATABOLITE GENE ACTIVATOR PROTEIN (CAP)/DNA COMPLEX + ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE | X-ray diffraction | 2.7 | 62 | 1997-01-10 | ||||
| 46 | 1J59|1|F+ 1J59|1|C | 5'-D(*AP*TP*AP*TP*GP*TP*CP*AP*CP*AP*CP*TP*TP*TP*TP*CP*G )-3', 5'-D(*GP*CP*GP*AP*AP*AP*AP*GP*TP*GP*TP*GP*AP*C)-3' | CATABOLITE GENE ACTIVATOR PROTEIN (CAP)/DNA COMPLEX + ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE | X-ray diffraction | 2.5 | 31 | 2002-03-01 | ||||
| 47 | 1TQE|1|C+ 1TQE|1|D | MEF2 binding site of nur77 promoter | Mechanism of recruitment of class II histone deacetylases by myocyte enhancer factor-2 | X-ray diffraction | 2.7 | 34 | 2004-12-21 | ||||
| 48 | 1S76|1|N | DNA (5'-D(P*TP*TP*TP*AP*CP*GP*TP*TP*GP*CP*GP*CP*AP*CP*GP*GP*C)-3') | T7 RNA polymerase alpha beta methylene ATP elongation complex | X-ray diffraction | 2.88 | 17 | 2004-03-23 | ||||
| 49 | 1TQE|1|E+ 1TQE|1|F | MEF2 binding site of nur77 promoter | Mechanism of recruitment of class II histone deacetylases by myocyte enhancer factor-2 | X-ray diffraction | 2.7 | 34 | 2004-12-21 | ||||
| 50 | 1RUO|1|D+ 1RUO|1|F+ 1RUO|1|C+ 1RUO|1|E | DNA (5'-D(*CP*TP*AP*GP*AP*TP*CP*AP*CP*AP*TP*TP*TP*TP*TP*CP*G )-3'), DNA (5'-D(*GP*CP*GP*AP*AP*AP*AP*AP*TP*GP*TP*GP*AP*T)-3') | CATABOLITE GENE ACTIVATOR PROTEIN (CAP) MUTANT/DNA COMPLEX + ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE | X-ray diffraction | 2.7 | 62 | 1997-01-10 | ||||
| 51 | 1DMU|1|F | DNA (5'-D(*AP*TP*CP*GP*CP*CP*TP*AP*AP*TP*AP*GP*GP*CP*GP*AP*T)-3') | Crystal structure of the restriction endonuclease BglI (e.c.3.1.21.4) bound to its dna recognition sequence | X-ray diffraction | 2.2 | 17 | 1999-12-18 | ||||
| 52 | 1J59|1|D+ 1J59|1|E | 5'-D(*AP*TP*AP*TP*GP*TP*CP*AP*CP*AP*CP*TP*TP*TP*TP*CP*G )-3', 5'-D(*GP*CP*GP*AP*AP*AP*AP*GP*TP*GP*TP*GP*AP*C)-3' | CATABOLITE GENE ACTIVATOR PROTEIN (CAP)/DNA COMPLEX + ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE | X-ray diffraction | 2.5 | 31 | 2002-03-01 | ||||
| 53 | 2CAX|1|G+ 2CAX|1|H | 5'-D(*GP*AP*AP*TP*CP*AP*CP*AP*AP*AP *TP*CP*AP*CP*AP*AP*G)-3', 5'-D(*TP*TP*GP*TP*GP*AP*TP*TP*TP*GP *TP*GP*AP*TP*TP*CP*G)-3' | STRUCTURAL BASIS FOR COOPERATIVE BINDING OF RIBBON-HELIX-HELIX REPRESSOR OMEGA TO MUTATED DIRECT DNA HEPTAD REPEATS | X-ray diffraction | 2.9 | 34 | 2006-03-15 | ||||
| 54 | 2E1C|1|B+ 2E1C|1|D | DNA (5'-D(*DAP*DGP*DTP*DGP*DAP*DAP*DAP*DAP*DTP*DTP*DTP*DTP*DTP*DCP*DAP*DCP*DA)-3'), DNA (5'-D(*DTP*DGP*DTP*DGP*DAP*DAP*DAP*DAP*DAP*DTP*DTP*DTP*DTP*DCP*DAP*DCP*DT)-3') | Structure of Putative HTH-type transcriptional regulator PH1519/DNA Complex | X-ray diffraction | 2.1 | 34 | 2007-12-04 | ||||
| 55 | 2BOP|1|B | DNA (5'-D(*CP*CP*GP*AP*CP*CP*GP*AP*CP*GP*TP*CP*GP*GP*TP*CP*G )-3') | CRYSTAL STRUCTURE AT 1.7 ANGSTROMS OF THE BOVINE PAPILLOMAVIRUS-1 E2 DNA-BINDING DOMAIN BOUND TO ITS DNA TARGET | X-ray diffraction | 1.7 | 17 | 1994-01-31 | ||||
| 56 | 1SGS|1|A | kB DNA | Crystal structure of a free kB DNA | X-ray diffraction | 1.6 | 17 | 2004-03-23 | ||||
| 57 | 1LEI|1|C+ 1LEI|1|D | 5'-D(*CP*TP*CP*AP*GP*GP*GP*AP*AP*AP*GP*TP*AP*CP*AP*GP*A)-3', 5'-D(*TP*CP*TP*GP*5ITP*AP*CP*5ITP*5ITP*5ITP*CP*CP*CP*TP*GP*AP*G)-3' | The kB DNA sequence from the HLV-LTR functions as an allosteric regulator of HIV transcription | X-ray diffraction | 2.7 | 34 | 2003-04-15 | ||||
| 58 | 1MSW|1|N | Non-Template DNA | Structural basis for the transition from initiation to elongation transcription in T7 RNA polymerase | X-ray diffraction | 2.1 | 17 | 2002-11-15 | ||||
| 59 | 1JFT|1|B | 5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T)-3' | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PURF OPERATOR COMPLEX | X-ray diffraction | 2.5 | 17 | 2002-02-08 | ||||
| 60 | 1JH9|1|B | 5'-D(*AP*AP*CP*GP*AP*AP*AP*AP*CP*GP*TP*TP*TP*TP*CP*GP*T)-3' | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PURF OPERATOR COMPLEX | X-ray diffraction | 2.55 | 17 | 2002-02-08 | ||||
| 61 | 1QPZ|1|M | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T)-3') | PURINE REPRESSOR-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-ray diffraction | 2.5 | 17 | 1999-06-07 | ||||
| 62 | 1VPW|1|B | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T )-3') | synthetic construct | STRUCTURE OF THE PURR MUTANT, L54M, BOUND TO HYPOXANTHINE AND PURF OPERATOR DNA | X-ray diffraction | 2.7 | 17 | 1998-06-17 | |||
| 63 | 2PUE|1|B | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T )-3') | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-ray diffraction | 2.7 | 17 | 1998-05-06 | ||||
| 64 | 2PUG|1|B | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T )-3') | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-ray diffraction | 2.7 | 17 | 1998-05-06 | ||||
| 65 | 1BDH|1|B | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T )-3') | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-ray diffraction | 2.7 | 17 | 1997-04-21 | ||||
| 66 | 1ZAY|1|M | DNA (5'-D(*AP*AP*CP*GP*AP*AP*AP*AP*TP*(1AP)P*TP*TP*TP*TP*CP*GP*T)-3') | PURINE REPRESSOR-HYPOXANTHINE-MODIFIED-PURF-OPERATOR COMPLEX | X-ray diffraction | 2.7 | 17 | 1999-12-16 | ||||
| 67 | 1QQB|1|M | 5'-D(*TP*AP*CP*GP*CP*AP*AP*TP*CP*GP*AP*TP*TP*GP*CP*GP*T)-3' | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-ray diffraction | 2.7 | 17 | 1999-06-09 | ||||
| 68 | 1JFS|1|B | 5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T)-3' | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PURF OPERATOR COMPLEX | X-ray diffraction | 2.9 | 17 | 2002-02-08 | ||||
| 69 | 1QP0|1|M | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*CP*CP*GP*GP*TP*TP*GP*CP*GP*T)-3') | PURINE REPRESSOR-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-ray diffraction | 2.9 | 17 | 1999-06-07 | ||||
| 70 | 1QP7|1|M | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*CP*CP*GP*GP*TP*TP*GP*CP*GP*T)-3') | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-ray diffraction | 2.9 | 17 | 1999-06-04 | ||||
| 71 | 1WET|1|B | DNA (5'-D(*AP*AP*CP*GP*AP*AP*AP*AP*CP*GP*TP*TP*TP*TP*CP*GP*T )-3') | STRUCTURE OF THE PURR-GUANINE-PURF OPERATOR COMPLEX | X-ray diffraction | 2.6 | 17 | 1997-11-21 | ||||
| 72 | 2PUD|1|B | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T )-3') | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-ray diffraction | 2.6 | 17 | 1998-05-06 | ||||
| 73 | 2PUC|1|B | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T )-3') | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-ray diffraction | 2.6 | 17 | 1998-05-06 | ||||
| 74 | 1BDI|1|B | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T )-3') | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-ray diffraction | 3 | 17 | 1997-04-21 | ||||
| 75 | 2PUF|1|B | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T )-3') | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-ray diffraction | 3 | 17 | 1998-05-06 | ||||
| 76 | 1QP4|1|M | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*TP*CP*GP*AP*TP*TP*GP*CP*GP*T)-3') | PURINE REPRESSOR-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-ray diffraction | 3 | 17 | 1999-06-07 | ||||
| 77 | 1PNR|1|B | DNA (5'-D(*AP*AP*CP*GP*AP*AP*AP*AP*CP*GP*TP*TP*TP*TP*CP*GP*T )-3') | PURINE REPRESSOR-HYPOXANTHINE-PURF-OPERATOR COMPLEX | X-ray diffraction | 2.7 | 17 | 1995-11-20 | ||||
| 78 | 2PUB|1|B | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T )-3') | synthetic construct | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-ray diffraction | 2.7 | 17 | 1998-05-06 | |||
| 79 | 2PUA|1|B | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*AP*CP*GP*TP*TP*TP*GP*CP*GP*T )-3') | synthetic construct | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-ray diffraction | 2.9 | 17 | 1998-05-06 | |||
| 80 | 1QQA|1|M | DNA (5'-D(*TP*AP*CP*GP*CP*AP*AP*GP*CP*GP*CP*TP*TP*GP*CP*GP*T)-3') | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-ray diffraction | 3 | 17 | 1999-06-09 | ||||
| 81 | 1A0A|1|C+ 1A0A|1|D | DNA (5'-D(*CP*TP*AP*GP*TP*CP*CP*CP*AP*CP*GP*TP*GP*TP*GP*AP*G )-3'), DNA (5'-D(*CP*TP*CP*AP*CP*AP*CP*GP*TP*GP*GP*GP*AP*CP*TP*AP*G )-3') | PHOSPHATE SYSTEM POSITIVE REGULATORY PROTEIN PHO4/DNA COMPLEX | X-ray diffraction | 2.8 | 34 | 1998-03-18 |
Release history
| Release | 0.6 |
|---|---|
| Date | 2011-03-05 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|
Instances are ordered to put similar structures near each other. Select one instance to see its 3D structure. Selecting two or more instances will show their superposition, but only chains with identical numbers of observed nucleotides will superpose well. Large structures are slow to display; this tool is not designed for that.
| #S | View | PDB | Title | Method | Resolution | #NTs | NAKB NA annotation | NAKB protein annotation |
|---|---|---|---|---|---|---|---|---|
| 1 | 2ACJ|1|E+ 2ACJ|1|F | Crystal structure of the B/Z junction containing DNA bound to Z-DNA binding proteins | X-RAY DIFFRACTION | 2.6 | 34 | Z-form double helix,double helix,structure | enzyme,hydrolase | |
| 2 | 3DPG|1|C+ 3DPG|1|D | SgrAI with noncognate DNA bound | X-RAY DIFFRACTION | 1.91 | 33 | enzyme,hydrolase,nuclease | ||
| 3 | 3MQ6|1|Q+ 3MQ6|1|R | Domain swapped SgrAI with DNA and calcium bound | X-RAY DIFFRACTION | 2 | 34 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 4 | 3MQ6|1|O+ 3MQ6|1|P | Domain swapped SgrAI with DNA and calcium bound | X-RAY DIFFRACTION | 2 | 33 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 5 | 3MQ6|1|M+ 3MQ6|1|N | Domain swapped SgrAI with DNA and calcium bound | X-RAY DIFFRACTION | 2 | 34 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 6 | 3MQ6|1|K+ 3MQ6|1|L | Domain swapped SgrAI with DNA and calcium bound | X-RAY DIFFRACTION | 2 | 34 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 7 | 2BOP|1|B | CRYSTAL STRUCTURE AT 1.7 ANGSTROMS OF THE BOVINE PAPILLOMAVIRUS-1 E2 DNA-BINDING DOMAIN BOUND TO ITS DNA TARGET | X-RAY DIFFRACTION | 1.7 | 17 | B-form double helix,double helix,structure | regulatory,transcription | |
| 8 | 1TQE|1|C+ 1TQE|1|D | Mechanism of recruitment of class II histone deacetylases by myocyte enhancer factor-2 | X-RAY DIFFRACTION | 2.7 | 34 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),MADS box,enzyme,hydrolase,other α-helix,regulatory,transcription | |
| 9 | 1TQE|1|E+ 1TQE|1|F | Mechanism of recruitment of class II histone deacetylases by myocyte enhancer factor-2 | X-RAY DIFFRACTION | 2.7 | 34 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),MADS box,enzyme,hydrolase,other α-helix,regulatory,transcription | |
| 10 | 2E1C|1|B+ 2E1C|1|D | Structure of Putative HTH-type transcriptional regulator PH1519/DNA Complex | X-RAY DIFFRACTION | 2.1 | 34 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 11 | 1EGW|1|H+ 1EGW|1|G | CRYSTAL STRUCTURE OF MEF2A CORE BOUND TO DNA | X-RAY DIFFRACTION | 1.5 | 34 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),MADS box,other α-helix,regulatory,transcription | |
| 12 | 2CAX|1|G+ 2CAX|1|H | STRUCTURAL BASIS FOR COOPERATIVE BINDING OF RIBBON-HELIX-HELIX REPRESSOR OMEGA TO MUTATED DIRECT DNA HEPTAD REPEATS | X-RAY DIFFRACTION | 2.9 | 34 | DNA-binding transcription factor (TF),MetR homology,other α-helix,regulatory,transcription | ||
| 13 | 1A0A|1|C+ 1A0A|1|D | PHOSPHATE SYSTEM POSITIVE REGULATORY PROTEIN PHO4/DNA COMPLEX | X-RAY DIFFRACTION | 2.8 | 34 | double helix,structure | DNA-binding transcription factor (TF),basic transcription factor,helix-loop-helix (bHLH),regulatory,transcription | |
| 14 | 1R71|1|I+ 1R71|1|J | Crystal Structure of the DNA binding domain of KorB in complex with the operator DNA | X-RAY DIFFRACTION | 2.2 | 34 | B-form double helix,double helix,structure | regulatory,transcription | |
| 15 | 1R71|1|K+ 1R71|1|L | Crystal Structure of the DNA binding domain of KorB in complex with the operator DNA | X-RAY DIFFRACTION | 2.2 | 34 | B-form double helix,double helix,structure | regulatory,transcription | |
| 16 | 1R71|1|E+ 1R71|1|F | Crystal Structure of the DNA binding domain of KorB in complex with the operator DNA | X-RAY DIFFRACTION | 2.2 | 34 | B-form double helix,double helix,structure | regulatory,transcription | |
| 17 | 1R71|1|G+ 1R71|1|H | Crystal Structure of the DNA binding domain of KorB in complex with the operator DNA | X-RAY DIFFRACTION | 2.2 | 34 | B-form double helix,double helix,structure | regulatory,transcription | |
| 18 | 1IAW|1|C+ 1IAW|1|D | CRYSTAL STRUCTURE OF NAEI COMPLEXED WITH 17MER DNA | X-RAY DIFFRACTION | 2.4 | 33 | enzyme,hydrolase,nuclease | ||
| 19 | 1SGS|1|A | Crystal structure of a free kB DNA | X-RAY DIFFRACTION | 1.6 | 17 | B-form double helix,double helix,structure | ||
| 20 | 1W0U|1|C+ 1W0U|1|D | hTRF2 DNA-binding domain in complex with telomeric DNA. | X-RAY DIFFRACTION | 1.8 | 33 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 21 | 1LEI|1|C+ 1LEI|1|D | The kB DNA sequence from the HLV-LTR functions as an allosteric regulator of HIV transcription | X-RAY DIFFRACTION | 2.7 | 34 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),immunoglobulin (Ig) fold,regulatory,rel homology,transcription | |
| 22 | 3A01|1|G+ 3A01|1|H | Crystal structure of Aristaless and Clawless homeodomains bound to DNA | X-RAY DIFFRACTION | 2.7 | 34 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 23 | 3A01|1|C+ 3A01|1|D | Crystal structure of Aristaless and Clawless homeodomains bound to DNA | X-RAY DIFFRACTION | 2.7 | 34 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 24 | 2I9T|1|C+ 2I9T|1|D | Structure of NF-kB p65-p50 heterodimer bound to PRDII element of B-interferon promoter | X-RAY DIFFRACTION | 2.8 | 34 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),immunoglobulin (Ig) fold,regulatory,rel homology,transcription | |
| 25 | 1DMU|1|F | Crystal structure of the restriction endonuclease BglI (e.c.3.1.21.4) bound to its dna recognition sequence | X-RAY DIFFRACTION | 2.2 | 17 | B-form double helix,double helix,feature,mispair,structure | enzyme,hydrolase,nuclease | |
| 26 | 1IAW|1|E+ 1IAW|1|F | CRYSTAL STRUCTURE OF NAEI COMPLEXED WITH 17MER DNA | X-RAY DIFFRACTION | 2.4 | 34 | enzyme,hydrolase,nuclease | ||
| 27 | 1WET|1|B | STRUCTURE OF THE PURR-GUANINE-PURF OPERATOR COMPLEX | X-RAY DIFFRACTION | 2.6 | 17 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 28 | 1PNR|1|B | PURINE REPRESSOR-HYPOXANTHINE-PURF-OPERATOR COMPLEX | X-RAY DIFFRACTION | 2.7 | 17 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 29 | 1ZAY|1|M | PURINE REPRESSOR-HYPOXANTHINE-MODIFIED-PURF-OPERATOR COMPLEX | X-RAY DIFFRACTION | 2.7 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 30 | 2PUD|1|B | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-RAY DIFFRACTION | 2.6 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 31 | 2PUB|1|B | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-RAY DIFFRACTION | 2.7 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 32 | 2PUC|1|B | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-RAY DIFFRACTION | 2.6 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 33 | 1JFT|1|B | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PURF OPERATOR COMPLEX | X-RAY DIFFRACTION | 2.5 | 17 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 34 | 1JFS|1|B | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PURF OPERATOR COMPLEX | X-RAY DIFFRACTION | 2.9 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 35 | 2PUF|1|B | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-RAY DIFFRACTION | 3 | 17 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 36 | 2PUE|1|B | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-RAY DIFFRACTION | 2.7 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 37 | 2PUG|1|B | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-RAY DIFFRACTION | 2.7 | 17 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 38 | 1VPW|1|B | STRUCTURE OF THE PURR MUTANT, L54M, BOUND TO HYPOXANTHINE AND PURF OPERATOR DNA | X-RAY DIFFRACTION | 2.7 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 39 | 2PUA|1|B | CRYSTAL STRUCTURE OF THE LACI FAMILY MEMBER, PURR, BOUND TO DNA: MINOR GROOVE BINDING BY ALPHA HELICES | X-RAY DIFFRACTION | 2.9 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 40 | 1QPZ|1|M | PURINE REPRESSOR-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-RAY DIFFRACTION | 2.5 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 41 | 1BDI|1|B | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-RAY DIFFRACTION | 3 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 42 | 1QQA|1|M | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-RAY DIFFRACTION | 3 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 43 | 1BDH|1|B | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-RAY DIFFRACTION | 2.7 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 44 | 1QP7|1|M | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-RAY DIFFRACTION | 2.9 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 45 | 1QP0|1|M | PURINE REPRESSOR-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-RAY DIFFRACTION | 2.9 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 46 | 1QP4|1|M | PURINE REPRESSOR-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-RAY DIFFRACTION | 3 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 47 | 1QQB|1|M | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PALINDROMIC OPERATOR COMPLEX | X-RAY DIFFRACTION | 2.7 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 48 | 1JH9|1|B | PURINE REPRESSOR MUTANT-HYPOXANTHINE-PURF OPERATOR COMPLEX | X-RAY DIFFRACTION | 2.55 | 17 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 49 | 1ZME|1|A+ 1ZME|1|B | CRYSTAL STRUCTURE OF PUT3/DNA COMPLEX | X-RAY DIFFRACTION | 2.5 | 34 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),Zinc-coordinating,regulatory,transcription | |
| 50 | 1NVP|1|E+ 1NVP|1|F | HUMAN TFIIA/TBP/DNA COMPLEX | X-RAY DIFFRACTION | 2.1 | 34 | B-form double helix,double helix,structure | β-sheet,DNA-binding transcription factor (TF),TATA binding protein,regulatory,transcription | |
| 51 | 3OS0|1|T+ 3OS0|1|t | PFV strand transfer complex (STC) at 2.81 A resolution | X-RAY DIFFRACTION | 2.81 | 18 | enzyme,recombinase | ||
| 52 | 1J59|1|F+ 1J59|1|C | CATABOLITE GENE ACTIVATOR PROTEIN (CAP)/DNA COMPLEX + ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE | X-RAY DIFFRACTION | 2.5 | 31 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 53 | 1RUO|1|D+ 1RUO|1|F+ 1RUO|1|C+ 1RUO|1|E | CATABOLITE GENE ACTIVATOR PROTEIN (CAP) MUTANT/DNA COMPLEX + ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE | X-RAY DIFFRACTION | 2.7 | 62 | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | ||
| 54 | 1RUN|1|D+ 1RUN|1|F+ 1RUN|1|C+ 1RUN|1|E | CATABOLITE GENE ACTIVATOR PROTEIN (CAP)/DNA COMPLEX + ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE | X-RAY DIFFRACTION | 2.7 | 62 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 55 | 1J59|1|D+ 1J59|1|E | CATABOLITE GENE ACTIVATOR PROTEIN (CAP)/DNA COMPLEX + ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE | X-RAY DIFFRACTION | 2.5 | 31 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 56 | 1O3T|1|D+ 1O3T|1|E+ 1O3T|1|C+ 1O3T|1|F | PROTEIN-DNA RECOGNITION AND DNA DEFORMATION REVEALED IN CRYSTAL STRUCTURES OF CAP-DNA COMPLEXES | X-RAY DIFFRACTION | 2.8 | 62 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 57 | 2WTF|1|O+ 2WTF|1|P | DNA polymerase eta in complex with the cis-diammineplatinum (II) 1,3- GTG intrastrand cross-link | X-RAY DIFFRACTION | 2.5 | 23 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 58 | 2WTF|1|S+ 2WTF|1|T | DNA polymerase eta in complex with the cis-diammineplatinum (II) 1,3- GTG intrastrand cross-link | X-RAY DIFFRACTION | 2.5 | 21 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 59 | 2IA6|1|F+ 2IA6|1|E | Bypass of Major Benzopyrene-dG Adduct by Y-Family DNA Polymerase with Unique Structural Gap | X-RAY DIFFRACTION | 2.5 | 29 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 60 | 1N56|1|F+ 1N56|1|E | Y-family DNA polymerase Dpo4 in complex with DNA containing abasic lesion | X-RAY DIFFRACTION | 2.4 | 31 | enzyme,polymerase,transferase | ||
| 61 | 2AGQ|1|C+ 2AGQ|1|B | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis | X-RAY DIFFRACTION | 2.1 | 30 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 62 | 1S10|1|C+ 1S10|1|B | Snapshots of replication through an abasic lesion: structural basis for base substitution and frameshift | X-RAY DIFFRACTION | 2.1 | 30 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 63 | 2AGP|1|D+ 2AGP|1|C | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis | X-RAY DIFFRACTION | 2.9 | 30 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 64 | 2AGO|1|C+ 2AGO|1|B | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis | X-RAY DIFFRACTION | 2.85 | 31 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 65 | 2AGP|1|F+ 2AGP|1|E | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis | X-RAY DIFFRACTION | 2.9 | 30 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 66 | 1N56|1|D+ 1N56|1|C | Y-family DNA polymerase Dpo4 in complex with DNA containing abasic lesion | X-RAY DIFFRACTION | 2.4 | 31 | enzyme,polymerase,transferase | ||
| 67 | 2IA6|1|D+ 2IA6|1|C | Bypass of Major Benzopyrene-dG Adduct by Y-Family DNA Polymerase with Unique Structural Gap | X-RAY DIFFRACTION | 2.5 | 27 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 68 | 1S0O|1|F+ 1S0O|1|E | Snapshots of replication through an abasic lesion: structural basis for base substitution and frameshift | X-RAY DIFFRACTION | 2.1 | 30 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 69 | 2IBK|1|E+ 2IBK|1|D | Bypass of Major Benzopyrene-dG Adduct by Y-Family DNA Polymerase with Unique Structural Gap | X-RAY DIFFRACTION | 2.25 | 31 | enzyme,polymerase,transferase | ||
| 70 | 1S0O|1|D+ 1S0O|1|C | Snapshots of replication through an abasic lesion: structural basis for base substitution and frameshift | X-RAY DIFFRACTION | 2.1 | 30 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 71 | 3K58|1|T+ 3K58|1|P | Crystal structure of E.coli Pol II-normal DNA-dTTP ternary complex | X-RAY DIFFRACTION | 2.05 | 30 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 72 | 3K59|1|T+ 3K59|1|P | Crystal structure of E.coli Pol II-normal DNA-dCTP ternary complex | X-RAY DIFFRACTION | 1.92 | 30 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 73 | 3MAQ|1|T+ 3MAQ|1|P | Crystal structure of E.coli Pol II-normal DNA-dGTP ternary complex | X-RAY DIFFRACTION | 2.4 | 30 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 74 | 2PZS|1|U | Phi29 DNA polymerase complexed with primer-template DNA (post-translocation binary complex) | X-RAY DIFFRACTION | 2.6 | 7 | enzyme,polymerase,transferase | ||
| 75 | 2PZS|1|T | Phi29 DNA polymerase complexed with primer-template DNA (post-translocation binary complex) | X-RAY DIFFRACTION | 2.6 | 5 | enzyme,polymerase,transferase | ||
| 76 | 2PZS|1|Y+ 2PZS|1|X | Phi29 DNA polymerase complexed with primer-template DNA (post-translocation binary complex) | X-RAY DIFFRACTION | 2.6 | 24 | enzyme,polymerase,transferase | ||
| 77 | 2PZS|1|S+ 2PZS|1|R | Phi29 DNA polymerase complexed with primer-template DNA (post-translocation binary complex) | X-RAY DIFFRACTION | 2.6 | 24 | enzyme,polymerase,transferase | ||
| 78 | 2IS1|1|C+ 2IS1|1|D | Crystal structure of UvrD-DNA-SO4 complex | X-RAY DIFFRACTION | 2.9 | 26 | B-form double helix,double helix,structure | enzyme,helicase,hydrolase | |
| 79 | 2IS1|1|E+ 2IS1|1|F | Crystal structure of UvrD-DNA-SO4 complex | X-RAY DIFFRACTION | 2.9 | 25 | B-form double helix,double helix,structure | enzyme,helicase,hydrolase | |
| 80 | 1MSW|1|N | Structural basis for the transition from initiation to elongation transcription in T7 RNA polymerase | X-RAY DIFFRACTION | 2.1 | 17 | enzyme,polymerase,transferase | ||
| 81 | 1S76|1|N | T7 RNA polymerase alpha beta methylene ATP elongation complex | X-RAY DIFFRACTION | 2.88 | 17 | enzyme,polymerase,transferase |
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. The ordering in the heat map is the same as in the table. The colorbar ranges from 0 to the maximum observed discrepancy. Click above the diagonal to select a range of structures, below the diagonal to select two structures.
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