Equivalence class DNA_4.0_77675.2 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 1ENN|1|A+ 1ENN|1|B (rep) | DNA (5'-D(*GP*CP*GP*AP*AP*TP*TP*CP*G)-3') | SOLVENT ORGANIZATION IN AN OLIGONUCLEOTIDE CRYSTAL: THE STRUCTURE OF D(GCGAATTCG)2 AT ATOMIC RESOLUTION | X-ray diffraction | 0.89 | 18 | 2000-05-03 | ||||
| 2 | 1XJY|1|A+ 1XJY|1|B | 5'-D(*TP*CP*TP*GP*CP*GP*GP*TP*C)-3', 5'-D(*TP*GP*AP*CP*CP*GP*CP*AP*G)-3' | The crystal structures of the DNA binding sites of the RUNX1 transcription factor | X-ray diffraction | 2 | 18 | 2005-03-15 | ||||
| 3 | 3OQG|1|C+ 3OQG|1|D | DNA 5'-D(*GP*AP*TP*CP*TP*GP*AP*AP*C)-3', DNA 5'-D(*GP*TP*TP*CP*AP*GP*AP*TP*C)-3' | Restriction endonuclease HPY188I in complex with substrate DNA | X-ray diffraction | 1.75 | 18 | 2010-10-20 | ||||
| 4 | 3G00|1|H+ 3G00|1|I | 5'-D(*CP*GP*TP*AP*TP*TP*AP*CP*G)-3', 5'-D(*CP*GP*TP*AP*UP*TP*AP*CP*G)-3' | Mth0212 in complex with a 9bp blunt end dsDNA at 1.7 Angstrom | X-ray diffraction | 1.74 | 18 | 2010-03-09 | ||||
| 5 | 1XJX|1|A+ 1XJX|1|B | 5'-D(*TP*CP*TP*GP*CP*GP*GP*TP*C)-3', 5'-D(*TP*GP*AP*CP*CP*GP*CP*AP*G)-3' | The crystal structures of the DNA binding sites of the RUNX1 transcription factor | X-ray diffraction | 1.7 | 18 | 2005-03-15 | ||||
| 6 | 2GB7|1|G+ 2GB7|1|H | DNA STRAND 1, DNA STRAND 2 | Metal-depleted Ecl18kI in complex with uncleaved, modified DNA | X-ray diffraction | 1.7 | 18 | 2006-06-20 | ||||
| 7 | 2GB7|1|E+ 2GB7|1|F | DNA STRAND 1, DNA STRAND 2 | Metal-depleted Ecl18kI in complex with uncleaved, modified DNA | X-ray diffraction | 1.7 | 18 | 2006-06-20 | ||||
| 8 | 3IMB|1|I+ 3IMB|1|J | 5'-D(*CP*GP*CP*CP*CP*GP*GP*AP*C)-3', 5'-D(*GP*TP*CP*CP*GP*GP*GP*CP*G)-3' | Alternative binding mode of restriction endonuclease BcnI to cognate DNA | X-ray diffraction | 1.89 | 18 | 2010-08-11 | ||||
| 9 | 3IMB|1|E+ 3IMB|1|F | 5'-D(*CP*GP*CP*CP*CP*GP*GP*AP*C)-3', 5'-D(*GP*TP*CP*CP*GP*GP*GP*CP*G)-3' | Alternative binding mode of restriction endonuclease BcnI to cognate DNA | X-ray diffraction | 1.89 | 18 | 2010-08-11 | ||||
| 10 | 3IMB|1|K+ 3IMB|1|L | 5'-D(*CP*GP*CP*CP*CP*GP*GP*AP*C)-3', 5'-D(*GP*TP*CP*CP*GP*GP*GP*CP*G)-3' | Alternative binding mode of restriction endonuclease BcnI to cognate DNA | X-ray diffraction | 1.89 | 18 | 2010-08-11 | ||||
| 11 | 3HQF|1|B+ 3HQF|1|C | 5'-D(*CP*GP*CP*CP*AP*GP*GP*GP*C)-3', 5'-D(*GP*CP*CP*CP*TP*GP*GP*CP*G)-3' | Crystal structure of restriction endonuclease EcoRII N-terminal effector-binding domain in complex with cognate DNA | X-ray diffraction | 2.51 | 18 | 2009-09-22 | ||||
| 12 | 3IMB|1|G+ 3IMB|1|H | 5'-D(*CP*GP*CP*CP*CP*GP*GP*AP*C)-3', 5'-D(*GP*TP*CP*CP*GP*GP*GP*CP*G)-3' | Alternative binding mode of restriction endonuclease BcnI to cognate DNA | X-ray diffraction | 1.89 | 18 | 2010-08-11 | ||||
| 13 | 3KNC|1|A+ 3KNC|1|B | 5'-D(*(XGR)P*(XCR)P*(XGR)P*(XTR)P*(XAR)P*(XGR)P*(XCR)P*(XGR)P*(XGR))-3', 5'-R(*CP*GP*CP*UP*AP*CP*GP*C)-3' | Crystal structure of the CeNA-RNA hybrid octamer ce(GCGTAGCG):r(CGCUACGC) | X-ray diffraction | 2.5 | 17 | 2010-12-08 | ||||
| 14 | 2FQZ|1|G+ 2FQZ|1|H | DNA STRAND 1, DNA STRAND 2 | Metal-depleted Ecl18kI in complex with uncleaved DNA | X-ray diffraction | 2 | 18 | 2006-06-20 | ||||
| 15 | 3GV8|1|T+ 3GV8|1|P | 5'-D(*AP*GP*GP*AP*CP*CP*C)-3', 5'-D(*AP*TP*GP*GP*GP*TP*CP*CP*T)-3' | Human DNA polymerase iota in complex with T template DNA and incoming dGTP | X-ray diffraction | 2 | 16 | 2009-06-02 | ||||
| 16 | 2FQZ|1|E+ 2FQZ|1|F | DNA STRAND 1, DNA STRAND 2 | Metal-depleted Ecl18kI in complex with uncleaved DNA | X-ray diffraction | 2 | 18 | 2006-06-20 | ||||
| 17 | 3GV7|1|T+ 3GV7|1|P | 5'-D(*AP*GP*GP*AP*CP*CP*C)-3', 5'-D(P*AP*TP*GP*GP*GP*TP*CP*CP*T)-3' | Human DNA polymerase iota in complex with T template DNA and incoming dTTP | X-ray diffraction | 2.2 | 16 | 2009-06-02 | ||||
| 18 | 1MNV|1|A+ 1MNV|1|B | 5'-D(*AP*TP*GP*CP*TP*GP*CP*AP*T)-3' | Actinomycin D binding to ATGCTGCAT | X-ray diffraction | 2.6 | 18 | 2002-11-22 | ||||
| 19 | 1UE2|1|A | 5'-D(*GP*(C38)P*GP*AP*AP*AP*GP*CP*T)-3' | Crystal structure of d(GC38GAAAGCT) | X-ray diffraction | 1.4 | 9 | 2004-01-13 | ||||
| 20 | 2ALZ|1|T+ 2ALZ|1|P | 5'-D(*AP*GP*GP*AP*CP*CP*(DOC))-3', 5'-D(*TP*GP*GP*GP*GP*TP*CP*CP*T)-3' | Ternary Complex of hPoli with DNA and dCTP | X-ray diffraction | 2.5 | 16 | 2005-10-25 | ||||
| 21 | 2DPJ|1|T+ 2DPJ|1|P | 5'-D(*AP*GP*GP*AP*CP*CP*(DOC))-3', 5'-D(*TP*(EDA)P*GP*GP*GP*TP*CP*CP*T)-3' | structure of hPoli with DNA and dTTP | X-ray diffraction | 2.3 | 16 | 2006-07-04 | ||||
| 22 | 2DPI|1|T+ 2DPI|1|P | 5'-D(*AP*GP*GP*AP*CP*CP*(DOC))-3', 5'-D(*TP*(EDA)P*GP*GP*GP*TP*CP*CP*T)-3' | Ternary complex of hPoli with DNA and dCTP | X-ray diffraction | 2.3 | 16 | 2006-07-04 | ||||
| 23 | 3HR3|1|A | 5'-D(*GP*CP*GP*(US4)P*(OMU))P*AP*CP*GP*C)-3' | synthetic construct | Interplay of Structure, Hydration and Thermal Stability in Formacetal Modified Oligonucleotides: RNA May Tolerate Hydrophobic Modifications Better than DNA | X-ray diffraction | 1.75 | 9 | 2009-10-27 | |||
| 24 | 3H4D|1|T+ 3H4D|1|P | 5'-D(*AP*GP*GP*AP*CP*CP*(DOC)), 5'-D(*TP*(BRU)P*GP*GP*GP*TP*CP*CP*T) | Ternary complex of human DNA polymerase iota with template U/T and incoming dGTP | X-ray diffraction | 2.2 | 16 | 2009-07-21 | ||||
| 25 | 1RXW|1|C+ 1RXW|1|B | 5'-d(*C*pG*pA*pT*pG*pC*pT*pA)-3', 5'-d(*T*pA*pG*pC*pA*pT*pC*pG*pG)-3' | Crystal structure of A. fulgidus FEN-1 bound to DNA | X-ray diffraction | 2 | 15 | 2004-01-27 | ||||
| 26 | 3H40|1|T+ 3H40|1|P | 5'-D(*AP*GP*GP*AP*CP*CP*(DOC))-3', 5'-D(*TP*(BRU)P*GP*GP*GP*TP*CP*CP*T)-3' | Binary complex of human DNA polymerase iota with template U/T | X-ray diffraction | 2.3 | 16 | 2009-07-21 | ||||
| 27 | 3H4B|1|T+ 3H4B|1|P | 5'-D(*AP*GP*GP*AP*CP*CP*(DOC))-3', 5'-D(*TP*(BRU)P*GP*GP*GP*TP*CP*CP*T)-3' | Ternary complex of human DNA polymerase iota with template U/T and incoming dATP | X-ray diffraction | 2.85 | 16 | 2009-07-21 | ||||
| 28 | 2W35|1|F+ 2W35|1|G | 5'-D(*AP*GP*CP*CP*GP*TP)-3', 5'-D(*AP*TP*GP*CP*GP*AP*CP*IP*GP)-3' | synthetic construct | Structures of endonuclease V with DNA reveal initiation of deaminated adenine repair | X-ray diffraction | 2.15 | 13 | 2009-01-20 | |||
| 29 | 3OGD|1|B+ 3OGD|1|C | 5'-D(*CP*AP*(BRU)P*GP*AP*CP*(BRU)P*GP*C)-3', 5'-D(*GP*CP*AP*GP*TP*CP*AP*TP*G)-3' | AlkA Undamaged DNA Complex: Interrogation of a G*:C base pair | X-ray diffraction | 2.8 | 18 | 2010-09-15 | ||||
| 30 | 1DE9|1|Z+ 1DE9|1|Y | 5'-d(*GP*AP*TP*CP*GP*GP*TP*AP*G)-3', 5'-d(P*(3DR)P*GP*AP*TP*C)-3' | HUMAN APE1 ENDONUCLEASE WITH BOUND ABASIC DNA AND MN2+ ION | X-ray diffraction | 3 | 14 | 2000-02-02 | ||||
| 31 | 3G4T|1|H+ 3G4T|1|I | 5'-D(*CP*G*TP*AP*CP*TP*AP*CP*G)-3', 5'-D(*CP*GP*TP*AP*(UPS)P*TP*AP*CP*G)-3' | Mth0212 (WT) in complex with a 7bp dsDNA | X-ray diffraction | 2.64 | 14 | 2010-03-09 | ||||
| 32 | 3N1I|1|B | DNA 32-mer ERE32 | Crystal Structure of a StWhy2-ERE32 complex | X-ray diffraction | 2.2 | 9 | 2010-08-11 | ||||
| 33 | 2W35|1|C | 5'-D(*AP*TP*GP*CP*GP*AP*CP*IP*GP)-3' | synthetic construct | Structures of endonuclease V with DNA reveal initiation of deaminated adenine repair | X-ray diffraction | 2.15 | 4 | 2009-01-20 | |||
| 34 | 3N1K|1|B | DNA 32-mer cERE32 | Crystal Structure of a StWhy2-cERE32 complex | X-ray diffraction | 2.702 | 9 | 2010-08-11 | ||||
| 35 | 3G3C|1|H+ 3G3C|1|I | 5'-D(*CP*GP*TP*AP*(UPS)P*TP*AP*CP*G)-3', 5'-D(*CP*GP*TP*AP*CP*TP*AP*CP*G)-3' | Mth0212 (WT) in complex with a 6bp dsDNA containing a single one nucleotide long 3'-overhang | X-ray diffraction | 3.04 | 14 | 2010-03-09 | ||||
| 36 | 3N1J|1|B | DNA 32-mer dT32 | Crystal structure of a StWhy2-dT32 complex | X-ray diffraction | 2.65 | 9 | 2010-08-11 | ||||
| 37 | 1DE9|1|W+ 1DE9|1|V | 5'-d(*GP*AP*TP*CP*GP*GP*TP*AP*G)-3', 5'-d(P*(3DR)P*GP*AP*TP*C)-3' | HUMAN APE1 ENDONUCLEASE WITH BOUND ABASIC DNA AND MN2+ ION | X-ray diffraction | 3 | 14 | 2000-02-02 | ||||
| 38 | 3N1L|1|B | DNA 32-mer rcERE32 | Crystal Structure of a StWhy2-rcERE32 complex | X-ray diffraction | 2.35 | 9 | 2010-08-11 | ||||
| 39 | 1PH2|1|D | 5'-D(*GP*GP*GP*GP*TP*TP*TP*TP*G)-3' | CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG | X-ray diffraction | 3.1 | 9 | 2003-06-17 | ||||
| 40 | 3H15|1|B | 5'-D(*CP*CP*CP*CP*CP*CP*CP*CP*C)-3' | Crystal structure of replication initiation factor MCM10-ID bound to ssDNA | X-ray diffraction | 2.72 | 3 | 2009-07-14 | ||||
| 41 | 2XHB|1|E | 5'-D(*AP*AP*AP*AP*AP*AP*AP*AP*A)-3' | Crystal structure of DNA polymerase from Thermococcus gorgonarius in complex with hypoxanthine-containing DNA | X-ray diffraction | 2.72 | 9 | 2010-07-21 | ||||
| 42 | 1RXV|1|C | 5'-d(*T*pA*pG*pC*pA*pT*pC*pG*pG) | Crystal Structure of A. Fulgidus FEN-1 bound to DNA | X-ray diffraction | 2.5 | 2 | 2004-01-27 | ||||
| 43 | 1RXV|1|D | 5'-d(*T*pA*pG*pC*pA*pT*pC*pG*pG) | Crystal Structure of A. Fulgidus FEN-1 bound to DNA | X-ray diffraction | 2.5 | 2 | 2004-01-27 | ||||
| 44 | 3G3Y|1|I | 5'-D(*CP*GP*TP*AP*(UPS)P*TP*AP*CP*G)-3' | Mth0212 in complex with ssDNA in space group P32 | X-ray diffraction | 2.5 | 5 | 2010-03-09 | ||||
| 45 | 479D|1|A+ 479D|1|B | DNA (5'-D(*CP*TP*CP*TP*TP*CP*TP*TP*C)-3'), RNA (5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*G)-3') | CRYSTAL STRUCTURE A DNA:RNA HYBRID DUPLEX, A DYNAMIC MODEL FOR RNASE H RECOGNITION | X-ray diffraction | 1.9 | 18 | 2000-05-15 | ||||
| 46 | 421D|1|A+ 421D|1|B | DNA (5'-D(*TP*TP*CP*TP*TP*(CBR)P*TP*TP*C)-3'), RNA (5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*A)-3') | 5'-D(*TP*TP*CP*TP*TP*(BRO)CP*TP*TP*C)-3', 5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*A)-3' | X-ray diffraction | 1.8 | 18 | 1999-01-05 | ||||
| 47 | 2DQP|1|A+ 2DQP|1|B | DNA (5'-D(*DCP*(OMU)P*DCP*DTP*(OMU)P*DCP*DTP*DTP*DC)-3'), RNA (5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*G)-3') | Structural analyses of DNA:DNA and RNA:DNA duplexes containing 5-(N-aminohexyl)carbamoyl modified uridines | X-ray diffraction | 2.1 | 18 | 2007-04-17 | ||||
| 48 | 2DQO|1|A+ 2DQO|1|B | DNA (5'-D(*DCP*(OMU)P*DCP*DTP*(OMU)P*DCP*DTP*DTP*DC)-3'), RNA (5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*G)-3') | Crystal Structure of d(CXCTXCTTC):r(gaagaagag) Where X is 5-(N-aminohexyl)carbamoyl-2'-O-methyluridine | X-ray diffraction | 2.3 | 18 | 2007-04-17 | ||||
| 49 | 2DQQ|1|A+ 2DQQ|1|B | DNA (5'-D(*DCP*(OMU)P*DCP*DTP*(OMU)P*DCP*DTP*DTP*DC)-3'), RNA (5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*G)-3') | Crystal Structure of d(CXCTXCTTC):r(gaagaagag) Where X is 5-(N-aminohexyl)carbamoyl-2'-O-methyluridine | X-ray diffraction | 2 | 18 | 2007-04-17 | ||||
| 50 | 208D|1|A+ 208D|1|B | DNA (5'-D(*GP*CP*GP*AP*AP*TP*TP*CP*G)-3') | HIGH-RESOLUTION STRUCTURE OF A DNA HELIX FORMING (C.G)*G BASE TRIPLETS | X-ray diffraction | 2.05 | 18 | 1995-09-15 | ||||
| 51 | 376D|1|A | DNA (5'-D(*GP*(CBR)P*GP*AP*AP*AP*GP*CP*T)-3') | A ZIPPER-LIKE DNA DUPLEX D(GCGAAAGCT) | X-ray diffraction | 2.1 | 9 | 1999-10-26 | ||||
| 52 | 1IXJ|1|A | 5'-D(*GP*CP*GP*AP*AP*AP*GP*CP*T)-3' | Crystal Structure of d(GCGAAAGCT) Containing Parallel-stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base pairs | X-ray diffraction | 2.5 | 9 | 2002-12-11 | ||||
| 53 | 253D|1|A | DNA (5'-D(*GP*CP*GP*TP*AP*CP*GP*CP*G)-3') | CRYSTAL STRUCTURE OF THE B-DNA NONAMER D(GCGTACGCG) WITH A NOVEL D[G*(G.C)] BASE-TRIPLET INVOLVING THE MINOR GROOVE | X-ray diffraction | 2.2 | 9 | 1996-04-15 | ||||
| 54 | 1Z1C|1|C | 5'-D(*AP*CP*AP*CP*CP*AP*AP*AP*A)-3' | Structural Determinants of Tissue Tropism and In Vivo Pathogenicity for the Parvovirus Minute virus of Mice | X-ray diffraction | 3.5 | 9 | 2005-09-06 | ||||
| 55 | 1IJS|1|N | DNA (5'-D(*CP*CP*AP*CP*CP*CP*CP*AP*A)-3') | Canine parvovirus | CPV (STRAIN D) mutant A300D, complex (VIRAL COAT/DNA), VP2, PH=7.5, T=4 DEGREES C | X-ray diffraction | 3.25 | 9 | 1996-12-23 | |||
| 56 | 1DN6|1|A+ 1DN6|1|B | DNA (5'-D(*CP*TP*CP*CP*CP*AP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*TP*GP*GP*GP*AP*G)-3') | THE CRYSTAL STRUCTURE OF D(GGATGGGAG). AN ESSENTIAL PART OF THE BINDING SITE FOR TRANSCRIPTION FACTOR IIIA | X-ray diffraction | 3 | 18 | 1988-01-16 |
Release history
| Release | 0.6 |
|---|---|
| Date | 2011-03-05 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
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Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
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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 | 1Z1C|1|C | Structural Determinants of Tissue Tropism and In Vivo Pathogenicity for the Parvovirus Minute virus of Mice | X-RAY DIFFRACTION | 3.5 | 9 | structural,virus | ||
| 2 | 1IJS|1|N | CPV (STRAIN D) mutant A300D, complex (VIRAL COAT/DNA), VP2, PH=7.5, T=4 DEGREES C | X-RAY DIFFRACTION | 3.25 | 9 | structural,virus | ||
| 3 | 3G3Y|1|I | Mth0212 in complex with ssDNA in space group P32 | X-RAY DIFFRACTION | 2.5 | 5 | enzyme,hydrolase,nuclease | ||
| 4 | 1PH2|1|D | CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG | X-RAY DIFFRACTION | 3.1 | 9 | quadruplex,structure | chromatin,structural,telomere | |
| 5 | 1MNV|1|A+ 1MNV|1|B | Actinomycin D binding to ATGCTGCAT | X-RAY DIFFRACTION | 2.6 | 18 | double helix,structure | ||
| 6 | 1UE2|1|A | Crystal structure of d(GC38GAAAGCT) | X-RAY DIFFRACTION | 1.4 | 9 | NAKB_NA_annotation | NAKB_protein_annotation | |
| 7 | 376D|1|A | A ZIPPER-LIKE DNA DUPLEX D(GCGAAAGCT) | X-RAY DIFFRACTION | 2.1 | 9 | NAKB_NA_annotation | NAKB_protein_annotation | |
| 8 | 2W35|1|C | Structures of endonuclease V with DNA reveal initiation of deaminated adenine repair | X-RAY DIFFRACTION | 2.15 | 4 | enzyme,hydrolase,nuclease | ||
| 9 | 2W35|1|F+ 2W35|1|G | Structures of endonuclease V with DNA reveal initiation of deaminated adenine repair | X-RAY DIFFRACTION | 2.15 | 13 | enzyme,hydrolase,nuclease | ||
| 10 | 1DE9|1|Z+ 1DE9|1|Y | HUMAN APE1 ENDONUCLEASE WITH BOUND ABASIC DNA AND MN2+ ION | X-RAY DIFFRACTION | 3 | 14 | enzyme,hydrolase,lyase,nuclease | ||
| 11 | 253D|1|A | CRYSTAL STRUCTURE OF THE B-DNA NONAMER D(GCGTACGCG) WITH A NOVEL D[G*(G.C)] BASE-TRIPLET INVOLVING THE MINOR GROOVE | X-RAY DIFFRACTION | 2.2 | 9 | B-form double helix,double helix,structure | ||
| 12 | 1RXW|1|C+ 1RXW|1|B | Crystal structure of A. fulgidus FEN-1 bound to DNA | X-RAY DIFFRACTION | 2 | 15 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease,regulatory,transcription | |
| 13 | 3OQG|1|C+ 3OQG|1|D | Restriction endonuclease HPY188I in complex with substrate DNA | X-RAY DIFFRACTION | 1.75 | 18 | double helix,structure | enzyme,hydrolase,nuclease | |
| 14 | 1DE9|1|W+ 1DE9|1|V | HUMAN APE1 ENDONUCLEASE WITH BOUND ABASIC DNA AND MN2+ ION | X-RAY DIFFRACTION | 3 | 14 | enzyme,hydrolase,lyase,nuclease | ||
| 15 | 3IMB|1|K+ 3IMB|1|L | Alternative binding mode of restriction endonuclease BcnI to cognate DNA | X-RAY DIFFRACTION | 1.89 | 18 | double helix,structure | enzyme,hydrolase,nuclease | |
| 16 | 3IMB|1|G+ 3IMB|1|H | Alternative binding mode of restriction endonuclease BcnI to cognate DNA | X-RAY DIFFRACTION | 1.89 | 18 | double helix,structure | enzyme,hydrolase,nuclease | |
| 17 | 3IMB|1|E+ 3IMB|1|F | Alternative binding mode of restriction endonuclease BcnI to cognate DNA | X-RAY DIFFRACTION | 1.89 | 18 | double helix,structure | enzyme,hydrolase,nuclease | |
| 18 | 3IMB|1|I+ 3IMB|1|J | Alternative binding mode of restriction endonuclease BcnI to cognate DNA | X-RAY DIFFRACTION | 1.89 | 18 | double helix,structure | enzyme,hydrolase,nuclease | |
| 19 | 3G3C|1|H+ 3G3C|1|I | Mth0212 (WT) in complex with a 6bp dsDNA containing a single one nucleotide long 3'-overhang | X-RAY DIFFRACTION | 3.04 | 14 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 20 | 3G4T|1|H+ 3G4T|1|I | Mth0212 (WT) in complex with a 7bp dsDNA | X-RAY DIFFRACTION | 2.64 | 14 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 21 | 3G00|1|H+ 3G00|1|I | Mth0212 in complex with a 9bp blunt end dsDNA at 1.7 Angstrom | X-RAY DIFFRACTION | 1.74 | 18 | B-form double helix,double helix,feature,mispair,structure | enzyme,hydrolase,nuclease | |
| 22 | 1XJX|1|A+ 1XJX|1|B | The crystal structures of the DNA binding sites of the RUNX1 transcription factor | X-RAY DIFFRACTION | 1.7 | 18 | A-form double helix,double helix,structure | ||
| 23 | 3OGD|1|B+ 3OGD|1|C | AlkA Undamaged DNA Complex: Interrogation of a G*:C base pair | X-RAY DIFFRACTION | 2.8 | 18 | B-form double helix,double helix,structure | enzyme,hydrolase | |
| 24 | 1ENN|1|A+ 1ENN|1|B | SOLVENT ORGANIZATION IN AN OLIGONUCLEOTIDE CRYSTAL: THE STRUCTURE OF D(GCGAATTCG)2 AT ATOMIC RESOLUTION | X-RAY DIFFRACTION | 0.89 | 18 | B-form double helix,double helix,structure | ||
| 25 | 208D|1|A+ 208D|1|B | HIGH-RESOLUTION STRUCTURE OF A DNA HELIX FORMING (C.G)*G BASE TRIPLETS | X-RAY DIFFRACTION | 2.05 | 18 | B-form double helix,double helix,structure | ||
| 26 | 3HQF|1|B+ 3HQF|1|C | Crystal structure of restriction endonuclease EcoRII N-terminal effector-binding domain in complex with cognate DNA | X-RAY DIFFRACTION | 2.51 | 18 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 27 | 1XJY|1|A+ 1XJY|1|B | The crystal structures of the DNA binding sites of the RUNX1 transcription factor | X-RAY DIFFRACTION | 2 | 18 | A-form double helix,double helix,structure | ||
| 28 | 1DN6|1|A+ 1DN6|1|B | THE CRYSTAL STRUCTURE OF D(GGATGGGAG). AN ESSENTIAL PART OF THE BINDING SITE FOR TRANSCRIPTION FACTOR IIIA | X-RAY DIFFRACTION | 3 | 18 | double helix,structure | ||
| 29 | 3GV8|1|T+ 3GV8|1|P | Human DNA polymerase iota in complex with T template DNA and incoming dGTP | X-RAY DIFFRACTION | 2 | 16 | double helix,structure | enzyme,polymerase,transferase | |
| 30 | 3GV7|1|T+ 3GV7|1|P | Human DNA polymerase iota in complex with T template DNA and incoming dTTP | X-RAY DIFFRACTION | 2.2 | 16 | double helix,structure | enzyme,polymerase,transferase | |
| 31 | 3H4B|1|T+ 3H4B|1|P | Ternary complex of human DNA polymerase iota with template U/T and incoming dATP | X-RAY DIFFRACTION | 2.85 | 16 | enzyme,polymerase,transferase | ||
| 32 | 3H4D|1|T+ 3H4D|1|P | Ternary complex of human DNA polymerase iota with template U/T and incoming dGTP | X-RAY DIFFRACTION | 2.2 | 16 | double helix,structure | enzyme,polymerase,transferase | |
| 33 | 3H40|1|T+ 3H40|1|P | Binary complex of human DNA polymerase iota with template U/T | X-RAY DIFFRACTION | 2.3 | 16 | double helix,structure | enzyme,polymerase,transferase | |
| 34 | 2ALZ|1|T+ 2ALZ|1|P | Ternary Complex of hPoli with DNA and dCTP | X-RAY DIFFRACTION | 2.5 | 16 | enzyme,polymerase,transferase | ||
| 35 | 2DPJ|1|T+ 2DPJ|1|P | structure of hPoli with DNA and dTTP | X-RAY DIFFRACTION | 2.3 | 16 | enzyme,polymerase,transferase | ||
| 36 | 2DPI|1|T+ 2DPI|1|P | Ternary complex of hPoli with DNA and dCTP | X-RAY DIFFRACTION | 2.3 | 16 | enzyme,polymerase,transferase | ||
| 37 | 3HR3|1|A | Interplay of Structure, Hydration and Thermal Stability in Formacetal Modified Oligonucleotides: RNA May Tolerate Hydrophobic Modifications Better than DNA | X-RAY DIFFRACTION | 1.75 | 9 | A-form double helix,double helix,structure | ||
| 38 | 1IXJ|1|A | Crystal Structure of d(GCGAAAGCT) Containing Parallel-stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base pairs | X-RAY DIFFRACTION | 2.5 | 9 | NAKB_NA_annotation | NAKB_protein_annotation | |
| 39 | 2FQZ|1|E+ 2FQZ|1|F | Metal-depleted Ecl18kI in complex with uncleaved DNA | X-RAY DIFFRACTION | 2 | 18 | B-form double helix,double helix,structure | enzyme,hydrolase | |
| 40 | 2GB7|1|G+ 2GB7|1|H | Metal-depleted Ecl18kI in complex with uncleaved, modified DNA | X-RAY DIFFRACTION | 1.7 | 18 | B-form double helix,double helix,structure | enzyme,hydrolase | |
| 41 | 2FQZ|1|G+ 2FQZ|1|H | Metal-depleted Ecl18kI in complex with uncleaved DNA | X-RAY DIFFRACTION | 2 | 18 | B-form double helix,double helix,structure | enzyme,hydrolase | |
| 42 | 2GB7|1|E+ 2GB7|1|F | Metal-depleted Ecl18kI in complex with uncleaved, modified DNA | X-RAY DIFFRACTION | 1.7 | 18 | B-form double helix,double helix,structure | enzyme,hydrolase | |
| 43 | 3N1L|1|B | Crystal Structure of a StWhy2-rcERE32 complex | X-RAY DIFFRACTION | 2.35 | 9 | DNA replication/repair,regulatory | ||
| 44 | 3N1K|1|B | Crystal Structure of a StWhy2-cERE32 complex | X-RAY DIFFRACTION | 2.702 | 9 | DNA replication/repair,regulatory | ||
| 45 | 3N1I|1|B | Crystal Structure of a StWhy2-ERE32 complex | X-RAY DIFFRACTION | 2.2 | 9 | DNA replication/repair,regulatory | ||
| 46 | 3N1J|1|B | Crystal structure of a StWhy2-dT32 complex | X-RAY DIFFRACTION | 2.65 | 9 | DNA replication/repair,regulatory | ||
| 47 | 3H15|1|B | Crystal structure of replication initiation factor MCM10-ID bound to ssDNA | X-RAY DIFFRACTION | 2.72 | 3 | DNA replication/repair,regulatory | ||
| 48 | 421D|1|A+ 421D|1|B | 5'-D(*TP*TP*CP*TP*TP*(BRO)CP*TP*TP*C)-3', 5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*A)-3' | X-RAY DIFFRACTION | 1.8 | 18 | A-form double helix,double helix,structure | ||
| 49 | 1RXV|1|D | Crystal Structure of A. Fulgidus FEN-1 bound to DNA | X-RAY DIFFRACTION | 2.5 | 2 | enzyme,hydrolase,nuclease,regulatory,transcription | ||
| 50 | 2DQQ|1|A+ 2DQQ|1|B | Crystal Structure of d(CXCTXCTTC):r(gaagaagag) Where X is 5-(N-aminohexyl)carbamoyl-2'-O-methyluridine | X-RAY DIFFRACTION | 2 | 18 | A-form double helix,double helix,structure | ||
| 51 | 2DQP|1|A+ 2DQP|1|B | Structural analyses of DNA:DNA and RNA:DNA duplexes containing 5-(N-aminohexyl)carbamoyl modified uridines | X-RAY DIFFRACTION | 2.1 | 18 | A-form double helix,double helix,structure | ||
| 52 | 2DQO|1|A+ 2DQO|1|B | Crystal Structure of d(CXCTXCTTC):r(gaagaagag) Where X is 5-(N-aminohexyl)carbamoyl-2'-O-methyluridine | X-RAY DIFFRACTION | 2.3 | 18 | A-form double helix,double helix,structure | ||
| 53 | 479D|1|A+ 479D|1|B | CRYSTAL STRUCTURE A DNA:RNA HYBRID DUPLEX, A DYNAMIC MODEL FOR RNASE H RECOGNITION | X-RAY DIFFRACTION | 1.9 | 18 | A-form double helix,double helix,structure | ||
| 54 | 1RXV|1|C | Crystal Structure of A. Fulgidus FEN-1 bound to DNA | X-RAY DIFFRACTION | 2.5 | 2 | enzyme,hydrolase,nuclease,regulatory,transcription | ||
| 55 | 3KNC|1|A+ 3KNC|1|B | Crystal structure of the CeNA-RNA hybrid octamer ce(GCGTAGCG):r(CGCUACGC) | X-RAY DIFFRACTION | 2.5 | 17 | A-form double helix,double helix,structure | ||
| 56 | 2XHB|1|E | Crystal structure of DNA polymerase from Thermococcus gorgonarius in complex with hypoxanthine-containing DNA | X-RAY DIFFRACTION | 2.72 | 9 | 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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