#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
11ENN|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 RESOLUTIONX-ray diffraction0.89182000-05-03
21XJY|1|A+ 1XJY|1|B5'-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 factorX-ray diffraction2182005-03-15
33OQG|1|C+ 3OQG|1|DDNA 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 DNAX-ray diffraction1.75182010-10-20
43G00|1|H+ 3G00|1|I5'-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 AngstromX-ray diffraction1.74182010-03-09
51XJX|1|A+ 1XJX|1|B5'-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 factorX-ray diffraction1.7182005-03-15
61UE2|1|A5'-D(*GP*(C38)P*GP*AP*AP*AP*GP*CP*T)-3'Crystal structure of d(GC38GAAAGCT)X-ray diffraction1.492004-01-13
72GB7|1|E+ 2GB7|1|FDNA STRAND 1, DNA STRAND 2Metal-depleted Ecl18kI in complex with uncleaved, modified DNAX-ray diffraction1.7182006-06-20
82GB7|1|G+ 2GB7|1|HDNA STRAND 1, DNA STRAND 2Metal-depleted Ecl18kI in complex with uncleaved, modified DNAX-ray diffraction1.7182006-06-20
93GV8|1|T+ 3GV8|1|P5'-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 dGTPX-ray diffraction2162009-06-02
103IMB|1|E+ 3IMB|1|F5'-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 DNAX-ray diffraction1.89182010-08-11
113IMB|1|G+ 3IMB|1|H5'-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 DNAX-ray diffraction1.89182010-08-11
123IMB|1|I+ 3IMB|1|J5'-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 DNAX-ray diffraction1.89182010-08-11
133IMB|1|K+ 3IMB|1|L5'-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 DNAX-ray diffraction1.89182010-08-11
142FQZ|1|E+ 2FQZ|1|FDNA STRAND 1, DNA STRAND 2Metal-depleted Ecl18kI in complex with uncleaved DNAX-ray diffraction2182006-06-20
152FQZ|1|G+ 2FQZ|1|HDNA STRAND 1, DNA STRAND 2Metal-depleted Ecl18kI in complex with uncleaved DNAX-ray diffraction2182006-06-20
163HQF|1|B+ 3HQF|1|C5'-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 DNAX-ray diffraction2.51182009-09-22
173GV7|1|T+ 3GV7|1|P5'-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 dTTPX-ray diffraction2.2162009-06-02
182W35|1|C5'-D(*AP*TP*GP*CP*GP*AP*CP*IP*GP)-3'synthetic constructStructures of endonuclease V with DNA reveal initiation of deaminated adenine repairX-ray diffraction2.1542009-01-20
192W35|1|F5'-D(*AP*TP*GP*CP*GP*AP*CP*IP*GP)-3'synthetic constructStructures of endonuclease V with DNA reveal initiation of deaminated adenine repairX-ray diffraction2.1502009-01-20
203N1I|1|BDNA 32-mer ERE32Crystal Structure of a StWhy2-ERE32 complexX-ray diffraction2.292010-08-11
213HR3|1|A5'-D(*GP*CP*GP*(US4)P*(OMU))P*AP*CP*GP*C)-3'synthetic constructInterplay of Structure, Hydration and Thermal Stability in Formacetal Modified Oligonucleotides: RNA May Tolerate Hydrophobic Modifications Better than DNAX-ray diffraction1.7592009-10-27
223H15|1|B5'-D(*CP*CP*CP*CP*CP*CP*CP*CP*C)-3'Crystal structure of replication initiation factor MCM10-ID bound to ssDNAX-ray diffraction2.7232009-07-14
233H4D|1|T+ 3H4D|1|P5'-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 dGTPX-ray diffraction2.2162009-07-21
241RXW|1|C+ 1RXW|1|B5'-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 DNAX-ray diffraction2152004-01-27
253N1L|1|BDNA 32-mer rcERE32Crystal Structure of a StWhy2-rcERE32 complexX-ray diffraction2.3592010-08-11
263N1J|1|BDNA 32-mer dT32Crystal structure of a StWhy2-dT32 complexX-ray diffraction2.6592010-08-11
272DPJ|1|T+ 2DPJ|1|P5'-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 dTTPX-ray diffraction2.3162006-07-04
282ALZ|1|T+ 2ALZ|1|P5'-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 dCTPX-ray diffraction2.5162005-10-25
293H40|1|T+ 3H40|1|P5'-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/TX-ray diffraction2.3162009-07-21
303G2D|1|H5'-D(*CP*GP*CP*G*CP*AP*GP*GP*C)-3'Complex of Mth0212 and a 4 bp dsDNA with 3'-overhangX-ray diffraction2.302010-03-09
313N1K|1|BDNA 32-mer cERE32Crystal Structure of a StWhy2-cERE32 complexX-ray diffraction2.70292010-08-11
322DPI|1|T+ 2DPI|1|P5'-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 dCTPX-ray diffraction2.3162006-07-04
333OGD|1|B+ 3OGD|1|C5'-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 pairX-ray diffraction2.8182010-09-15
343G3Y|1|I5'-D(*CP*GP*TP*AP*(UPS)P*TP*AP*CP*G)-3'Mth0212 in complex with ssDNA in space group P32X-ray diffraction2.552010-03-09
353G4T|1|H+ 3G4T|1|I5'-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 dsDNAX-ray diffraction2.64142010-03-09
362XHB|1|E5'-D(*AP*AP*AP*AP*AP*AP*AP*AP*A)-3'Crystal structure of DNA polymerase from Thermococcus gorgonarius in complex with hypoxanthine-containing DNAX-ray diffraction2.7292010-07-21
373H4B|1|T+ 3H4B|1|P5'-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 dATPX-ray diffraction2.85162009-07-21
381RXV|1|C5'-d(*T*pA*pG*pC*pA*pT*pC*pG*pG)Crystal Structure of A. Fulgidus FEN-1 bound to DNAX-ray diffraction2.522004-01-27
391RXV|1|D5'-d(*T*pA*pG*pC*pA*pT*pC*pG*pG)Crystal Structure of A. Fulgidus FEN-1 bound to DNAX-ray diffraction2.522004-01-27
40208D|1|A+ 208D|1|BDNA (5'-D(*GP*CP*GP*AP*AP*TP*TP*CP*G)-3')HIGH-RESOLUTION STRUCTURE OF A DNA HELIX FORMING (C.G)*G BASE TRIPLETSX-ray diffraction2.05181995-09-15
41376D|1|ADNA (5'-D(*GP*(CBR)P*GP*AP*AP*AP*GP*CP*T)-3')A ZIPPER-LIKE DNA DUPLEX D(GCGAAAGCT)X-ray diffraction2.191999-10-26
42253D|1|ADNA (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 GROOVEX-ray diffraction2.291996-04-15
431DN6|1|A+ 1DN6|1|BDNA (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 IIIAX-ray diffraction3181988-01-16

Release history

Release0.10.20.30.40.5
Date2011-02-052011-02-122011-02-162011-02-192011-02-26

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Children

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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.

#SViewPDBTitleMethodResolution#NTsNAKB NA annotationNAKB protein annotation
13G3Y|1|IMth0212 in complex with ssDNA in space group P32X-RAY DIFFRACTION2.55enzyme,hydrolase,nuclease
21UE2|1|ACrystal structure of d(GC38GAAAGCT)X-RAY DIFFRACTION1.49NAKB_NA_annotationNAKB_protein_annotation
3376D|1|AA ZIPPER-LIKE DNA DUPLEX D(GCGAAAGCT)X-RAY DIFFRACTION2.19NAKB_NA_annotationNAKB_protein_annotation
42W35|1|CStructures of endonuclease V with DNA reveal initiation of deaminated adenine repairX-RAY DIFFRACTION2.154enzyme,hydrolase,nuclease
52W35|1|FStructures of endonuclease V with DNA reveal initiation of deaminated adenine repairX-RAY DIFFRACTION2.150enzyme,hydrolase,nuclease
63OQG|1|C+ 3OQG|1|DRestriction endonuclease HPY188I in complex with substrate DNAX-RAY DIFFRACTION1.7518double helix,structureenzyme,hydrolase,nuclease
73IMB|1|E+ 3IMB|1|FAlternative binding mode of restriction endonuclease BcnI to cognate DNAX-RAY DIFFRACTION1.8918double helix,structureenzyme,hydrolase,nuclease
83IMB|1|I+ 3IMB|1|JAlternative binding mode of restriction endonuclease BcnI to cognate DNAX-RAY DIFFRACTION1.8918double helix,structureenzyme,hydrolase,nuclease
93IMB|1|G+ 3IMB|1|HAlternative binding mode of restriction endonuclease BcnI to cognate DNAX-RAY DIFFRACTION1.8918double helix,structureenzyme,hydrolase,nuclease
103IMB|1|K+ 3IMB|1|LAlternative binding mode of restriction endonuclease BcnI to cognate DNAX-RAY DIFFRACTION1.8918double helix,structureenzyme,hydrolase,nuclease
113HQF|1|B+ 3HQF|1|CCrystal structure of restriction endonuclease EcoRII N-terminal effector-binding domain in complex with cognate DNAX-RAY DIFFRACTION2.5118B-form double helix,double helix,structureenzyme,hydrolase,nuclease
12208D|1|A+ 208D|1|BHIGH-RESOLUTION STRUCTURE OF A DNA HELIX FORMING (C.G)*G BASE TRIPLETSX-RAY DIFFRACTION2.0518B-form double helix,double helix,structure
131ENN|1|A+ 1ENN|1|BSOLVENT ORGANIZATION IN AN OLIGONUCLEOTIDE CRYSTAL: THE STRUCTURE OF D(GCGAATTCG)2 AT ATOMIC RESOLUTIONX-RAY DIFFRACTION0.8918B-form double helix,double helix,structure
142DPI|1|T+ 2DPI|1|PTernary complex of hPoli with DNA and dCTPX-RAY DIFFRACTION2.316enzyme,polymerase,transferase
152DPJ|1|T+ 2DPJ|1|Pstructure of hPoli with DNA and dTTPX-RAY DIFFRACTION2.316enzyme,polymerase,transferase
162ALZ|1|T+ 2ALZ|1|PTernary Complex of hPoli with DNA and dCTPX-RAY DIFFRACTION2.516enzyme,polymerase,transferase
173H4B|1|T+ 3H4B|1|PTernary complex of human DNA polymerase iota with template U/T and incoming dATPX-RAY DIFFRACTION2.8516enzyme,polymerase,transferase
183H40|1|T+ 3H40|1|PBinary complex of human DNA polymerase iota with template U/TX-RAY DIFFRACTION2.316double helix,structureenzyme,polymerase,transferase
193H4D|1|T+ 3H4D|1|PTernary complex of human DNA polymerase iota with template U/T and incoming dGTPX-RAY DIFFRACTION2.216double helix,structureenzyme,polymerase,transferase
203GV8|1|T+ 3GV8|1|PHuman DNA polymerase iota in complex with T template DNA and incoming dGTPX-RAY DIFFRACTION216double helix,structureenzyme,polymerase,transferase
213GV7|1|T+ 3GV7|1|PHuman DNA polymerase iota in complex with T template DNA and incoming dTTPX-RAY DIFFRACTION2.216double helix,structureenzyme,polymerase,transferase
221XJY|1|A+ 1XJY|1|BThe crystal structures of the DNA binding sites of the RUNX1 transcription factorX-RAY DIFFRACTION218A-form double helix,double helix,structure
231DN6|1|A+ 1DN6|1|BTHE CRYSTAL STRUCTURE OF D(GGATGGGAG). AN ESSENTIAL PART OF THE BINDING SITE FOR TRANSCRIPTION FACTOR IIIAX-RAY DIFFRACTION318double helix,structure
243OGD|1|B+ 3OGD|1|CAlkA Undamaged DNA Complex: Interrogation of a G*:C base pairX-RAY DIFFRACTION2.818B-form double helix,double helix,structureenzyme,hydrolase
251XJX|1|A+ 1XJX|1|BThe crystal structures of the DNA binding sites of the RUNX1 transcription factorX-RAY DIFFRACTION1.718A-form double helix,double helix,structure
263G00|1|H+ 3G00|1|IMth0212 in complex with a 9bp blunt end dsDNA at 1.7 AngstromX-RAY DIFFRACTION1.7418B-form double helix,double helix,feature,mispair,structureenzyme,hydrolase,nuclease
273G4T|1|H+ 3G4T|1|IMth0212 (WT) in complex with a 7bp dsDNAX-RAY DIFFRACTION2.6414B-form double helix,double helix,structureenzyme,hydrolase,nuclease
281RXW|1|C+ 1RXW|1|BCrystal structure of A. fulgidus FEN-1 bound to DNAX-RAY DIFFRACTION215B-form double helix,double helix,structureenzyme,hydrolase,nuclease,regulatory,transcription
29253D|1|ACRYSTAL STRUCTURE OF THE B-DNA NONAMER D(GCGTACGCG) WITH A NOVEL D[G*(G.C)] BASE-TRIPLET INVOLVING THE MINOR GROOVEX-RAY DIFFRACTION2.29B-form double helix,double helix,structure
303G2D|1|HComplex of Mth0212 and a 4 bp dsDNA with 3'-overhangX-RAY DIFFRACTION2.30B-form double helix,double helix,structureenzyme,hydrolase,nuclease
313HR3|1|AInterplay of Structure, Hydration and Thermal Stability in Formacetal Modified Oligonucleotides: RNA May Tolerate Hydrophobic Modifications Better than DNAX-RAY DIFFRACTION1.759A-form double helix,double helix,structure
322FQZ|1|E+ 2FQZ|1|FMetal-depleted Ecl18kI in complex with uncleaved DNAX-RAY DIFFRACTION218B-form double helix,double helix,structureenzyme,hydrolase
332GB7|1|E+ 2GB7|1|FMetal-depleted Ecl18kI in complex with uncleaved, modified DNAX-RAY DIFFRACTION1.718B-form double helix,double helix,structureenzyme,hydrolase
342FQZ|1|G+ 2FQZ|1|HMetal-depleted Ecl18kI in complex with uncleaved DNAX-RAY DIFFRACTION218B-form double helix,double helix,structureenzyme,hydrolase
352GB7|1|G+ 2GB7|1|HMetal-depleted Ecl18kI in complex with uncleaved, modified DNAX-RAY DIFFRACTION1.718B-form double helix,double helix,structureenzyme,hydrolase
363N1L|1|BCrystal Structure of a StWhy2-rcERE32 complexX-RAY DIFFRACTION2.359DNA replication/repair,regulatory
373N1K|1|BCrystal Structure of a StWhy2-cERE32 complexX-RAY DIFFRACTION2.7029DNA replication/repair,regulatory
383N1I|1|BCrystal Structure of a StWhy2-ERE32 complexX-RAY DIFFRACTION2.29DNA replication/repair,regulatory
393N1J|1|BCrystal structure of a StWhy2-dT32 complexX-RAY DIFFRACTION2.659DNA replication/repair,regulatory
403H15|1|BCrystal structure of replication initiation factor MCM10-ID bound to ssDNAX-RAY DIFFRACTION2.723DNA replication/repair,regulatory
411RXV|1|CCrystal Structure of A. Fulgidus FEN-1 bound to DNAX-RAY DIFFRACTION2.52enzyme,hydrolase,nuclease,regulatory,transcription
422XHB|1|ECrystal structure of DNA polymerase from Thermococcus gorgonarius in complex with hypoxanthine-containing DNAX-RAY DIFFRACTION2.729enzyme,polymerase,transferase
431RXV|1|DCrystal Structure of A. Fulgidus FEN-1 bound to DNAX-RAY DIFFRACTION2.52enzyme,hydrolase,nuclease,regulatory,transcription

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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