Equivalence class DNA_4.0_88281.1 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 2ITL|1|C+ 2ITL|1|W (rep) | 24-nt PEN element of the SV40 DNA origin | The origin binding domain of the SV40 large T antigen bound to the functional pen palindrome DNA (23 bp) | X-ray diffraction | 1.65 | 48 | 2006-12-12 | ||||
| 2 | 2VBO|1|C+ 2VBO|1|E | 5'-D(*TP*CP*TP*GP*CP*CP*TP*TP*TP*TP *TP*TP*GP*AP*AP*GP*GP*AP*TP*CP*CP*TP*AP*A)-3', 5'-D(*TP*TP*AP*GP*GP*AP*TP*CP*CP*TP *TP*CP*AP*AP*AP*AP*AP*AP*GP*GP*CP*AP*GP*A)-3' | Molecular basis of human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers | X-ray diffraction | 1.8 | 48 | 2008-10-28 | ||||
| 3 | 2VBJ|1|C+ 2VBJ|1|E | 5'-D(*TP*CP*TP*GP*CP*CP*TP*TP*TP*TP *TP*TP*GP*AP*AP*GP*GP*AP*TP*CP*CP*TP*AP*A)-3', 5'-D(*TP*TP*AP*GP*GP*AP*TP*CP*CP*TP *TP*CP*AP*AP*AP*AP*AP*AP*GP*GP*CP*AP*GP*A)-3' | synthetic construct | Molecular basis of human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers | X-ray diffraction | 1.95 | 48 | 2008-10-28 | |||
| 4 | 3MXB|1|C+ 3MXB|1|E | DNA (5'-D(*TP*CP*TP*GP*GP*CP*TP*GP*AP*GP*GP*TP*AP*CP*CP*TP*GP*AP*GP*AP*AP*CP*AP*A)-3'), DNA (5'-D(*TP*TP*GP*TP*TP*CP*TP*CP*AP*GP*GP*TP*AP*CP*CP*TP*CP*AP*GP*CP*CP*AP*GP*A)-3') | Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus | X-ray diffraction | 2.3 | 48 | 2010-10-06 | ||||
| 5 | 3MXB|1|T+ 3MXB|1|V | DNA (5'-D(*TP*CP*TP*GP*GP*CP*TP*GP*AP*GP*GP*TP*AP*CP*CP*TP*GP*AP*GP*AP*AP*CP*AP*A)-3'), DNA (5'-D(*TP*TP*GP*TP*TP*CP*TP*CP*AP*GP*GP*TP*AP*CP*CP*TP*CP*AP*GP*CP*CP*AP*GP*A)-3') | Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus | X-ray diffraction | 2.3 | 48 | 2010-10-06 | ||||
| 6 | 2XE0|1|C+ 2XE0|1|D | 24MER DNA | Homo sapiens | Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus | X-ray diffraction | 2.31 | 48 | 2010-09-29 | |||
| 7 | 2FLD|1|C+ 2FLD|1|D | 5'-D(*CP*GP*GP*AP*AP*CP*GP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*CP*TP*TP*CP*TP*GP*C)-3', 5'-D(*GP*CP*AP*GP*AP*AP*GP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*CP*GP*TP*TP*CP*CP*G)-3' | I-MsoI Re-Designed for Altered DNA Cleavage Specificity | X-ray diffraction | 2 | 48 | 2006-06-06 | ||||
| 8 | 3MX9|1|C+ 3MX9|1|D | DNA (5'-D(*TP*CP*TP*GP*GP*CP*TP*GP*AP*GP*GP*TP*AP*CP*CP*TP*GP*AP*GP*AP*AP*CP*AP*A)-3'), DNA (5'-D(*TP*TP*GP*TP*TP*CP*TP*CP*AP*GP*GP*TP*AP*CP*CP*TP*CP*AP*GP*CP*CP*AP*GP*A)-3') | Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus | X-ray diffraction | 2.6 | 48 | 2010-10-06 | ||||
| 9 | 2QNC|1|C+ 2QNC|1|D+ 2QNC|1|E+ 2QNC|1|F | DNA (5'-D(*DAP*DGP*DGP*DCP*DCP*DTP*DAP*DGP*DCP*DGP*DTP*DCP*DCP*DGP*DGP*DAP*DAP*DTP*DTP*DCP*DTP*DTP*DCP*DG)-3'), DNA (5'-D(*DCP*DAP*DCP*DAP*DTP*DCP*DGP*DAP*DTP*DGP*DGP*DAP*DGP*DCP*DCP*DGP*DCP*DTP*DAP*DGP*DGP*DCP*DCP*DT)-3'), DNA (5'-D(*DCP*DG*DAP*DAP*DGP*DAP*DAP*DTP*DTP*DCP*DCP*DGP*DGP*DAP*DTP*DTP*DAP*DGP*DGP*DGP*DAP*DTP*DCP*DC)-3'), DNA (5'-D(*DGP*DGP*DAP*DTP*DCP*DCP*DCP*DTP*DAP*DAP*DGP*DCP*DTP*DCP*DCP*DAP*DTP*DCP*DGP*DAP*DTP*DGP*DTP*DG)-3') | Crystal structure of T4 Endonuclease VII N62D mutant in complex with a DNA Holliday junction | X-ray diffraction | 3.1 | 93 | 2008-01-29 | ||||
| 10 | 2I3Q|1|C+ 2I3Q|1|D | 5'-D(*CP*GP*AP*AP*AP*CP*TP*GP*AP*CP*TP*CP*AP*CP*GP*TP*CP*GP*TP*TP*TP*TP*GP*C)-3', 5'-D(*GP*CP*AP*AP*AP*AP*CP*GP*AP*CP*GP*TP*GP*AP*GP*TP*CP*AP*GP*TP*TP*TP*CP*G)-3' | Q44V mutant of Homing Endonuclease I-CreI | X-ray diffraction | 2.3 | 48 | 2006-09-05 | ||||
| 11 | 1M5X|1|C+ 1M5X|1|D | 5'-D(*CP*GP*GP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*CP*TP*GP*C)-3', 5'-D(*GP*CP*AP*GP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*CP*CP*G)-3' | Crystal structure of the homing endonuclease I-MsoI bound to its DNA substrate | X-ray diffraction | 2.25 | 48 | 2003-06-03 | ||||
| 12 | 2I3P|1|C+ 2I3P|1|D | 5'-D(*CP*GP*AP*AP*AP*TP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*AP*TP*TP*TP*GP*C)-3', 5'-D(*GP*CP*AP*AP*AP*TP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*AP*TP*TP*TP*CP*G)-3' | K28R mutant of Homing Endonuclease I-CreI | X-ray diffraction | 2.3 | 48 | 2006-09-05 | ||||
| 13 | 2HVS|1|F+ 2HVS|1|G+ 2HVS|1|H | 5'-D(*AP*TP*TP*CP*CP*GP*AP*TP*AP*GP*TP*GP*GP*GP*GP*TP*CP*GP*CP*AP*AP*TP*TP*G)-3', 5'-D(*CP*AP*AP*TP*TP*GP*CP*GP*AP*C)-R(P*(OMC)P*C)-3', 5'-D(P*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*AP*T)-3' | Structure of T4 RNA Ligase 2 with Nicked 5'-Adenylated nucleic acid duplex containing a 2'-deoxyribonucleotide at the nick | X-ray diffraction | 2.5 | 48 | 2006-10-17 | ||||
| 14 | 3MIP|1|C+ 3MIP|1|D | DNA (5'-D(*CP*GP*GP*AP*GP*CP*GP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*CP*GP*CP*CP*TP*GP*C)-3'), DNA (5'-D(*GP*CP*AP*GP*GP*CP*GP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*CP*GP*CP*TP*CP*CP*G)-3') | I-MsoI re-designed for altered DNA cleavage specificity (-8GCG) | X-ray diffraction | 2.4 | 48 | 2010-05-19 | ||||
| 15 | 2HVS|1|C+ 2HVS|1|D+ 2HVS|1|E | 5'-D(*AP*TP*TP*CP*CP*GP*AP*TP*AP*GP*TP*GP*GP*GP*GP*TP*CP*GP*CP*AP*AP*TP*TP*G)-3', 5'-D(*CP*AP*AP*TP*TP*GP*CP*GP*AP*C)-R(P*(OMC)P*C)-3', 5'-D(P*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*AP*T)-3' | Structure of T4 RNA Ligase 2 with Nicked 5'-Adenylated nucleic acid duplex containing a 2'-deoxyribonucleotide at the nick | X-ray diffraction | 2.5 | 48 | 2006-10-17 | ||||
| 16 | 3FD2|1|B+ 3FD2|1|C | 5'-D(*CP*GP*GP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*CP*TP*GP*C)-3', 5'-D(*GP*CP*AP*GP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*CP*CP*G)-3' | synthetic construct | Crystal structure of mMsoI/DNA complex with calcium | X-ray diffraction | 2.69 | 48 | 2009-06-30 | |||
| 17 | 3MIS|1|C+ 3MIS|1|D | DNA (5'-D(*CP*GP*GP*AP*GP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*CP*CP*TP*GP*C)-3'), DNA (5'-D(*GP*CP*AP*GP*GP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*CP*TP*CP*CP*G)-3') | I-MsoI re-designed for altered DNA cleavage specificity (-8G) | X-ray diffraction | 2.3 | 48 | 2010-05-19 | ||||
| 18 | 3C0W|1|B+ 3C0W|1|C+ 3C0W|1|D | DNA (5'-D(*DAP*DCP*DGP*DCP*DTP*DAP*DGP*DGP*DGP*DAP*DTP*DAP*DAP*DCP*DAP*DGP*DGP*DGP*DTP*DAP*DAP*DTP*DAP*DC)-3'), DNA (5'-D(*DGP*DTP*DAP*DTP*DTP*DAP*DCP*DCP*DCP*DTP*DGP*DTP*DTP*DAP*DT)-3'), DNA (5'-D(P*DCP*DCP*DCP*DTP*DAP*DGP*DCP*DGP*DT)-3') | I-SceI in complex with a bottom nicked DNA substrate | X-ray diffraction | 2.2 | 48 | 2008-05-06 | ||||
| 19 | 2WJ0|1|C+ 2WJ0|1|D | HALF-JUNCTION | synthetic construct | Crystal structures of Holliday junction resolvases from Archaeoglobus fulgidus bound to DNA substrate | X-ray diffraction | 3.1 | 48 | 2009-05-26 | |||
| 20 | 3KO2|1|C+ 3KO2|1|D | 5'-D(*CP*GP*GP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*GP*TP*CP*TP*GP*C)-3', 5'-D(*GP*CP*AP*GP*AP*CP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*CP*CP*G)-3' | I-MsoI re-designed for altered DNA cleavage specificity (-7C) | X-ray diffraction | 2.9 | 48 | 2010-05-19 | ||||
| 21 | 2HVR|1|F+ 2HVR|1|H+ 2HVR|1|G | 5'-D(*AP*TP*TP*CP*CP*GP*AP*TP*AP*GP*TP*GP*GP*GP*GP*TP*CP*GP*CP*AP*AP*TP*TP*G)-3', 5'-D(*CP*AP*AP*TP*TP*GP*CP*GP*AP*C)-R(P*(OMC)P*C)-3', 5'-R(P*A)-D(P*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*AP*T)-3' | Structure of T4 RNA Ligase 2 with Nicked 5'-Adenylated nucleic acid duplex containing a 3'-deoxyribonucleotide at the nick | X-ray diffraction | 2.45 | 49 | 2006-10-17 | ||||
| 22 | 2HVR|1|C+ 2HVR|1|E+ 2HVR|1|D | 5'-D(*AP*TP*TP*CP*CP*GP*AP*TP*AP*GP*TP*GP*GP*GP*GP*TP*CP*GP*CP*AP*AP*TP*TP*G)-3', 5'-D(*CP*AP*AP*TP*TP*GP*CP*GP*AP*C)-R(P*(OMC)P*C)-3', 5'-R(P*A)-D(P*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*AP*T)-3' | Structure of T4 RNA Ligase 2 with Nicked 5'-Adenylated nucleic acid duplex containing a 3'-deoxyribonucleotide at the nick | X-ray diffraction | 2.45 | 49 | 2006-10-17 | ||||
| 23 | 3D71|1|M | BMR promoter DNA | synthetic construct | Crystal structure of E253Q BMRR bound to 22 base pair promoter site | X-ray diffraction | 2.8 | 23 | 2008-08-26 | |||
| 24 | 3KO2|1|H+ 3KO2|1|I | 5'-D(*CP*GP*GP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*GP*TP*CP*TP*GP*C)-3', 5'-D(*GP*CP*AP*GP*AP*CP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*CP*CP*G)-3' | I-MsoI re-designed for altered DNA cleavage specificity (-7C) | X-ray diffraction | 2.9 | 48 | 2010-05-19 | ||||
| 25 | 2QSG|1|W+ 2QSG|1|Y | damaged strand of the CPD-mismatch DNA, native strand of the CPD-mismatch DNA | Crystal structure of Rad4-Rad23 bound to a UV-damaged DNA | X-ray diffraction | 3.1 | 46 | 2007-10-02 | ||||
| 26 | 3D6Z|1|B | BMR promoter DNA | synthetic construct | Crystal structure of R275E mutant of BMRR bound to DNA and rhodamine | X-ray diffraction | 2.6 | 24 | 2008-08-26 | |||
| 27 | 3D6Y|1|B | BMR promoter DNA | synthetic construct | Crystal structure of R275E mutant of BMRR bound to DNA and berberine | X-ray diffraction | 2.7 | 24 | 2008-08-26 | |||
| 28 | 3D70|1|B | Multidrug-efflux transporter 1 regulator | Bacillus subtilis | Crystal structure of E253A mutant of BMRR bound to 22-bp oligonucleotide | X-ray diffraction | 2.8 | 23 | 2008-08-26 | |||
| 29 | 2IHN|1|D+ 2IHN|1|C | 5'-D(*CP*TP*AP*AP*CP*TP*TP*TP*GP*AP*GP*GP*CP*AP*GP*AP*CP*C)-3', 5'-D(*GP*GP*TP*CP*TP*GP*CP*CP*TP*CP*AP*AP*GP*AP*CP*GP*GP*TP*AP*GP*TP*CP*AP*A)-3' | Co-crystal of Bacteriophage T4 RNase H with a fork DNA substrate | X-ray diffraction | 3 | 34 | 2007-08-21 | ||||
| 30 | 1U0D|1|C+ 1U0D|1|D | 5'-D(*CP*GP*GP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*CP*GP*C)-3', 5'-D(*GP*CP*GP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*CP*CP*G)-3' | Y33H Mutant of Homing endonuclease I-CreI | X-ray diffraction | 2.9 | 48 | 2004-11-02 | ||||
| 31 | 1T9I|1|C+ 1T9I|1|D | 5'-D(*CP*GP*AP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*TP*GP*C)-3', 5'-D(*GP*CP*AP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*TP*CP*G)-3' | I-CreI(D20N)/DNA complex | X-ray diffraction | 1.6 | 48 | 2004-11-16 | ||||
| 32 | 1H6F|1|C+ 1H6F|1|D | 5'-D(*TP*AP*AP*TP*TP*TP*CP*AP*CP*AP*CP*CP*TP* AP*GP*GP*TP*GP*TP*GP*AP*AP*AP*T)-3' | synthetic construct | Human TBX3, a transcription factor responsible for ulnar-mammary syndrome, bound to a palindromic DNA site | X-ray diffraction | 1.7 | 48 | 2002-04-19 | |||
| 33 | 1T9J|1|C+ 1T9J|1|D | 5'-D(*CP*GP*AP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*TP*GP*C)-3', 5'-D(*GP*CP*AP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*TP*CP*G)-3' | I-CreI(Q47E)/DNA complex | X-ray diffraction | 2 | 48 | 2004-11-16 | ||||
| 34 | 1G9Y|1|C+ 1G9Y|1|D | 5'-D(*CP*GP*AP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*TP*GP*C)-3', 5'-D(*GP*CP*AP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*TP*CP*G)-3' | HOMING ENDONUCLEASE I-CREI / DNA SUBSTRATE COMPLEX WITH CALCIUM | X-ray diffraction | 2.05 | 48 | 2001-04-02 | ||||
| 35 | 1XBR|1|C+ 1XBR|1|D | DNA (5'-D(*AP*AP*TP*TP*TP*CP*AP*CP*AP*CP*CP*TP*AP*GP*GP*TP*G P*TP*GP*AP*AP*AP* TP*T)-3') | T DOMAIN FROM XENOPUS LAEVIS BOUND TO DNA | X-ray diffraction | 2.5 | 48 | 1998-01-16 | ||||
| 36 | 1U0C|2|C+ 1U0C|2|D | 5'-D(*CP*GP*TP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*AP*GP*C)-3', 5'-D(*GP*CP*TP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*AP*CP*G)-3' | Y33C Mutant of Homing endonuclease I-CreI | X-ray diffraction | 2.5 | 48 | 2004-11-02 | ||||
| 37 | 2QSH|1|W+ 2QSH|1|Y | bottom strand of the mismatch DNA, top strand of the mismatch DNA | Crystal structure of Rad4-Rad23 bound to a mismatch DNA | X-ray diffraction | 2.805 | 47 | 2007-10-02 | ||||
| 38 | 1BP7|1|1+ 1BP7|1|2 | DNA (5'-D(*CP*GP*AP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*TP* GP*C)-3'), DNA (5'-D(*GP*CP*AP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*TP* CP*G)-3') | GROUP I MOBILE INTRON ENDONUCLEASE I-CREI COMPLEXED WITH HOMING SITE DNA | X-ray diffraction | 3 | 48 | 1999-01-06 | ||||
| 39 | 1BP7|1|3+ 1BP7|1|4 | DNA (5'-D(*CP*GP*AP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*TP* GP*C)-3'), DNA (5'-D(*GP*CP*AP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*TP* CP*G)-3') | GROUP I MOBILE INTRON ENDONUCLEASE I-CREI COMPLEXED WITH HOMING SITE DNA | X-ray diffraction | 3 | 48 | 1999-01-06 |
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 | 2IHN|1|D+ 2IHN|1|C | Co-crystal of Bacteriophage T4 RNase H with a fork DNA substrate | X-RAY DIFFRACTION | 3 | 34 | enzyme,hydrolase,nuclease | ||
| 2 | 2QNC|1|C+ 2QNC|1|D+ 2QNC|1|E+ 2QNC|1|F | Crystal structure of T4 Endonuclease VII N62D mutant in complex with a DNA Holliday junction | X-RAY DIFFRACTION | 3.1 | 93 | Holliday junction,structure | enzyme,hydrolase,nuclease | |
| 3 | 2WJ0|1|C+ 2WJ0|1|D | Crystal structures of Holliday junction resolvases from Archaeoglobus fulgidus bound to DNA substrate | X-RAY DIFFRACTION | 3.1 | 48 | Holliday junction,structure | enzyme,hydrolase,nuclease | |
| 4 | 3C0W|1|B+ 3C0W|1|C+ 3C0W|1|D | I-SceI in complex with a bottom nicked DNA substrate | X-RAY DIFFRACTION | 2.2 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 5 | 3MIP|1|C+ 3MIP|1|D | I-MsoI re-designed for altered DNA cleavage specificity (-8GCG) | X-RAY DIFFRACTION | 2.4 | 48 | double helix,structure | enzyme,hydrolase,nuclease | |
| 6 | 2FLD|1|C+ 2FLD|1|D | I-MsoI Re-Designed for Altered DNA Cleavage Specificity | X-RAY DIFFRACTION | 2 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 7 | 1M5X|1|C+ 1M5X|1|D | Crystal structure of the homing endonuclease I-MsoI bound to its DNA substrate | X-RAY DIFFRACTION | 2.25 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 8 | 3FD2|1|B+ 3FD2|1|C | Crystal structure of mMsoI/DNA complex with calcium | X-RAY DIFFRACTION | 2.69 | 48 | double helix,structure | enzyme,hydrolase,nuclease | |
| 9 | 3MIS|1|C+ 3MIS|1|D | I-MsoI re-designed for altered DNA cleavage specificity (-8G) | X-RAY DIFFRACTION | 2.3 | 48 | double helix,structure | enzyme,hydrolase,nuclease | |
| 10 | 3KO2|1|H+ 3KO2|1|I | I-MsoI re-designed for altered DNA cleavage specificity (-7C) | X-RAY DIFFRACTION | 2.9 | 48 | double helix,structure | enzyme,hydrolase,nuclease | |
| 11 | 3KO2|1|C+ 3KO2|1|D | I-MsoI re-designed for altered DNA cleavage specificity (-7C) | X-RAY DIFFRACTION | 2.9 | 48 | double helix,structure | enzyme,hydrolase,nuclease | |
| 12 | 1U0D|1|C+ 1U0D|1|D | Y33H Mutant of Homing endonuclease I-CreI | X-RAY DIFFRACTION | 2.9 | 48 | double helix,structure | enzyme,hydrolase,nuclease | |
| 13 | 1U0C|2|C+ 1U0C|2|D | Y33C Mutant of Homing endonuclease I-CreI | X-RAY DIFFRACTION | 2.5 | 48 | double helix,structure | enzyme,hydrolase,nuclease | |
| 14 | 1T9I|1|C+ 1T9I|1|D | I-CreI(D20N)/DNA complex | X-RAY DIFFRACTION | 1.6 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 15 | 1T9J|1|C+ 1T9J|1|D | I-CreI(Q47E)/DNA complex | X-RAY DIFFRACTION | 2 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 16 | 2I3Q|1|C+ 2I3Q|1|D | Q44V mutant of Homing Endonuclease I-CreI | X-RAY DIFFRACTION | 2.3 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 17 | 2I3P|1|C+ 2I3P|1|D | K28R mutant of Homing Endonuclease I-CreI | X-RAY DIFFRACTION | 2.3 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 18 | 1G9Y|1|C+ 1G9Y|1|D | HOMING ENDONUCLEASE I-CREI / DNA SUBSTRATE COMPLEX WITH CALCIUM | X-RAY DIFFRACTION | 2.05 | 48 | double helix,structure | enzyme,hydrolase,nuclease | |
| 19 | 1BP7|1|3+ 1BP7|1|4 | GROUP I MOBILE INTRON ENDONUCLEASE I-CREI COMPLEXED WITH HOMING SITE DNA | X-RAY DIFFRACTION | 3 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 20 | 1BP7|1|1+ 1BP7|1|2 | GROUP I MOBILE INTRON ENDONUCLEASE I-CREI COMPLEXED WITH HOMING SITE DNA | X-RAY DIFFRACTION | 3 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 21 | 3MXB|1|T+ 3MXB|1|V | Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus | X-RAY DIFFRACTION | 2.3 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 22 | 3MXB|1|C+ 3MXB|1|E | Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus | X-RAY DIFFRACTION | 2.3 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 23 | 3MX9|1|C+ 3MX9|1|D | Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus | X-RAY DIFFRACTION | 2.6 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 24 | 2XE0|1|C+ 2XE0|1|D | Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus | X-RAY DIFFRACTION | 2.31 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 25 | 2VBO|1|C+ 2VBO|1|E | Molecular basis of human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers | X-RAY DIFFRACTION | 1.8 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 26 | 2VBJ|1|C+ 2VBJ|1|E | Molecular basis of human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers | X-RAY DIFFRACTION | 1.95 | 48 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 27 | 2ITL|1|C+ 2ITL|1|W | The origin binding domain of the SV40 large T antigen bound to the functional pen palindrome DNA (23 bp) | X-RAY DIFFRACTION | 1.65 | 48 | double helix,feature,mispair,structure | DNA replication/repair,enzyme,helicase,hydrolase,regulatory | |
| 28 | 1H6F|1|C+ 1H6F|1|D | Human TBX3, a transcription factor responsible for ulnar-mammary syndrome, bound to a palindromic DNA site | X-RAY DIFFRACTION | 1.7 | 48 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),immunoglobulin (Ig) fold,regulatory,rel homology,transcription | |
| 29 | 1XBR|1|C+ 1XBR|1|D | T DOMAIN FROM XENOPUS LAEVIS BOUND TO DNA | X-RAY DIFFRACTION | 2.5 | 48 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),immunoglobulin (Ig) fold,regulatory,rel homology,transcription | |
| 30 | 3D6Y|1|B | Crystal structure of R275E mutant of BMRR bound to DNA and berberine | X-RAY DIFFRACTION | 2.7 | 24 | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | ||
| 31 | 3D71|1|M | Crystal structure of E253Q BMRR bound to 22 base pair promoter site | X-RAY DIFFRACTION | 2.8 | 23 | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | ||
| 32 | 3D70|1|B | Crystal structure of E253A mutant of BMRR bound to 22-bp oligonucleotide | X-RAY DIFFRACTION | 2.8 | 23 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 33 | 3D6Z|1|B | Crystal structure of R275E mutant of BMRR bound to DNA and rhodamine | X-RAY DIFFRACTION | 2.6 | 24 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 34 | 2QSH|1|W+ 2QSH|1|Y | Crystal structure of Rad4-Rad23 bound to a mismatch DNA | X-RAY DIFFRACTION | 2.805 | 47 | DNA replication/repair,regulatory | ||
| 35 | 2QSG|1|W+ 2QSG|1|Y | Crystal structure of Rad4-Rad23 bound to a UV-damaged DNA | X-RAY DIFFRACTION | 3.1 | 46 | DNA replication/repair,regulatory | ||
| 36 | 2HVR|1|C+ 2HVR|1|E+ 2HVR|1|D | Structure of T4 RNA Ligase 2 with Nicked 5'-Adenylated nucleic acid duplex containing a 3'-deoxyribonucleotide at the nick | X-RAY DIFFRACTION | 2.45 | 49 | A-form double helix,double helix,structure | enzyme,ligase | |
| 37 | 2HVS|1|C+ 2HVS|1|D+ 2HVS|1|E | Structure of T4 RNA Ligase 2 with Nicked 5'-Adenylated nucleic acid duplex containing a 2'-deoxyribonucleotide at the nick | X-RAY DIFFRACTION | 2.5 | 48 | A-form double helix,double helix,structure | enzyme,ligase | |
| 38 | 2HVS|1|F+ 2HVS|1|G+ 2HVS|1|H | Structure of T4 RNA Ligase 2 with Nicked 5'-Adenylated nucleic acid duplex containing a 2'-deoxyribonucleotide at the nick | X-RAY DIFFRACTION | 2.5 | 48 | A-form double helix,double helix,structure | enzyme,ligase | |
| 39 | 2HVR|1|F+ 2HVR|1|H+ 2HVR|1|G | Structure of T4 RNA Ligase 2 with Nicked 5'-Adenylated nucleic acid duplex containing a 3'-deoxyribonucleotide at the nick | X-RAY DIFFRACTION | 2.45 | 49 | A-form double helix,double helix,structure | enzyme,ligase |
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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