Equivalence class DNA_2.0_89193.1 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 2HOS|1|C+ 2HOS|1|D (rep) | 5'-D(*AP*TP*CP*CP*GP*GP*GP*GP*AP*TP*TP*AP*CP*AP*TP*GP*GP*CP*AP*AP*A)-3', 5'-D(*TP*TP*TP*TP*GP*CP*CP*AP*TP*GP*TP*AP*AP*TP*CP*CP*CP*CP*GP*GP*A)-3' | Phage-Selected Homeodomain Bound to Unmodified DNA | X-ray diffraction | 1.9 | 42 | 2006-12-12 | ||||
| 2 | 2A07|1|A+ 2A07|1|B | 5'-D(*AP*AP*CP*TP*AP*TP*GP*AP*AP*AP*CP*AP*AP*AP*TP*TP*TP*TP*CP*CP*T)-3', 5'-D(*TP*TP*AP*GP*GP*AP*AP*AP*AP*TP*TP*TP*GP*TP*TP*TP*CP*AP*TP*AP*G)-3' | Crystal Structure of Foxp2 bound Specifically to DNA. | X-ray diffraction | 1.9 | 42 | 2006-01-31 | ||||
| 3 | 2A07|1|C+ 2A07|1|D | 5'-D(*AP*AP*CP*TP*AP*TP*GP*AP*AP*AP*CP*AP*AP*AP*TP*TP*TP*TP*CP*CP*T)-3', 5'-D(*TP*TP*AP*GP*GP*AP*AP*AP*AP*TP*TP*TP*GP*TP*TP*TP*CP*AP*TP*AP*G)-3' | Crystal Structure of Foxp2 bound Specifically to DNA. | X-ray diffraction | 1.9 | 42 | 2006-01-31 | ||||
| 4 | 3KZ8|1|C | DNA (5'-D(*TP*GP*GP*GP*CP*AP*TP*GP*CP*CP*CP*GP*GP*GP*CP*AP*TP*GP*CP*CP*C)-3') | Diversity in DNA recognition by p53 revealed by crystal structures with Hoogsteen base pairs (p53-DNA complex 3) | X-ray diffraction | 1.91 | 20 | 2010-03-31 | ||||
| 5 | 2HDD|1|C+ 2HDD|1|D | DNA (5'-D(*AP*TP*CP*CP*GP*GP*GP*GP*AP*TP*TP*AP*CP*AP*TP*GP*G P*CP*AP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*TP*GP*CP*CP*AP*TP*GP*TP*AP*AP*TP*CP*CP*C P*CP*GP*GP*A)-3') | ENGRAILED HOMEODOMAIN Q50K VARIANT DNA COMPLEX | X-ray diffraction | 1.9 | 42 | 1998-05-27 | ||||
| 6 | 1CYQ|1|C+ 1CYQ|1|D | 5'-D(*TP*TP*GP*AP*CP*TP*CP*TP*CP*TP*TP*AP*AP*GP*AP*GP*AP*GP*TP*CP*A)-3' | INTRON ENCODED HOMING ENDONUCLEASE I-PPOI (H98A)/DNA HOMING SITE COMPLEX | X-ray diffraction | 1.93 | 42 | 1999-11-19 | ||||
| 7 | 3CBB|1|C+ 3CBB|1|D | Hepatocyte Nuclear Factor 4-alpha promoter element DNA | Crystal Structure of Hepatocyte Nuclear Factor 4alpha in complex with DNA: Diabetes Gene Product | X-ray diffraction | 2 | 42 | 2008-10-07 | ||||
| 8 | 1DU0|1|C+ 1DU0|1|D | DNA (5'-D(*AP*TP*TP*AP*GP*GP*TP*AP*AP*TP*TP*AP*CP*AP*TP*GP*GP*CP*AP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*TP*GP*CP*CP*AP*TP*GP*TP*AP*AP*TP*TP*AP*CP*CP*TP*AP*A)-3') | ENGRAILED HOMEODOMAIN Q50A VARIANT DNA COMPLEX | X-ray diffraction | 2 | 42 | 2000-07-31 |
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 | 3CBB|1|C+ 3CBB|1|D | Crystal Structure of Hepatocyte Nuclear Factor 4alpha in complex with DNA: Diabetes Gene Product | X-RAY DIFFRACTION | 2 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),Zinc-coordinating,nuclear receptor ZnC4,regulatory,transcription | |
| 2 | 3KZ8|1|C | Diversity in DNA recognition by p53 revealed by crystal structures with Hoogsteen base pairs (p53-DNA complex 3) | X-RAY DIFFRACTION | 1.91 | 20 | DNA-binding transcription factor (TF),P53 like,immunoglobulin (Ig) fold,regulatory,transcription | ||
| 3 | 2HOS|1|C+ 2HOS|1|D | Phage-Selected Homeodomain Bound to Unmodified DNA | X-RAY DIFFRACTION | 1.9 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 4 | 2HDD|1|C+ 2HDD|1|D | ENGRAILED HOMEODOMAIN Q50K VARIANT DNA COMPLEX | X-RAY DIFFRACTION | 1.9 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 5 | 1DU0|1|C+ 1DU0|1|D | ENGRAILED HOMEODOMAIN Q50A VARIANT DNA COMPLEX | X-RAY DIFFRACTION | 2 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 6 | 2A07|1|C+ 2A07|1|D | Crystal Structure of Foxp2 bound Specifically to DNA. | X-RAY DIFFRACTION | 1.9 | 42 | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | ||
| 7 | 2A07|1|A+ 2A07|1|B | Crystal Structure of Foxp2 bound Specifically to DNA. | X-RAY DIFFRACTION | 1.9 | 42 | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | ||
| 8 | 1CYQ|1|C+ 1CYQ|1|D | INTRON ENCODED HOMING ENDONUCLEASE I-PPOI (H98A)/DNA HOMING SITE COMPLEX | X-RAY DIFFRACTION | 1.93 | 42 | double helix,structure | enzyme,hydrolase,nuclease |
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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