Equivalence class DNA_1.5_87055.2 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 1PFE|1|A (rep) | 5'-D(*GP*CP*GP*TP*AP*CP*GP*C)-3' | Echinomycin-(gcgtacgc)2 complex | X-ray diffraction | 1.1 | 2004-06-08 | ||||
| 2 | 2HC7|1|A | 5'-D(*GP*(2ST)P*GP*TP*AP*CP*AP*C)-3' | 2'-selenium-T A-DNA [G(TSe)GTACAC] | X-ray diffraction | 1.4 | 2006-07-04 | ||||
| 3 | 3HG8|1|A | 5'-D(*GP*(UMS)P*GP*(US2)P*AP*CP*AP*C)-3' | Crystal Structure of 5-SMe Derivatized DNA | X-ray diffraction | 1.38 | 2009-07-21 | ||||
| 4 | 1Z7I|1|A | 5'-D(*GP*(UMS)P*GP*TP*AP*CP*AP*C)-3' | 2'-Me-Se Derivitation of A-DNA Octamer G(UMSe)GTACAC | X-ray diffraction | 1.28 | 2005-04-05 | ||||
| 5 | 3IFI|1|A | DNA (5'-D(*GP*TP*(XUG)P*TP*AP*CP*AP*C)-3') | 2'-SeMe-dG modified octamer DNA | X-ray diffraction | 1.2 | 2009-08-11 | ||||
| 6 | 3IKI|1|A | 5'-D(*GP*(UMS)P*GP*(US2)P*AP*CP*AP*C)-3' | 5-SMe-dU containing DNA octamer | X-ray diffraction | 1.38 | 2010-03-09 | ||||
| 7 | 3LTU|1|A | 5'-D(*GP*(UMS)P*GP*(T5S)P*AP*CP*AP*C)-3' | 5-SeMe-dU containing DNA 8mer | X-ray diffraction | 1.4 | 2010-03-09 | ||||
| 8 | 3IJK|1|A | 5'-D(*GP*(UMS)P*GP*(T5O)P*AP*CP*AP*C)-3' | 5-OMe modified DNA 8mer | X-ray diffraction | 1.3 | 2009-10-06 | ||||
| 9 | 1XVK|1|A | 5'-D(*GP*CP*GP*TP*AP*CP*GP*C)-3' | X-ray structure of an Echinomycin-(GCGTACGC)2 complex | X-ray diffraction | 1.26 | 2005-04-12 | ||||
| 10 | 3GO3|1|A+ 3GO3|1|B | 5'-D(*AP*CP*GP*TP*AP*CP*GP*T)-3' | Interactions of an echinomycin-DNA complex with manganese(II) ions | X-ray diffraction | 1.1 | 2009-03-31 | ||||
| 11 | 3LTR|1|A | 5'-D(*GP*(UMS)P*GP*(T5O)P*AP*CP*AP*C)-3' | 5-OMe-dU containing DNA 8mer | X-ray diffraction | 1.3 | 2010-03-09 | ||||
| 12 | 2NSK|1|A | 5'-D(*GP*(UMS)P*GP*(T4S)P*AP*CP*AP*C)-3' | Doubled Modified Selenium DNA | X-ray diffraction | 1.5 | 2006-11-14 | ||||
| 13 | 3K18|1|A | 5'-D(*GP*(UMS)P*GP*(TTI)P*AP*CP*AP*C)-3' | Tellurium modified DNA-8mer | X-ray diffraction | 1.5 | 2010-10-06 | ||||
| 14 | 1WTO|1|B+ 1WTO|1|C | 5'-D(*GP*CP*GP*AP*TP*CP*GP*C)-3' | Hyperthermophile chromosomal protein SAC7D double mutant V26F/M29F in complex with DNA GCGATCGC | X-ray diffraction | 1.5 | 2005-02-22 | ||||
| 15 | 1XVN|1|A | 5'-D(*AP*CP*GP*TP*AP*CP*GP*T)-3' | echinomycin (ACGTACGT)2 complex | X-ray diffraction | 1.5 | 2005-04-12 | ||||
| 16 | 1XYI|1|B+ 1XYI|1|C | 5'-D(*GP*CP*GP*AP*TP*CP*GP*C)-3' | Hyperthermophile chromosomal protein Sac7d double mutant Val26Ala/Met29Ala in complex with DNA GCGATCGC | X-ray diffraction | 1.45 | 2005-02-08 | ||||
| 17 | 284D|1|A+ 284D|1|B | DNA (5'-CD(*P*AP*TP*TP*CP*AP*TP*TP*C)-3') | THE BI-LOOP, A NEW GENERAL FOUR-STRANDED DNA MOTIF | X-ray diffraction | 1.1 | 1997-06-11 | ||||
| 18 | 454D|1|A+ 454D|1|B | 5'-D(*GP*(5IU)P*TP*GP*CP*AP*AP*C)-3' | INTERCALATION AND MAJOR GROOVE RECOGNITION IN THE 1.2 A RESOLUTION CRYSTAL STRUCTURE OF RH[ME2TRIEN]PHI BOUND TO 5'-G(5IU)TGCAAC-3' | X-ray diffraction | 1.2 | 2000-02-21 | ||||
| 19 | 454D|1|C+ 454D|1|D | 5'-D(*GP*(5IU)P*TP*GP*CP*AP*AP*C)-3' | INTERCALATION AND MAJOR GROOVE RECOGNITION IN THE 1.2 A RESOLUTION CRYSTAL STRUCTURE OF RH[ME2TRIEN]PHI BOUND TO 5'-G(5IU)TGCAAC-3' | X-ray diffraction | 1.2 | 2000-02-21 | ||||
| 20 | 454D|1|E+ 454D|1|F | 5'-D(*GP*(5IU)P*TP*GP*CP*AP*AP*C)-3' | INTERCALATION AND MAJOR GROOVE RECOGNITION IN THE 1.2 A RESOLUTION CRYSTAL STRUCTURE OF RH[ME2TRIEN]PHI BOUND TO 5'-G(5IU)TGCAAC-3' | X-ray diffraction | 1.2 | 2000-02-21 | ||||
| 21 | 454D|1|G+ 454D|1|H | 5'-D(*GP*(5IU)P*TP*GP*CP*AP*AP*C)-3' | INTERCALATION AND MAJOR GROOVE RECOGNITION IN THE 1.2 A RESOLUTION CRYSTAL STRUCTURE OF RH[ME2TRIEN]PHI BOUND TO 5'-G(5IU)TGCAAC-3' | X-ray diffraction | 1.2 | 2000-02-21 | ||||
| 22 | 454D|1|I+ 454D|1|J | 5'-D(*GP*(5IU)P*TP*GP*CP*AP*AP*C)-3' | INTERCALATION AND MAJOR GROOVE RECOGNITION IN THE 1.2 A RESOLUTION CRYSTAL STRUCTURE OF RH[ME2TRIEN]PHI BOUND TO 5'-G(5IU)TGCAAC-3' | X-ray diffraction | 1.2 | 2000-02-21 | ||||
| 23 | 3MBS|1|B | Peptide Nucleic Acid | Crystal structure of 8mer PNA | X-ray diffraction | 1.27 | 2011-03-30 | ||||
| 24 | 3MBS|1|A | Peptide Nucleic Acid | Crystal structure of 8mer PNA | X-ray diffraction | 1.27 | 2011-03-30 | ||||
| 25 | 3MBS|1|C | Peptide Nucleic Acid | Crystal structure of 8mer PNA | X-ray diffraction | 1.27 | 2011-03-30 | ||||
| 26 | 3MBS|1|D | Peptide Nucleic Acid | Crystal structure of 8mer PNA | X-ray diffraction | 1.27 | 2011-03-30 | ||||
| 27 | 1D78|1|A | DNA (5'-D(*GP*TP*GP*TP*AP*CP*AP*C)-3') | HIGH RESOLUTION REFINEMENT OF THE HEXAGONAL A-DNA OCTAMER D(GTGTACAC) AT 1.4 ANGSTROMS RESOLUTION | X-ray diffraction | 1.4 | 1993-04-15 | ||||
| 28 | 2PLO|1|A+ 2PLO|1|B | 5'-D(*DGP*DGP*DTP*DAP*DTP*DAP*DCP*DC)-3' | D-(GTATACC) low temperature (100K) | X-ray diffraction | 1.4 | 2008-05-27 | ||||
| 29 | 1D79|1|A | DNA (5'-D(*GP*TP*GP*TP*AP*CP*AP*C)-3') | HIGH RESOLUTION REFINEMENT OF THE HEXAGONAL A-DNA OCTAMER D(GTGTACAC) AT 1.4 ANGSTROMS RESOLUTION | X-ray diffraction | 1.45 | 1993-04-15 | ||||
| 30 | 1C8C|1|B+ 1C8C|1|C | 5'-D(*GP*TP*GP*AP*TP*CP*GP*C)-3' | CRYSTAL STRUCTURES OF THE CHROMOSOMAL PROTEINS SSO7D/SAC7D BOUND TO DNA CONTAINING T-G MISMATCHED BASE PAIRS | X-ray diffraction | 1.45 | 2001-05-04 | ||||
| 31 | 344D|1|A | DNA (5'-D(*AP*CP*GP*TP*AP*CP*GP*(BRU))-3') | DETERMINATION BY MAD-DM OF THE STRUCTURE OF THE DNA DUPLEX D(ACGTACG(5-BRU))2 AT 1.46A AND 100K | X-ray diffraction | 1.46 | 1997-09-26 | ||||
| 32 | 3FA1|1|A | 5'-D(*DGP*(UMS)P*DGP*(TTI)P*DAP*DCP*DAP*DC)-3' | Crystal Structure of Tellurium Derivatized DNA | X-ray diffraction | 1.5 | 2009-01-27 | ||||
| 33 | 2DLJ|1|A | 5'-D(*GP*(UMS)P*GP*(BRU)P*AP*CP*AP*C)-3' | 2'-Me-Se and Br Derivitation of A-DNA Octamer G(UMS)G(BRU)ACAC | X-ray diffraction | 1.5 | 2006-05-23 | ||||
| 34 | 295D|1|A | DNA (5'-D(*AP*TP*GP*CP*GP*CP*AP*T)-3') | CRYSTAL AND SOLUTION STRUCTURES OF THE OLIGONUCLEOTIDE D(ATGCGCAT)2: A COMBINED X-RAY AND NMR STUDY | X-ray diffraction | 1.5 | 1996-12-04 |
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 |
|---|
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5
#S - ordering by similarity (same as in the heat map).| #S | PDB | Title | Method | Resolution | Length | NAKB_NA_annotation | NAKB_protein_annotation |
|---|---|---|---|---|---|---|---|
| 1 | 1D78|1|A | HIGH RESOLUTION REFINEMENT OF THE HEXAGONAL A-DNA OCTAMER D(GTGTACAC) AT 1.4 ANGSTROMS RESOLUTION | X-RAY DIFFRACTION | 1.4 | 8 | A-form double helix,double helix,structure | |
| 2 | 3IJK|1|A | 5-OMe modified DNA 8mer | X-RAY DIFFRACTION | 1.3 | 8 | A-form double helix,double helix,structure | |
| 3 | 3IKI|1|A | 5-SMe-dU containing DNA octamer | X-RAY DIFFRACTION | 1.38 | 8 | A-form double helix,double helix,structure | |
| 4 | 3K18|1|A | Tellurium modified DNA-8mer | X-RAY DIFFRACTION | 1.5 | 8 | A-form double helix,double helix,structure | |
| 5 | 2HC7|1|A | 2'-selenium-T A-DNA [G(TSe)GTACAC] | X-RAY DIFFRACTION | 1.4 | 8 | A-form double helix,double helix,structure | |
| 6 | 3HG8|1|A | Crystal Structure of 5-SMe Derivatized DNA | X-RAY DIFFRACTION | 1.38 | 8 | A-form double helix,double helix,structure | |
| 7 | 3FA1|1|A | Crystal Structure of Tellurium Derivatized DNA | X-RAY DIFFRACTION | 1.5 | 8 | A-form double helix,double helix,structure | |
| 8 | 3GO3|1|A+3GO3|1|B | Interactions of an echinomycin-DNA complex with manganese(II) ions | X-RAY DIFFRACTION | 1.1 | 8 | bis-intercalating,double helix,ligand,structure | |
| 9 | 1XVK|1|A | X-ray structure of an Echinomycin-(GCGTACGC)2 complex | X-RAY DIFFRACTION | 1.26 | 8 | bis-intercalating,double helix,ligand,structure | |
| 10 | 2DLJ|1|A | 2'-Me-Se and Br Derivitation of A-DNA Octamer G(UMS)G(BRU)ACAC | X-RAY DIFFRACTION | 1.5 | 8 | A-form double helix,double helix,structure | |
| 11 | 1Z7I|1|A | 2'-Me-Se Derivitation of A-DNA Octamer G(UMSe)GTACAC | X-RAY DIFFRACTION | 1.28 | 8 | A-form double helix,double helix,structure | |
| 12 | 2PLO|1|A+2PLO|1|B | D-(GTATACC) low temperature (100K) | X-RAY DIFFRACTION | 1.4 | 8 | A-form double helix,double helix,structure | |
| 13 | 1D79|1|A | HIGH RESOLUTION REFINEMENT OF THE HEXAGONAL A-DNA OCTAMER D(GTGTACAC) AT 1.4 ANGSTROMS RESOLUTION | X-RAY DIFFRACTION | 1.45 | 8 | A-form double helix,double helix,structure | |
| 14 | 295D|1|A | CRYSTAL AND SOLUTION STRUCTURES OF THE OLIGONUCLEOTIDE D(ATGCGCAT)2: A COMBINED X-RAY AND NMR STUDY | X-RAY DIFFRACTION | 1.5 | 8 | A-form double helix,double helix,structure | |
| 15 | 1C8C|1|B+1C8C|1|C | CRYSTAL STRUCTURES OF THE CHROMOSOMAL PROTEINS SSO7D/SAC7D BOUND TO DNA CONTAINING T-G MISMATCHED BASE PAIRS | X-RAY DIFFRACTION | 1.45 | 8 | double helix,feature,mispair,structure | chromatin,nucleosome,structural |
| 16 | 1XYI|1|B+1XYI|1|C | Hyperthermophile chromosomal protein Sac7d double mutant Val26Ala/Met29Ala in complex with DNA GCGATCGC | X-RAY DIFFRACTION | 1.45 | 8 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 17 | 2NSK|1|A | Doubled Modified Selenium DNA | X-RAY DIFFRACTION | 1.5 | 8 | A-form double helix,double helix,structure | |
| 18 | 454D|1|E+454D|1|F | INTERCALATION AND MAJOR GROOVE RECOGNITION IN THE 1.2 A RESOLUTION CRYSTAL STRUCTURE OF RH[ME2TRIEN]PHI BOUND TO 5'-G(5IU)TGCAAC-3' | X-RAY DIFFRACTION | 1.2 | 8 | B-form double helix,double helix,structure | |
| 19 | 454D|1|A+454D|1|B | INTERCALATION AND MAJOR GROOVE RECOGNITION IN THE 1.2 A RESOLUTION CRYSTAL STRUCTURE OF RH[ME2TRIEN]PHI BOUND TO 5'-G(5IU)TGCAAC-3' | X-RAY DIFFRACTION | 1.2 | 8 | B-form double helix,double helix,structure | |
| 20 | 454D|1|G+454D|1|H | INTERCALATION AND MAJOR GROOVE RECOGNITION IN THE 1.2 A RESOLUTION CRYSTAL STRUCTURE OF RH[ME2TRIEN]PHI BOUND TO 5'-G(5IU)TGCAAC-3' | X-RAY DIFFRACTION | 1.2 | 8 | B-form double helix,double helix,structure | |
| 21 | 454D|1|C+454D|1|D | INTERCALATION AND MAJOR GROOVE RECOGNITION IN THE 1.2 A RESOLUTION CRYSTAL STRUCTURE OF RH[ME2TRIEN]PHI BOUND TO 5'-G(5IU)TGCAAC-3' | X-RAY DIFFRACTION | 1.2 | 8 | B-form double helix,double helix,structure | |
| 22 | 454D|1|I+454D|1|J | INTERCALATION AND MAJOR GROOVE RECOGNITION IN THE 1.2 A RESOLUTION CRYSTAL STRUCTURE OF RH[ME2TRIEN]PHI BOUND TO 5'-G(5IU)TGCAAC-3' | X-RAY DIFFRACTION | 1.2 | 8 | B-form double helix,double helix,structure | |
| 23 | 344D|1|A | DETERMINATION BY MAD-DM OF THE STRUCTURE OF THE DNA DUPLEX D(ACGTACG(5-BRU))2 AT 1.46A AND 100K | X-RAY DIFFRACTION | 1.46 | 8 | A-form double helix,double helix,structure | |
| 24 | 1WTO|1|B+1WTO|1|C | Hyperthermophile chromosomal protein SAC7D double mutant V26F/M29F in complex with DNA GCGATCGC | X-RAY DIFFRACTION | 1.5 | 8 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 25 | 1XVN|1|A | echinomycin (ACGTACGT)2 complex | X-RAY DIFFRACTION | 1.5 | 8 | bis-intercalating,double helix,ligand,structure | |
| 26 | 284D|1|A+284D|1|B | THE BI-LOOP, A NEW GENERAL FOUR-STRANDED DNA MOTIF | X-RAY DIFFRACTION | 1.1 | 8 | cyclic,feature,structure | |
| 27 | 1PFE|1|A | Echinomycin-(gcgtacgc)2 complex | X-RAY DIFFRACTION | 1.1 | 8 | bis-intercalating,double helix,ligand,structure | |
| 28 | 3IFI|1|A | 2'-SeMe-dG modified octamer DNA | X-RAY DIFFRACTION | 1.2 | 8 | double helix,structure | |
| 29 | 3MBS|1|A | Crystal structure of 8mer PNA | X-RAY DIFFRACTION | 1.27 | 72 | NAKB_NA_annotation | NAKB_protein_annotation |
| 30 | 3MBS|1|B | Crystal structure of 8mer PNA | X-RAY DIFFRACTION | 1.27 | 77 | NAKB_NA_annotation | NAKB_protein_annotation |
| 31 | 3LTU|1|A | 5-SeMe-dU containing DNA 8mer | X-RAY DIFFRACTION | 1.4 | 8 | A-form double helix,double helix,structure | |
| 32 | 3LTR|1|A | 5-OMe-dU containing DNA 8mer | X-RAY DIFFRACTION | 1.3 | 8 | A-form double helix,double helix,structure | |
| 33 | 3MBS|1|C | Crystal structure of 8mer PNA | X-RAY DIFFRACTION | 1.27 | 69 | NAKB_NA_annotation | NAKB_protein_annotation |
| 34 | 3MBS|1|D | Crystal structure of 8mer PNA | X-RAY DIFFRACTION | 1.27 | 69 | NAKB_NA_annotation | NAKB_protein_annotation |
Coloring options: