Equivalence class DNA_3.0_39407.1 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 1S32|1|I+ 1S32|1|J (rep) | palindromic alpha-satellite 146 bp DNA fragment | Homo sapiens | Molecular Recognition of the Nucleosomal 'Supergroove' | X-ray diffraction | 2.05 | 292 | 2004-05-11 | |||
| 2 | 2NQB|1|I+ 2NQB|1|J | alpha-satellite DNA | Homo sapiens | Drosophila Nucleosome Structure | X-ray diffraction | 2.3 | 292 | 2007-09-11 | |||
| 3 | 3C1B|1|I+ 3C1B|1|J | Palindromic 146bp Human Alpha satellite DNA | The effect of H3 K79 dimethylation and H4 K20 trimethylation on nucleosome and chromatin structure | X-ray diffraction | 2.2 | 292 | 2008-10-07 | ||||
| 4 | 3AFA|1|I+ 3AFA|1|J | 146-MER DNA | The human nucleosome structure | X-ray diffraction | 2.5 | 292 | 2010-05-26 | ||||
| 5 | 2CV5|1|I+ 2CV5|1|J | DNA (146-MER) | Crystal structure of human nucleosome core particle | X-ray diffraction | 2.5 | 292 | 2005-06-28 | ||||
| 6 | 3A6N|1|I+ 3A6N|1|J | 146-MER DNA | The nucleosome containing a testis-specific histone variant, human H3T | X-ray diffraction | 2.7 | 290 | 2010-05-26 | ||||
| 7 | 1U35|1|I+ 1U35|1|J | alpha-satellite DNA | Homo sapiens | Crystal structure of the nucleosome core particle containing the histone domain of macroH2A | X-ray diffraction | 3 | 290 | 2005-09-27 | |||
| 8 | 2F8N|1|I+ 2F8N|1|J | alpha-satellite DNA (146 bp) | Homo sapiens | 2.9 Angstrom X-ray structure of hybrid macroH2A nucleosomes | X-ray diffraction | 2.9 | 290 | 2006-05-23 | |||
| 9 | 1ZLA|1|I+ 1ZLA|1|J | Palindromic 146bp Human alpha-Satellite DNA fragment | Homo sapiens | X-ray Structure of a Kaposi's sarcoma herpesvirus LANA peptide bound to the nucleosomal core | X-ray diffraction | 2.9 | 292 | 2006-02-28 | |||
| 10 | 1KX3|1|I+ 1KX3|1|J | DNA (5'(ATCAATATCCACCTGCAGATTCTACCAAAAGTGTATTTGGAAACTGCTCCATCAAAAGGCATGTTCAGCTGAATTCAGCTGAACATGCCTTTTGATGGAGCAGTTTCCAAATACACTTTTGGTAGAATCTGCAGGTGGATATTGAT)3') | Homo sapiens | X-Ray Structure of the Nucleosome Core Particle, NCP146, at 2.0 A Resolution | X-ray diffraction | 2 | 292 | 2002-12-25 | |||
| 11 | 1P3I|1|I+ 1P3I|1|J | Palindromic 146bp Human Alpha-Satellite DNA fragment | Homo sapiens | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-ray diffraction | 2.3 | 292 | 2004-02-24 | |||
| 12 | 1P3L|1|I+ 1P3L|1|J | Palindromic 146bp Human Alpha-Satellite DNA fragment | Homo sapiens | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-ray diffraction | 2.4 | 292 | 2004-02-24 | |||
| 13 | 1M18|1|I+ 1M18|1|J | Palindromic 146 Base Pair DNA Fragment | LIGAND BINDING ALTERS THE STRUCTURE AND DYNAMICS OF NUCLEOSOMAL DNA | X-ray diffraction | 2.45 | 292 | 2003-02-18 | ||||
| 14 | 1EQZ|1|I+ 1EQZ|1|J | 146 NUCLEOTIDES LONG DNA | X-RAY STRUCTURE OF THE NUCLEOSOME CORE PARTICLE AT 2.5 A RESOLUTION | X-ray diffraction | 2.5 | 292 | 2000-04-17 | ||||
| 15 | 1KX4|1|I+ 1KX4|1|J | DNA (5'(ATCTCCAAATATCCCTTGCGGATCGTAGAAAAAGTGTGTCAAACTGCGCTATCAAAGGGAAACTTCAACTGAATTCAGTTGAAGTTTCCCTTTGATAGCGCAGTTTGACACACTTTTTCTACGATCCGCAAGGGATATTTGGAGAT)3') | Homo sapiens | X-Ray Structure of the Nucleosome Core Particle, NCP146b, at 2.6 A Resolution | X-ray diffraction | 2.6 | 292 | 2002-12-25 | |||
| 16 | 1F66|1|I+ 1F66|1|J | PALINDROMIC 146 BASE PAIR DNA FRAGMENT | 2.6 A CRYSTAL STRUCTURE OF A NUCLEOSOME CORE PARTICLE CONTAINING THE VARIANT HISTONE H2A.Z | X-ray diffraction | 2.6 | 292 | 2000-11-27 | ||||
| 17 | 1P3P|1|I+ 1P3P|1|J | Palindromic 146bp Human Alpha-Satellite DNA fragment | Homo sapiens | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-ray diffraction | 2.7 | 292 | 2004-02-24 | |||
| 18 | 1P3G|1|I+ 1P3G|1|J | Palindromic 146bp Human Alpha-Satellite DNA fragment | Homo sapiens | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-ray diffraction | 2.7 | 292 | 2004-02-24 | |||
| 19 | 1P34|1|I+ 1P34|1|J | Palindromic 146bp Human Alpha-Satellite DNA fragment | Homo sapiens | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-ray diffraction | 2.7 | 292 | 2004-02-24 | |||
| 20 | 1P3O|1|I+ 1P3O|1|J | Palindromic 146bp Human Alpha-Satellite DNA fragment | Homo sapiens | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-ray diffraction | 2.75 | 292 | 2004-02-24 | |||
| 21 | 1AOI|1|I+ 1AOI|1|J | PALINDROMIC 146 BP DNA REPEAT 8/9 FROM HUMAN X-CHROMOSOME ALPHA SATELLITE DNA | COMPLEX BETWEEN NUCLEOSOME CORE PARTICLE (H3,H4,H2A,H2B) AND 146 BP LONG DNA FRAGMENT | X-ray diffraction | 2.8 | 292 | 1998-09-30 | ||||
| 22 | 1P3K|1|I+ 1P3K|1|J | Palindromic 146bp Human Alpha-Satellite DNA fragment | Homo sapiens | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-ray diffraction | 2.9 | 292 | 2004-02-24 | |||
| 23 | 1P3F|1|I+ 1P3F|1|J | Palindromic 146bp Human Alpha-Satellite DNA fragment | Homo sapiens | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-ray diffraction | 2.9 | 292 | 2004-02-24 | |||
| 24 | 1P3M|1|I+ 1P3M|1|J | Palindromic 146bp Human Alpha-Satellite DNA fragment | Homo sapiens | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-ray diffraction | 2.9 | 292 | 2004-02-24 | |||
| 25 | 1P3A|1|I+ 1P3A|1|J | Palindromic 146bp Human Alpha-Satellite DNA fragment | Homo sapiens | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-ray diffraction | 3 | 292 | 2004-02-24 | |||
| 26 | 1P3B|1|I+ 1P3B|1|J | Palindromic 146bp Human Alpha-Satellite DNA fragment | Homo sapiens | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-ray diffraction | 3 | 292 | 2004-02-24 |
Release history
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 | 1S32|1|I+ 1S32|1|J | Molecular Recognition of the Nucleosomal 'Supergroove' | X-RAY DIFFRACTION | 2.05 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 2 | 1EQZ|1|I+ 1EQZ|1|J | X-RAY STRUCTURE OF THE NUCLEOSOME CORE PARTICLE AT 2.5 A RESOLUTION | X-RAY DIFFRACTION | 2.5 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 3 | 2NQB|1|I+ 2NQB|1|J | Drosophila Nucleosome Structure | X-RAY DIFFRACTION | 2.3 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 4 | 3C1B|1|I+ 3C1B|1|J | The effect of H3 K79 dimethylation and H4 K20 trimethylation on nucleosome and chromatin structure | X-RAY DIFFRACTION | 2.2 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 5 | 1ZLA|1|I+ 1ZLA|1|J | X-ray Structure of a Kaposi's sarcoma herpesvirus LANA peptide bound to the nucleosomal core | X-RAY DIFFRACTION | 2.9 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural,virus | |
| 6 | 1KX3|1|I+ 1KX3|1|J | X-Ray Structure of the Nucleosome Core Particle, NCP146, at 2.0 A Resolution | X-RAY DIFFRACTION | 2 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 7 | 1P3F|1|I+ 1P3F|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.9 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 8 | 1P3B|1|I+ 1P3B|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 3 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 9 | 1P3I|1|I+ 1P3I|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.3 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 10 | 1AOI|1|I+ 1AOI|1|J | COMPLEX BETWEEN NUCLEOSOME CORE PARTICLE (H3,H4,H2A,H2B) AND 146 BP LONG DNA FRAGMENT | X-RAY DIFFRACTION | 2.8 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 11 | 1P3L|1|I+ 1P3L|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.4 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 12 | 1P3M|1|I+ 1P3M|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.9 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 13 | 1P3K|1|I+ 1P3K|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.9 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 14 | 1P3A|1|I+ 1P3A|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 3 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 15 | 1P3O|1|I+ 1P3O|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.75 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 16 | 1P3P|1|I+ 1P3P|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.7 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 17 | 1P3G|1|I+ 1P3G|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.7 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 18 | 1P34|1|I+ 1P34|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.7 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 19 | 1F66|1|I+ 1F66|1|J | 2.6 A CRYSTAL STRUCTURE OF A NUCLEOSOME CORE PARTICLE CONTAINING THE VARIANT HISTONE H2A.Z | X-RAY DIFFRACTION | 2.6 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 20 | 1M18|1|I+ 1M18|1|J | LIGAND BINDING ALTERS THE STRUCTURE AND DYNAMICS OF NUCLEOSOMAL DNA | X-RAY DIFFRACTION | 2.45 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 21 | 3A6N|1|I+ 3A6N|1|J | The nucleosome containing a testis-specific histone variant, human H3T | X-RAY DIFFRACTION | 2.7 | 290 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 22 | 3AFA|1|I+ 3AFA|1|J | The human nucleosome structure | X-RAY DIFFRACTION | 2.5 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 23 | 2CV5|1|I+ 2CV5|1|J | Crystal structure of human nucleosome core particle | X-RAY DIFFRACTION | 2.5 | 292 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 24 | 1KX4|1|I+ 1KX4|1|J | X-Ray Structure of the Nucleosome Core Particle, NCP146b, at 2.6 A Resolution | X-RAY DIFFRACTION | 2.6 | 292 | double helix,structure | chromatin,nucleosome,structural | |
| 25 | 1U35|1|I+ 1U35|1|J | Crystal structure of the nucleosome core particle containing the histone domain of macroH2A | X-RAY DIFFRACTION | 3 | 290 | B-form double helix,double helix,structure | chromatin,nucleosome,structural | |
| 26 | 2F8N|1|I+ 2F8N|1|J | 2.9 Angstrom X-ray structure of hybrid macroH2A nucleosomes | X-RAY DIFFRACTION | 2.9 | 290 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
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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