Equivalence class DNA_4.0_03834.2 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | 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 | 2004-05-11 | |||
| 2 | 2NQB|1|I+ 2NQB|1|J | alpha-satellite DNA | Homo sapiens | Drosophila Nucleosome Structure | X-ray diffraction | 2.3 | 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 | 2008-10-07 | ||||
| 4 | 3AFA|1|I+ 3AFA|1|J | 146-MER DNA | The human nucleosome structure | X-ray diffraction | 2.5 | 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 | 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 | 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 | 2005-09-27 | |||
| 8 | 3AV2|1|I | 146-MER DNA | The human nucleosome structure containing the histone variant H3.3 | X-ray diffraction | 2.8 | 2011-06-01 | ||||
| 9 | 3AV2|1|J | 146-MER DNA | The human nucleosome structure containing the histone variant H3.3 | X-ray diffraction | 2.8 | 2011-06-01 | ||||
| 10 | 3AV1|1|I | 146-MER DNA | The human nucleosome structure containing the histone variant H3.2 | X-ray diffraction | 2.5 | 2011-06-01 | ||||
| 11 | 3AV1|1|J | 146-MER DNA | The human nucleosome structure containing the histone variant H3.2 | X-ray diffraction | 2.5 | 2011-06-01 | ||||
| 12 | 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 | 2006-02-28 | |||
| 13 | 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 | 2006-05-23 | |||
| 14 | 1ID3|1|I+ 1ID3|1|J | PALINDROMIC 146BP DNA FRAGMENT | Homo sapiens | CRYSTAL STRUCTURE OF THE YEAST NUCLEOSOME CORE PARTICLE REVEALS FUNDAMENTAL DIFFERENCES IN INTER-NUCLEOSOME INTERACTIONS | X-ray diffraction | 3.1 | 2001-09-28 | |||
| 15 | 3C1C|1|I+ 3C1C|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 | 3.15 | 2008-10-07 | ||||
| 16 | 3KXB|1|I+ 3KXB|1|J | PALINDROMIC 146 BP DNA REPEAT 8/9 FROM HUMAN X-CHROMOSOME ALPHA SATELLITE DNA | Structural characterization of H3K56Q nucleosomes and nucleosomal arrays | X-ray diffraction | 3.2 | 2010-06-23 | ||||
| 17 | 3O62|1|I+ 3O62|1|J | DNA (146-MER) | Nucleosome core particle modified with a cisplatin 1,3-cis-{Pt(NH3)2}2+-d(GpTpG) intrastrand cross-link | X-ray diffraction | 3.216 | 2011-01-05 | ||||
| 18 | 3KWQ|1|I+ 3KWQ|1|J | DNA (146-MER) | Structural characterization of H3K56Q nucleosomes and nucleosomal arrays | X-ray diffraction | 3.5 | 2010-05-12 | ||||
| 19 | 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 | 2002-12-25 | |||
| 20 | 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 | 2004-02-24 | |||
| 21 | 1M19|1|I+ 1M19|1|J | Palindromic 146 Base Pair DNA Fragment | LIGAND BINDING ALTERS THE STRUCTURE AND DYNAMICS OF NUCLEOSOMAL DNA | X-ray diffraction | 2.3 | 2003-02-18 | ||||
| 22 | 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 | 2004-02-24 | |||
| 23 | 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 | 2003-02-18 | ||||
| 24 | 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 | 2000-04-17 | ||||
| 25 | 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 | 2002-12-25 | |||
| 26 | 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 | 2000-11-27 | ||||
| 27 | 1M1A|1|I+ 1M1A|1|J | Palindromic 146 Base Pair DNA Fragment | LIGAND BINDING ALTERS THE STRUCTURE AND DYNAMICS OF NUCLEOSOMAL DNA | X-ray diffraction | 2.65 | 2003-02-18 | ||||
| 28 | 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 | 2004-02-24 | |||
| 29 | 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 | 2004-02-24 | |||
| 30 | 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 | 2004-02-24 | |||
| 31 | 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 | 2004-02-24 | |||
| 32 | 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 | 1998-09-30 | ||||
| 33 | 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 | 2004-02-24 | |||
| 34 | 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 | 2004-02-24 | |||
| 35 | 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 | 2004-02-24 | |||
| 36 | 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 | 2004-02-24 | |||
| 37 | 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 | 2004-02-24 |
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 | 3O62|1|I+3O62|1|J | Nucleosome core particle modified with a cisplatin 1,3-cis-{Pt(NH3)2}2+-d(GpTpG) intrastrand cross-link | X-RAY DIFFRACTION | 3.216 | 146 | chromatin,nucleosome,structural | |
| 2 | 1ID3|1|I+1ID3|1|J | CRYSTAL STRUCTURE OF THE YEAST NUCLEOSOME CORE PARTICLE REVEALS FUNDAMENTAL DIFFERENCES IN INTER-NUCLEOSOME INTERACTIONS | X-RAY DIFFRACTION | 3.1 | 146 | chromatin,nucleosome,structural | |
| 3 | 1EQZ|1|I+1EQZ|1|J | X-RAY STRUCTURE OF THE NUCLEOSOME CORE PARTICLE AT 2.5 A RESOLUTION | X-RAY DIFFRACTION | 2.5 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 4 | 1KX3|1|I+1KX3|1|J | X-Ray Structure of the Nucleosome Core Particle, NCP146, at 2.0 A Resolution | X-RAY DIFFRACTION | 2 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 5 | 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 | 146 | double helix,structure | chromatin,nucleosome,structural |
| 6 | 1P3G|1|I+1P3G|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.7 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 7 | 1P3P|1|I+1P3P|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.7 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 8 | 1P3O|1|I+1P3O|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.75 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 9 | 1P3A|1|I+1P3A|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 3 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 10 | 1P3K|1|I+1P3K|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.9 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 11 | 1P34|1|I+1P34|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.7 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 12 | 1P3F|1|I+1P3F|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.9 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 13 | 1P3B|1|I+1P3B|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 3 | 146 | double helix,structure | chromatin,nucleosome,structural |
| 14 | 1P3I|1|I+1P3I|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.3 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 15 | 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 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural,virus |
| 16 | 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 | 146 | B-form double helix,double helix,feature,mispair,structure | chromatin,nucleosome,structural |
| 17 | 3KWQ|1|I+3KWQ|1|J | Structural characterization of H3K56Q nucleosomes and nucleosomal arrays | X-RAY DIFFRACTION | 3.5 | 146 | double helix,structure | chromatin,nucleosome,structural |
| 18 | 3KXB|1|I+3KXB|1|J | Structural characterization of H3K56Q nucleosomes and nucleosomal arrays | X-RAY DIFFRACTION | 3.2 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 19 | 1P3L|1|I+1P3L|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.4 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 20 | 1P3M|1|I+1P3M|1|J | Crystallographic Studies of Nucleosome Core Particles containing Histone 'Sin' Mutants | X-RAY DIFFRACTION | 2.9 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 21 | 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 | 146 | chromatin,nucleosome,structural | |
| 22 | 2NQB|1|I+2NQB|1|J | Drosophila Nucleosome Structure | X-RAY DIFFRACTION | 2.3 | 146 | chromatin,nucleosome,structural | |
| 23 | 3C1C|1|I+3C1C|1|J | The effect of H3 K79 dimethylation and H4 K20 trimethylation on nucleosome and chromatin structure | X-RAY DIFFRACTION | 3.15 | 146 | double helix,structure | chromatin,nucleosome,structural |
| 24 | 1S32|1|I+1S32|1|J | Molecular Recognition of the Nucleosomal 'Supergroove' | X-RAY DIFFRACTION | 2.05 | 146 | B-form double helix,double helix,feature,mispair,structure | chromatin,nucleosome,structural |
| 25 | 1M18|1|I+1M18|1|J | LIGAND BINDING ALTERS THE STRUCTURE AND DYNAMICS OF NUCLEOSOMAL DNA | X-RAY DIFFRACTION | 2.45 | 146 | B-form double helix,double helix,feature,mispair,structure | chromatin,nucleosome,structural |
| 26 | 1M19|1|I+1M19|1|J | LIGAND BINDING ALTERS THE STRUCTURE AND DYNAMICS OF NUCLEOSOMAL DNA | X-RAY DIFFRACTION | 2.3 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 27 | 3A6N|1|I+3A6N|1|J | The nucleosome containing a testis-specific histone variant, human H3T | X-RAY DIFFRACTION | 2.7 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 28 | 3AV1|1|I | The human nucleosome structure containing the histone variant H3.2 | X-RAY DIFFRACTION | 2.5 | 154 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 29 | 3AV2|1|I | The human nucleosome structure containing the histone variant H3.3 | X-RAY DIFFRACTION | 2.8 | 157 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 30 | 3AFA|1|I+3AFA|1|J | The human nucleosome structure | X-RAY DIFFRACTION | 2.5 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 31 | 2CV5|1|I+2CV5|1|J | Crystal structure of human nucleosome core particle | X-RAY DIFFRACTION | 2.5 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 32 | 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 | 146 | double helix,structure | chromatin,nucleosome,structural |
| 33 | 1U35|1|I+1U35|1|J | Crystal structure of the nucleosome core particle containing the histone domain of macroH2A | X-RAY DIFFRACTION | 3 | 146 | chromatin,nucleosome,structural | |
| 34 | 2F8N|1|I+2F8N|1|J | 2.9 Angstrom X-ray structure of hybrid macroH2A nucleosomes | X-RAY DIFFRACTION | 2.9 | 146 | chromatin,nucleosome,structural | |
| 35 | 1M1A|1|I+1M1A|1|J | LIGAND BINDING ALTERS THE STRUCTURE AND DYNAMICS OF NUCLEOSOMAL DNA | X-RAY DIFFRACTION | 2.65 | 146 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 36 | 3AV1|1|J | The human nucleosome structure containing the histone variant H3.2 | X-RAY DIFFRACTION | 2.5 | 152 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
| 37 | 3AV2|1|J | The human nucleosome structure containing the histone variant H3.3 | X-RAY DIFFRACTION | 2.8 | 156 | B-form double helix,double helix,structure | chromatin,nucleosome,structural |
Coloring options: