Equivalence class DNA_2.0_10507.1 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 1RFF|1|D (rep) | 5'-D(*AP*GP*TP*T)-3' | Crystal structure of human Tyrosyl-DNA Phosphodiesterase complexed with vanadate, octapeptide KLNYYDPR, and tetranucleotide AGTT. | X-ray diffraction | 1.7 | 3 | 2004-03-02 | ||||
| 2 | 1RFF|1|F | 5'-D(*AP*GP*TP*T)-3' | Crystal structure of human Tyrosyl-DNA Phosphodiesterase complexed with vanadate, octapeptide KLNYYDPR, and tetranucleotide AGTT. | X-ray diffraction | 1.7 | 3 | 2004-03-02 | ||||
| 3 | 3OR3|1|E | 5'-D(P*GP*AP*AP*C)-3' | Restriction endonuclease HPY188I in complex with product DNA | X-ray diffraction | 1.95 | 0 | 2010-10-20 | ||||
| 4 | 1M07|1|C | 5'-D(*AP*CP*GP*A)-3' | RESIDUES INVOLVED IN THE CATALYSIS AND BASE SPECIFICITY OF CYTOTOXIC RIBONUCLEASE FROM BULLFROG (RANA CATESBEIANA) | X-ray diffraction | 1.8 | 4 | 2003-01-21 | ||||
| 5 | 1M07|1|D | 5'-D(*AP*CP*GP*A)-3' | RESIDUES INVOLVED IN THE CATALYSIS AND BASE SPECIFICITY OF CYTOTOXIC RIBONUCLEASE FROM BULLFROG (RANA CATESBEIANA) | X-ray diffraction | 1.8 | 4 | 2003-01-21 | ||||
| 6 | 1TEZ|1|M | 5'-D(*TP*CP*GP*C)-3' | synthetic construct | COMPLEX BETWEEN DNA AND THE DNA PHOTOLYASE FROM ANACYSTIS NIDULANS | X-ray diffraction | 1.8 | 4 | 2004-12-14 | |||
| 7 | 1TEZ|1|O | 5'-D(*TP*CP*GP*C)-3' | synthetic construct | COMPLEX BETWEEN DNA AND THE DNA PHOTOLYASE FROM ANACYSTIS NIDULANS | X-ray diffraction | 1.8 | 4 | 2004-12-14 | |||
| 8 | 1RGT|1|D | 5'-D(*AP*GP*TP*C)-3' | Crystal structure of human Tyrosyl-DNA Phosphodiesterase complexed with vanadate, octopamine, and tetranucleotide AGTC | X-ray diffraction | 2 | 3 | 2004-03-02 | ||||
| 9 | 1RGT|1|F | 5'-D(*AP*GP*TP*C)-3' | Crystal structure of human Tyrosyl-DNA Phosphodiesterase complexed with vanadate, octopamine, and tetranucleotide AGTC | X-ray diffraction | 2 | 3 | 2004-03-02 | ||||
| 10 | 2I5S|1|A | 5'-D(*A*(DU)P*GP*A)-3' | Crystal structure of onconase with bound nucleic acid | X-ray diffraction | 1.9 | 3 | 2006-09-05 | ||||
| 11 | 1OJ8|1|B | 5'-D(*AP*CP*GP*AP)-3' | Novel and retro Binding Modes in Cytotoxic Ribonucleases from Rana catesbeiana of Two Crystal Structures Complexed with d(ApCpGpA) and (2',5'CpG) | X-ray diffraction | 1.7 | 4 | 2004-07-15 | ||||
| 12 | 1ZNA|1|A+ 1ZNA|1|B | DNA (5'-D(*CP*GP*CP*G)-3') | CONFORMATION AND DYNAMICS IN A Z-DNA TETRAMER | X-ray diffraction | 1.5 | 8 | 1981-03-18 | ||||
| 13 | 1D53|1|C+ 1D53|1|D | DNA (5'-D(*CP*GP*CP*G)-3') | CRYSTAL STRUCTURE AT 1.5 ANGSTROMS RESOLUTION OF D(CGCICICG), AN OCTANUCLEOTIDE CONTAINING INOSINE, AND ITS COMPARISON WITH D(CGCG) AND D(CGCGCG) STRUCTURES | X-ray diffraction | 1.5 | 8 | 1993-04-13 | ||||
| 14 | 1FIU|1|G | DNA (5'-D(*TP*GP*CP*G)-3') | TETRAMERIC RESTRICTION ENDONUCLEASE NGOMIV IN COMPLEX WITH CLEAVED DNA | X-ray diffraction | 1.6 | 0 | 2001-02-07 | ||||
| 15 | 3BAM|1|D | DNA (5'-D(*TP*AP*TP*G)-3') | RESTRICTION ENDONUCLEASE BAMHI COMPLEX WITH DNA AND MANGANESE IONS (POST-REACTIVE COMPLEX) | X-ray diffraction | 1.8 | 0 | 1999-01-13 | ||||
| 16 | 1ANA|1|A | DNA (5'-D(*(C38)P*CP*GP*G)-3') | HELIX GEOMETRY AND HYDRATION IN AN A-DNA TETRAMER. IC-C-G-G | X-ray diffraction | 2 | 0 | 1982-07-29 | ||||
| 17 | 1ANA|1|B | DNA (5'-D(*(C38)P*CP*GP*G)-3') | HELIX GEOMETRY AND HYDRATION IN AN A-DNA TETRAMER. IC-C-G-G | X-ray diffraction | 2 | 0 | 1982-07-29 |
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 | 1OJ8|1|B | Novel and retro Binding Modes in Cytotoxic Ribonucleases from Rana catesbeiana of Two Crystal Structures Complexed with d(ApCpGpA) and (2',5'CpG) | X-RAY DIFFRACTION | 1.7 | 4 | enzyme,hydrolase,nuclease | ||
| 2 | 1M07|1|D | RESIDUES INVOLVED IN THE CATALYSIS AND BASE SPECIFICITY OF CYTOTOXIC RIBONUCLEASE FROM BULLFROG (RANA CATESBEIANA) | X-RAY DIFFRACTION | 1.8 | 4 | enzyme,hydrolase,nuclease | ||
| 3 | 1M07|1|C | RESIDUES INVOLVED IN THE CATALYSIS AND BASE SPECIFICITY OF CYTOTOXIC RIBONUCLEASE FROM BULLFROG (RANA CATESBEIANA) | X-RAY DIFFRACTION | 1.8 | 4 | enzyme,hydrolase,nuclease | ||
| 4 | 1D53|1|C+ 1D53|1|D | CRYSTAL STRUCTURE AT 1.5 ANGSTROMS RESOLUTION OF D(CGCICICG), AN OCTANUCLEOTIDE CONTAINING INOSINE, AND ITS COMPARISON WITH D(CGCG) AND D(CGCGCG) STRUCTURES | X-RAY DIFFRACTION | 1.5 | 8 | Z-form double helix,double helix,structure | ||
| 5 | 1ZNA|1|A+ 1ZNA|1|B | CONFORMATION AND DYNAMICS IN A Z-DNA TETRAMER | X-RAY DIFFRACTION | 1.5 | 8 | Z-form double helix,double helix,structure | ||
| 6 | 1FIU|1|G | TETRAMERIC RESTRICTION ENDONUCLEASE NGOMIV IN COMPLEX WITH CLEAVED DNA | X-RAY DIFFRACTION | 1.6 | 0 | enzyme,hydrolase,nuclease | ||
| 7 | 3BAM|1|D | RESTRICTION ENDONUCLEASE BAMHI COMPLEX WITH DNA AND MANGANESE IONS (POST-REACTIVE COMPLEX) | X-RAY DIFFRACTION | 1.8 | 0 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 8 | 3OR3|1|E | Restriction endonuclease HPY188I in complex with product DNA | X-RAY DIFFRACTION | 1.95 | 0 | double helix,structure | enzyme,hydrolase,nuclease | |
| 9 | 1ANA|1|A | HELIX GEOMETRY AND HYDRATION IN AN A-DNA TETRAMER. IC-C-G-G | X-RAY DIFFRACTION | 2 | 0 | double helix,structure | ||
| 10 | 1ANA|1|B | HELIX GEOMETRY AND HYDRATION IN AN A-DNA TETRAMER. IC-C-G-G | X-RAY DIFFRACTION | 2 | 0 | double helix,structure | ||
| 11 | 1TEZ|1|M | COMPLEX BETWEEN DNA AND THE DNA PHOTOLYASE FROM ANACYSTIS NIDULANS | X-RAY DIFFRACTION | 1.8 | 4 | enzyme,lyase | ||
| 12 | 1TEZ|1|O | COMPLEX BETWEEN DNA AND THE DNA PHOTOLYASE FROM ANACYSTIS NIDULANS | X-RAY DIFFRACTION | 1.8 | 4 | enzyme,lyase | ||
| 13 | 1RFF|1|F | Crystal structure of human Tyrosyl-DNA Phosphodiesterase complexed with vanadate, octapeptide KLNYYDPR, and tetranucleotide AGTT. | X-RAY DIFFRACTION | 1.7 | 3 | enzyme,hydrolase,nuclease | ||
| 14 | 2I5S|1|A | Crystal structure of onconase with bound nucleic acid | X-RAY DIFFRACTION | 1.9 | 3 | enzyme,hydrolase,nuclease | ||
| 15 | 1RFF|1|D | Crystal structure of human Tyrosyl-DNA Phosphodiesterase complexed with vanadate, octapeptide KLNYYDPR, and tetranucleotide AGTT. | X-RAY DIFFRACTION | 1.7 | 3 | enzyme,hydrolase,nuclease | ||
| 16 | 1RGT|1|F | Crystal structure of human Tyrosyl-DNA Phosphodiesterase complexed with vanadate, octopamine, and tetranucleotide AGTC | X-RAY DIFFRACTION | 2 | 3 | enzyme,hydrolase,nuclease | ||
| 17 | 1RGT|1|D | Crystal structure of human Tyrosyl-DNA Phosphodiesterase complexed with vanadate, octopamine, and tetranucleotide AGTC | X-RAY DIFFRACTION | 2 | 3 | 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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