Research workbench
Crystal structure of the DNA-bound DHAX3, a tal effector, at 1.85 ångström
Analyse Crystal structure of the DNA-bound DHAX3, a tal effector, at 1.85 ångström in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3V6T
- Type
- protein + DNA
- Length
- 1,046 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DHAX3; DNA (5'- D(*TP*GP*TP*CP*CP*CP*TP*TP*TP*AP*TP*CP*TP*CP*TP*CP*T)-3'); DNA (5'…
- Pockets
- 8 · best druggability 0.81
Structure
x-ray diffraction · 4 distinct chains · 73% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DHAX3 | protein | 491 | 74% helix, 0% strand | — |
| B | DHAX3 | protein | 487 | 72% helix, 0% strand | — |
| G, I | DNA (5'- D(*TP*GP*TP*CP*CP*CP*TP*TP*TP*AP*TP*CP*TP*CP*TP*CP*T)-3') | dna | 17 | — | — |
| H, J | DNA (5'- D(*AP*GP*AP*GP*AP*GP*AP*TP*AP*AP*AP*GP*GP*GP*AP*CP*A)-3') | dna | 17 | — | — |
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 795 | 0.81 | 0.84 | 95 | empty |
| 2 | 820 | 0.80 | 0.84 | 105 | empty |
| 3 | 244 | 0.52 | 0.75 | 26 | empty |
| 4 | 156 | 0.36 | 0.72 | 18 | empty |
| 5 | 133 | 0.35 | 0.72 | 17 | empty |
Interfaces
9 interfaces between chains.
- A–I · 1691 Ų buried · 20 hydrogen bonds · protein-nucleic
- B–G · 1666 Ų buried · 20 hydrogen bonds · protein-nucleic
- A–B · 760 Ų buried · 3 hydrogen bonds · protein-protein
- I–J · 753 Ų buried · 63 hydrogen bonds · nucleic-nucleic
- G–H · 738 Ų buried · 60 hydrogen bonds · nucleic-nucleic
Compared structures
- 3V6T · Crystal structure of the DNA-bound dHax3, a TAL effector, at 1.85 angstrom · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 3V6T · PDBe 3V6T
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