Research workbench
Crystal structure of the tal effector DHAX3 with ni rvd at 2.2 ångström resolution
Analyse Crystal structure of the tal effector DHAX3 with ni rvd at 2.2 ångström… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4OSH
- Type
- protein + DNA
- Length
- 1,037 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- HAX3; DNA (5'- D(*TP*GP*TP*CP*CP*CP*TP*TP*TP*AP*TP*CP*TP*CP*TP*CP*T)-3'); DNA (5'…
- UniProt
- Q3ZD72
- Pockets
- 5 · best druggability 0.80
Structure
x-ray diffraction · 6 distinct chains · 74% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | HAX3 | protein | 489 | 73% helix, 0% strand | Q3ZD72 |
| G | DNA (5'- D(*TP*GP*TP*CP*CP*CP*TP*TP*TP*AP*TP*CP*TP*CP*TP*CP*T)-3') | dna | 15 | — | — |
| H | DNA (5'- D(*AP*GP*AP*GP*AP*GP*AP*TP*AP*AP*AP*GP*GP*GP*AP*CP*A)-3') | dna | 15 | — | — |
| A | HAX3 | protein | 487 | 75% helix, 0% strand | Q3ZD72 |
| I | DNA (5'- D(*TP*GP*TP*CP*CP*CP*TP*TP*TP*AP*TP*CP*TP*CP*TP*CP*T)-3') | dna | 15 | — | — |
| J | DNA (5'- D(*AP*GP*AP*GP*AP*GP*AP*TP*AP*AP*AP*GP*GP*GP*AP*CP*A)-3') | dna | 16 | — | — |
Pockets
5 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 916 | 0.80 | 0.82 | 113 | empty |
| 2 | 528 | 0.78 | 0.85 | 73 | empty |
| 3 | 636 | 0.61 | 0.73 | 49 | empty |
| 4 | 352 | 0.58 | 0.77 | 35 | empty |
| 5 | 213 | 0.53 | 0.77 | 26 | empty |
Interfaces
7 interfaces between chains.
- A–I · 1721 Ų buried · 21 hydrogen bonds · protein-nucleic
- B–G · 1688 Ų buried · 23 hydrogen bonds · protein-nucleic
- I–J · 660 Ų buried · 56 hydrogen bonds · nucleic-nucleic
- G–H · 623 Ų buried · 49 hydrogen bonds · nucleic-nucleic
- B–H · 582 Ų buried · 3 hydrogen bonds · protein-nucleic
Compared structures
- 4OSH · Crystal structure of the TAL effector dHax3 with NI RVD at 2.2 angstrom resolution · the same entry in another collection · chain B against B, 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
- Every structure of UniProt Q3ZD72
- Elsewhere: RCSB PDB 4OSH · PDBe 4OSH · UniProt Q3ZD72
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