Research workbench
Crystal structure of tal effector reveals the recognition between histidine and guanine
Analyse Crystal structure of tal effector reveals the recognition between histidine and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4OSL
- Type
- protein + DNA
- Length
- 1,048 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*GP*TP*CP*TP*CP*TP*CP*T)-3'); DNA (5'…
- UniProt
- Q3ZD72
- Ligands
- MG
- Pockets
- 7 · best druggability 0.82
Structure
x-ray diffraction · 4 distinct chains · 72% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | HAX3 | protein | 492 | 72% helix, 0% strand | Q3ZD72 |
| B | HAX3 | protein | 488 | 72% helix, 1% strand | Q3ZD72 |
| G, I | DNA (5'- D(*TP*GP*TP*CP*CP*CP*TP*TP*TP*GP*TP*CP*TP*CP*TP*CP*T)-3') | dna | 17 | — | — |
| H, J | DNA (5'- D(*AP*GP*AP*GP*AP*GP*AP*CP*AP*AP*AP*GP*GP*GP*AP*CP*A)-3') | dna | 17 | — | — |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains B, H, A, I, J
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 574 | 0.82 | 0.88 | 87 | MG |
| 2 | 679 | 0.81 | 0.86 | 98 | empty |
| 3 | 243 | 0.54 | 0.77 | 29 | empty |
| 4 | 147 | 0.40 | 0.74 | 23 | MG |
| 5 | 103 | 0.36 | 0.75 | 14 | empty |
Interfaces
11 interfaces between chains.
- A–I · 1718 Ų buried · 22 hydrogen bonds · protein-nucleic
- B–G · 1679 Ų buried · 21 hydrogen bonds · protein-nucleic
- A–B · 780 Ų buried · 7 hydrogen bonds · protein-protein
- I–J · 759 Ų buried · 75 hydrogen bonds · nucleic-nucleic
- G–H · 744 Ų buried · 69 hydrogen bonds · nucleic-nucleic
Compared structures
- 4OSL · Crystal structure of TAL effector reveals the recognition between histidine and guanine · 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
- Every structure of UniProt Q3ZD72
- Elsewhere: RCSB PDB 4OSL · PDBe 4OSL · UniProt Q3ZD72
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