Research workbench
Structure of KU80 von willebrand domain complexed with aplf ku binding motif
Analyse Structure of KU80 von willebrand domain complexed with aplf ku binding motif in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6TYZ
- Type
- protein
- Length
- 221 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- X-ray repair cross-complementing protein 5; Glu-arg-lys-arg-ile-leu-pro-thr-TRP-met-leu-al…
- EC
- 3.6.4.-
- UniProt
- A0A1L8EVE5
- Pockets
- 2 · best druggability 0.31
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | X-ray repair cross-complementing protein 5 (EC 3.6.4.-) | protein | 209 | 42% helix, 20% strand | A0A1L8EVE5 |
| B | Glu-arg-lys-arg-ile-leu-pro-thr-TRP-met-leu-ala | protein | 12 | 33% helix, 0% strand | — |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 75 | 0.31 | 0.73 | 26 | empty |
| 2 | 55 | 0.30 | 0.75 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 745 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 6TYZ · Structure of Ku80 von Willebrand domain complexed with APLF Ku Binding Motif · 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 A0A1L8EVE5
- Elsewhere: RCSB PDB 6TYZ · PDBe 6TYZ · UniProt A0A1L8EVE5
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