MolNFT v1 · #155475 · protein
Crystal structure of the K. lactis RAD5 (hg-derivative)
6L8O · DNA repair protein RAD5: “Crystal structure of the K. lactis RAD5 (hg-derivative)”. X-ray diffraction, 1 ligand (HG), 10 pockets (best druggability 0.73). MolNFT v1 #155475 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 6L8O
- Type
- protein
- Length
- 838 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA repair protein RAD5
- EC
- 3.6.4.-
- UniProt
- Q6CJM4
- Ligands
- HG
- Pockets
- 10 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA repair protein RAD5 (EC 3.6.4.-) | protein | 838 | 37% helix, 19% strand | Q6CJM4 |
Ligands and binding sites
- HG · Mercury (II) ion · metal · 3 copies · chains A
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 724 | 0.73 | 0.79 | 69 | TRS |
| 2 | 458 | 0.67 | 0.79 | 49 | empty |
| 3 | 314 | 0.56 | 0.76 | 37 | empty |
| 4 | 227 | 0.54 | 0.77 | 26 | empty |
| 5 | 142 | 0.45 | 0.76 | 21 | empty |
Compared structures
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 Q6CJM4
- Elsewhere: RCSB PDB 6L8O · PDBe 6L8O · UniProt Q6CJM4
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