Research workbench
Crystal structure of sacuvde
Analyse Crystal structure of sacuvde in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3TC3
- Type
- protein
- Length
- 579 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- UV damage endonuclease
- EC
- 3.-.-.-
- UniProt
- Q4J9T1
- Ligands
- MN
- Pockets
- 9 · best druggability 0.47
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | UV damage endonuclease (EC 3.-.-.-) | protein | 289 | 45% helix, 13% strand | Q4J9T1 |
| B | UV damage endonuclease (EC 3.-.-.-) | protein | 290 | 44% helix, 13% strand | Q4J9T1 |
Ligands and binding sites
- MN · Manganese (II) ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 194 | 0.47 | 0.75 | 22 | empty |
| 2 | 197 | 0.44 | 0.73 | 34 | empty |
| 3 | 164 | 0.42 | 0.74 | 17 | empty |
| 4 | 134 | 0.39 | 0.74 | 21 | empty |
| 5 | 104 | 0.34 | 0.73 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 17 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 3TC3 · Crystal Structure of SacUVDE · 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 Q4J9T1
- Elsewhere: RCSB PDB 3TC3 · PDBe 3TC3 · UniProt Q4J9T1
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