MolNFT v1 · #115691 · protein
Crystal structure of the sleeping beauty transposase catalytic domain
5CR4 · Sleeping beauty transposase, SB100X: “Crystal structure of the sleeping beauty transposase catalytic domain”. X-ray diffraction, 1 ligand (SO4), 5 pockets (best druggability 0.51). MolNFT v1 #115691 on GenesisL1: 3D structure…
- PDB
- 5CR4
- Type
- protein
- Length
- 450 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sleeping beauty transposase, SB100X
- Ligands
- SO4
- Pockets
- 5 · best druggability 0.51
Structure
x-ray diffraction · 2 distinct chains · 43% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sleeping beauty transposase, SB100X | protein | 224 | 43% helix, 16% strand | — |
| B | Sleeping beauty transposase, SB100X | protein | 226 | 43% helix, 16% strand | — |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 25 copies · chains A, B
- GOL · Glycerol · additive · 11 copies · chains A, B
- CIT · Citric acid · additive · chains B
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 222 | 0.51 | 0.76 | 42 | SO4 |
| 2 | 177 | 0.47 | 0.76 | 27 | SO4 |
| 3 | 76 | 0.44 | 0.81 | 17 | GOL |
| 4 | 57 | 0.42 | 0.83 | 16 | empty |
| 5 | 97 | 0.37 | 0.76 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 801 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 5CR4 · Crystal structure of the Sleeping Beauty transposase catalytic domain · 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
- Elsewhere: RCSB PDB 5CR4 · PDBe 5CR4
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