MolNFT v1 · #156427 · protein
Crystal structure of the mouse endonuclease ENDOG(H138A/C100A), space group C2
6M3U · Endonuclease G, mitochondrial: “Crystal structure of the mouse endonuclease ENDOG(H138A/C100A), space group C2”. X-ray diffraction, 14 pockets (best druggability 0.79). MolNFT v1 #156427 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6M3U
- Type
- protein
- Length
- 925 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Endonuclease G, mitochondrial
- EC
- 3.1.30.-
- UniProt
- O08600
- Pockets
- 14 · best druggability 0.79
Structure
x-ray diffraction · 4 distinct chains · 27% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Endonuclease G, mitochondrial (EC 3.1.30.-) | protein | 231 | 26% helix, 30% strand | O08600 |
| B | Endonuclease G, mitochondrial (EC 3.1.30.-) | protein | 232 | 28% helix, 30% strand | O08600 |
| C | Endonuclease G, mitochondrial (EC 3.1.30.-) | protein | 230 | 27% helix, 30% strand | O08600 |
| D | Endonuclease G, mitochondrial (EC 3.1.30.-) | protein | 232 | 27% helix, 30% strand | O08600 |
Pockets
14 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 338 | 0.79 | 0.89 | 64 | empty |
| 2 | 279 | 0.76 | 0.89 | 53 | empty |
| 3 | 105 | 0.47 | 0.79 | 22 | empty |
| 4 | 88 | 0.46 | 0.81 | 22 | empty |
| 5 | 73 | 0.44 | 0.81 | 17 | empty |
Interfaces
5 interfaces between chains.
- A–B · 2803 Ų buried · 32 hydrogen bonds · protein-protein
- C–D · 2799 Ų buried · 37 hydrogen bonds · protein-protein
- B–D · 276 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 193 Ų buried · 0 hydrogen bonds · protein-protein
- A–C · 72 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6M3U · Crystal structure of the mouse endonuclease EndoG(H138A/C100A), space group C2 · the same entry in another collection · chain D against D, TM-score 1.00
- O08600 · AlphaFold monomer V2.0 prediction for endonuclease G, mitochondrial (O08600) · a predicted model of the same protein · chain C against A, TM-score 0.99
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 O08600
- Elsewhere: RCSB PDB 6M3U · PDBe 6M3U · UniProt O08600
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