Research workbench
Crystal structure of MTREX1 with ssdna
Analyse Crystal structure of MTREX1 with ssdna in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2OA8
- Type
- protein + DNA
- Length
- 454 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*GP*AP*CP*G)-3'; Three prime repair exonuclease 1
- EC
- 3.1.11.2
- UniProt
- Q91XB0
- Ligands
- CA
- Pockets
- 3 · best druggability 0.66
Structure
x-ray diffraction · 3 distinct chains · 39% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, D | 5'-D(*GP*AP*CP*G)-3' | dna | 4 | — | — |
| A | Three prime repair exonuclease 1 (EC 3.1.11.2) | protein | 220 | 39% helix, 16% strand | Q91XB0 |
| B | Three prime repair exonuclease 1 (EC 3.1.11.2) | protein | 226 | 38% helix, 16% strand | Q91XB0 |
Ligands and binding sites
- CA · Calcium ion · metal · 4 copies · chains C, B, D, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 604 | 0.66 | 0.76 | 72 | empty |
| 2 | 61 | 0.45 | 0.84 | 20 | CA |
| 3 | 68 | 0.43 | 0.81 | 19 | CA |
Interfaces
3 interfaces between chains.
- A–B · 1802 Ų buried · 41 hydrogen bonds · protein-protein
- D–A · 589 Ų buried · 14 hydrogen bonds · protein-nucleic
- C–B · 564 Ų buried · 9 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 4 modified (engineered).
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 Q91XB0
- Elsewhere: RCSB PDB 2OA8 · PDBe 2OA8 · UniProt Q91XB0
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