Research workbench
Structure of the A138T promiscuous mutant of the ecori restriction endonuclease bound to its cognate recognition site.
Analyse Structure of the A138T promiscuous mutant of the ecori restriction endonuclease… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2OXV
- Type
- protein + DNA
- Length
- 274 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*TP*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3'); Type II restriction enzyme ecori
- EC
- 3.1.21.4
- UniProt
- P00642
- Pockets
- 3 · best druggability 0.38
Structure
x-ray diffraction · 2 distinct chains · 35% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | DNA (5'-D(*TP*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3') | dna | 13 | — | — |
| A | Type II restriction enzyme ecori (EC 3.1.21.4) | protein | 261 | 35% helix, 20% strand | P00642 |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 87 | 0.38 | 0.76 | 17 | empty |
| 2 | 66 | 0.34 | 0.77 | 16 | empty |
| 3 | 73 | 0.31 | 0.74 | 18 | empty |
Interfaces
1 interface between chains.
- C–A · 809 Ų buried · 19 hydrogen bonds · protein-nucleic
Compared structures
- 2OXV · Structure of the A138T promiscuous mutant of the EcoRI restriction endonuclease bound to… · the same entry in another collection · chain C against C, TM-score 1.00
- P00642 · AlphaFold monomer V2.0 prediction for type-2 restriction enzyme ecori (P00642) · a predicted model of the same protein · chain A 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 P00642
- Elsewhere: RCSB PDB 2OXV · PDBe 2OXV · UniProt P00642
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