Research workbench
X-ray structure of the DNA-eco ri endonuclease complexes with an E144D mutation at 2.7 a
Analyse X-ray structure of the DNA-eco ri endonuclease complexes with an E144D mutation… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1QRI
- Type
- protein + DNA
- Length
- 274 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*TP*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3'; Eco ri endonculease
- UniProt
- P00642
- Pockets
- 3 · best druggability 0.41
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| M | 5'-D(*TP*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3' | dna | 13 | — | — |
| A | Eco ri endonculease | protein | 261 | 33% 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 | 106 | 0.41 | 0.77 | 18 | empty |
| 2 | 58 | 0.31 | 0.76 | 17 | empty |
| 3 | 56 | 0.26 | 0.73 | 16 | empty |
Interfaces
1 interface between chains.
- M–A · 814 Ų buried · 16 hydrogen bonds · protein-nucleic
Compared structures
- 1QRI · X-ray structure of the DNA-eco ri endonuclease complexes with an E144D mutation at 2.7 a · the same entry in another collection · chain M against M, 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 1QRI · PDBe 1QRI · UniProt P00642
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