MolNFT v1 · #117039 · protein

Crystal structure of restriction endonuclease agei

5DWC · Type-2 restriction enzyme agei: “Crystal structure of restriction endonuclease agei”. X-ray diffraction, 2 pockets (best druggability 0.56). MolNFT v1 #117039 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5DWC
Type: protein
Length: 274 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Type-2 restriction enzyme agei
EC: 3.1.21.4
UniProt: Q9KHV6
Pockets: 2 · best druggability 0.56

Structure

x-ray diffraction · 1 distinct chain · 41% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Type-2 restriction enzyme agei (EC 3.1.21.4)	protein	274	41% helix, 16% strand	Q9KHV6

Pockets

2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	309	0.56	0.76	37	empty
2	51	0.27	0.75	15	empty

Modifications

Observed in the structure: 1 modified (oxidation).

Compared structures

5DWC · Crystal structure of restriction endonuclease AgeI · the same entry in another collection · chain A against A, TM-score 1.00
Q9KHV6 · AlphaFold monomer V2.0 prediction for type-2 restriction enzyme agei (Q9KHV6) · a predicted model of the same protein · chain A against A, TM-score 0.97

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 Q9KHV6
Elsewhere: RCSB PDB 5DWC · PDBe 5DWC · UniProt Q9KHV6

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