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The structure of a degv family protein from eubacterium eligens.

Analyse The structure of a degv family protein from eubacterium eligens. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3FDJ
Type: protein
Length: 276 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Degv family protein
Ligands: NA
Pockets: 3 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 40% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Degv family protein	protein	276	40% helix, 25% strand	—

Ligands and binding sites

NA · Sodium ion · metal · chains A
P6G · Hexaethylene glycol · additive · chains A
EDO · 1,2-ethanediol · additive · chains A
PG4 · Tetraethylene glycol · additive · chains A
ACY · Acetic acid · additive · chains 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.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	160	0.78	0.94	29	P6G
2	62	0.38	0.79	14	empty
3	72	0.36	0.77	15	EDO

Modifications

Observed in the structure: 9 modified (engineered).

Compared structures

3FDJ · The structure of a DegV family protein from Eubacterium eligens. · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 3FDJ · PDBe 3FDJ

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