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Disulfide bonded eutl from clostridium perfringens

Analyse Disulfide bonded eutl from clostridium perfringens in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4EDI
Type: protein
Length: 659 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ethanolamine utilization protein
UniProt: Q8XLZ0
Ligands: NA
Pockets: 6 · best druggability 0.53

Structure

x-ray diffraction · 3 distinct chains · 37% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ethanolamine utilization protein	protein	216	37% helix, 27% strand	Q8XLZ0
B	Ethanolamine utilization protein	protein	218	36% helix, 28% strand	Q8XLZ0
C	Ethanolamine utilization protein	protein	225	38% helix, 26% strand	Q8XLZ0

Ligands and binding sites

NA · Sodium ion · metal · chains A, B, C

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	134	0.53	0.81	24	empty
2	139	0.52	0.80	22	empty
3	127	0.51	0.80	23	empty
4	133	0.47	0.78	22	empty
5	111	0.46	0.79	22	empty

Interfaces

3 interfaces between chains.

A–C · 1684 Å² buried · 18 hydrogen bonds · protein-protein
B–C · 1569 Å² buried · 16 hydrogen bonds · protein-protein
A–B · 1435 Å² buried · 15 hydrogen bonds · protein-protein

Compared structures

4EDI · Disulfide bonded EutL from Clostridium perfringens · the same entry in another collection · chain A against A, TM-score 1.00
Q8XLZ0 · AlphaFold monomer V2.0 prediction for bacterial microcompartment shell protein eutl… · a predicted model of the same protein · 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
Every structure of UniProt Q8XLZ0
Elsewhere: RCSB PDB 4EDI · PDBe 4EDI · UniProt Q8XLZ0

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