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Structure of the apo EEF2-eta complex

Analyse Structure of the apo EEF2-eta complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1ZM3
Type: protein
Length: 3,090 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Elongation factor 2; Exotoxin a
EC: 2.4.2.36
UniProt: P32324
Pockets: 20 · best druggability 0.81

Structure

x-ray diffraction · 2 distinct chains · 35% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C, E	Elongation factor 2	protein	823	37% helix, 26% strand	P32324
B, D, F	Exotoxin a (EC 2.4.2.36)	protein	207	27% helix, 23% strand	—

Pockets

20 pockets found on a 1 Å grid, 15 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1115	0.81	0.82	101	empty
2	938	0.79	0.81	70	empty
3	498	0.78	0.85	53	empty
4	1053	0.76	0.79	114	empty
5	1000	0.76	0.78	102	empty

Interfaces

6 interfaces between chains.

E–F · 870 Å² buried · 10 hydrogen bonds · protein-protein
A–B · 819 Å² buried · 6 hydrogen bonds · protein-protein
C–D · 814 Å² buried · 2 hydrogen bonds · protein-protein
A–F · 309 Å² buried · 6 hydrogen bonds · protein-protein
B–C · 304 Å² buried · 3 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 3 modified (nonstandard).

Compared structures

1ZM3 · Structure of the apo eEF2-ETA complex · the same entry in another collection · chain F against F, TM-score 1.00
P32324 · AlphaFold monomer V2.0 prediction for elongation factor 2 (P32324) · a predicted model of the same protein · chain C against A, TM-score 0.66

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 P32324
Elsewhere: RCSB PDB 1ZM3 · PDBe 1ZM3 · UniProt P32324

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