MolNFT v1 · #134440 · protein

Crystal structure of the D. melanogaster EIF4E-EIF4G complex

5T47 · Eukaryotic translation initiation factor 4E: “Crystal structure of the D. melanogaster EIF4E-EIF4G complex”. X-ray diffraction, 7 pockets (best druggability 0.74). MolNFT v1 #134440 on GenesisL1: 3D structure, binding sites and…

PDB: 5T47
Type: protein
Length: 442 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Eukaryotic translation initiation factor 4E; Eukaryotic translation initiation factor 4G…
UniProt: P48598, O61380
Pockets: 7 · best druggability 0.74

Structure

x-ray diffraction · 4 distinct chains · 27% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Eukaryotic translation initiation factor 4E	protein	170	26% helix, 35% strand	P48598
B	Eukaryotic translation initiation factor 4G, isoform a	protein	46	26% helix, 9% strand	O61380
C	Eukaryotic translation initiation factor 4E	protein	170	29% helix, 32% strand	P48598
D	Eukaryotic translation initiation factor 4G, isoform a	protein	56	29% helix, 7% strand	O61380

Ligands and binding sites

GOL · Glycerol · additive · 2 copies · chains A, C, B

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

Pockets

7 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	588	0.74	0.81	56	GOL
2	138	0.44	0.76	22	empty
3	140	0.42	0.75	23	GOL
4	101	0.37	0.75	19	empty
5	116	0.37	0.74	20	empty

Interfaces

5 interfaces between chains.

C–D · 1533 Å² buried · 20 hydrogen bonds · protein-protein
A–B · 1381 Å² buried · 19 hydrogen bonds · protein-protein
A–C · 336 Å² buried · 6 hydrogen bonds · protein-protein
A–D · 218 Å² buried · 4 hydrogen bonds · protein-protein
B–C · 217 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

5T47 · Crystal structure of the D. melanogaster eIF4E-eIF4G complex · the same entry in another collection · chain A against A, TM-score 1.00
P48598 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 4E1… · a predicted model of the same protein · chain A against A, TM-score 0.98

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 P48598
Every structure of UniProt O61380
Elsewhere: RCSB PDB 5T47 · PDBe 5T47 · UniProt P48598 · UniProt O61380

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