MolNFT v1 · #39569 · protein

Crystal structure of human apo-EIF4AIII

2HXY · Probable ATP-dependent RNA helicase DDX48: “Crystal structure of human apo-EIF4AIII”. X-ray diffraction, 16 pockets (best druggability 0.82). MolNFT v1 #39569 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2HXY
Type: protein
Length: 1,504 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Probable ATP-dependent RNA helicase DDX48
EC: 3.6.1.-
UniProt: P38919
Pockets: 16 · best druggability 0.82

Structure

x-ray diffraction · 1 distinct chain · 39% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D	Probable ATP-dependent RNA helicase DDX48 (EC 3.6.1.-)	protein	376	39% helix, 15% strand	P38919

Pockets

16 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1077	0.82	0.83	98	empty
2	933	0.78	0.80	76	empty
3	793	0.74	0.79	67	empty
4	87	0.73	0.96	23	empty
5	195	0.66	0.85	34	empty

Interfaces

2 interfaces between chains.

C–D · 869 Å² buried · 7 hydrogen bonds · protein-protein
B–C · 591 Å² buried · 12 hydrogen bonds · protein-protein

Compared structures

2HXY · Crystal structure of human apo-eIF4AIII · the same entry in another collection · chain A against A, TM-score 1.00
P38919 · AlphaFold monomer V2.0 prediction for eukaryotic initiation factor 4A-III (P38919) · a predicted model of the same protein · chain A against A, TM-score 0.53

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 P38919
Elsewhere: RCSB PDB 2HXY · PDBe 2HXY · UniProt P38919

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