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YCF48 bound to D1 peptide

Analyse YCF48 bound to D1 peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5OJ5
Type: protein
Length: 316 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: YCF48-like protein; Phe-pro-leu-asp-leu-ala
UniProt: Q8DI95
Pockets: 1 · best druggability 0.73

Structure

x-ray diffraction · 2 distinct chains · 2% helix, 45% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	YCF48-like protein	protein	310	2% helix, 46% strand	Q8DI95
B	Phe-pro-leu-asp-leu-ala	protein	6	0% helix, 17% strand	—

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	726	0.73	0.79	45	empty

Interfaces

1 interface between chains.

A–B · 325 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

5OJ5 · YCF48 bound to D1 peptide · the same entry in another collection · chain A against A, TM-score 1.00
Q8DI95 · AlphaFold monomer V2.0 prediction for YCF48-like protein (Q8DI95) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 Q8DI95
Elsewhere: RCSB PDB 5OJ5 · PDBe 5OJ5 · UniProt Q8DI95

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