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Human myelin P2 protein, K65Q mutant

Analyse Human myelin P2 protein, K65Q mutant in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4A1Y
Type: protein
Length: 532 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Myelin P2 protein
UniProt: P02689
Ligands: PLM, CL
Pockets: 6 · best druggability 0.83

Structure

x-ray diffraction · 1 distinct chain · 15% helix, 60% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D	Myelin P2 protein	protein	133	15% helix, 60% strand	P02689

Ligands and binding sites

PLM · Palmitic acid · ligand · 4 copies · chains A, B, C, D
CL · Chloride ion · ion · 3 copies · chains A, C, D

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	394	0.83	0.91	39	PLM
2	363	0.82	0.91	37	PLM
3	366	0.82	0.91	37	PLM
4	387	0.81	0.90	42	CL, PLM
5	1006	0.78	0.79	101	empty

Interfaces

5 interfaces between chains.

A–C · 545 Å² buried · 14 hydrogen bonds · protein-protein
A–D · 194 Å² buried · 2 hydrogen bonds · protein-protein
B–C · 170 Å² buried · 0 hydrogen bonds · protein-protein
A–B · 170 Å² buried · 4 hydrogen bonds · protein-protein
B–D · 170 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

4A1Y · Human myelin P2 protein, K65Q mutant · the same entry in another collection · chain A against A, TM-score 1.00
P02689 · AlphaFold monomer V2.0 prediction for myelin P2 protein (P02689) · 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 P02689
Elsewhere: RCSB PDB 4A1Y · PDBe 4A1Y · UniProt P02689

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