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Lipidic alpha-synuclein fibril - polymorph L2A

Analyse Lipidic alpha-synuclein fibril - polymorph L2A in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 8A4L
Type: protein
Length: 1,125 residues
Chains: 15
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Alpha-synuclein
UniProt: P37840
Pockets: 10 · best druggability 0.70

Structure

electron microscopy · 1 distinct chain · 0% helix, 73% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J, K, L, M, O, P	Alpha-synuclein	protein	75	0% helix, 73% strand	P37840

Pockets

10 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	158	0.70	0.89	36	empty
2	162	0.69	0.89	36	empty
3	161	0.68	0.88	37	empty
4	107	0.37	0.75	24	empty
5	100	0.34	0.74	22	empty

Interfaces

12 interfaces between chains.

A–B · 2853 Å² buried · 107 hydrogen bonds · protein-protein
B–C · 2852 Å² buried · 107 hydrogen bonds · protein-protein
C–D · 2851 Å² buried · 107 hydrogen bonds · protein-protein
D–E · 2850 Å² buried · 107 hydrogen bonds · protein-protein
I–J · 2847 Å² buried · 107 hydrogen bonds · protein-protein

Compared structures

8A4L · Lipidic alpha-synuclein fibril - polymorph L2A · the same entry in another collection · chain A against A, TM-score 1.00

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 P37840
Elsewhere: RCSB PDB 8A4L · PDBe 8A4L · UniProt P37840

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