Research workbench

Cryo-EM of self-assembly peptide filament HEAT_R1

Analyse Cryo-EM of self-assembly peptide filament HEAT_R1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6MK1
Type: protein
Length: 1,560 residues
Chains: 52
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Peptide HEAT_R1
Pockets: 20 · best druggability 0.50

Structure

electron microscopy · 1 distinct chain · 80% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, a, B, b, C, c, D, d, E, e, F, f, G, g, H, h, I, i, J, j, K, k, L, l, M, m, N, n, O, o, P, p, Q, q, R, r, S, s, T, t, U, u, V, v, W, w, X, x, Y, y, Z, z	Peptide HEAT_R1	protein	30	80% helix, 0% strand	—

Pockets

20 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	231	0.50	0.75	21	empty
2	239	0.49	0.74	24	empty
3	207	0.48	0.75	22	empty
4	195	0.48	0.75	19	empty
5	200	0.48	0.75	20	empty

Interfaces

116 interfaces between chains.

S–s · 609 Å² buried · 3 hydrogen bonds · protein-protein
D–d · 609 Å² buried · 3 hydrogen bonds · protein-protein
C–c · 609 Å² buried · 3 hydrogen bonds · protein-protein
G–g · 609 Å² buried · 3 hydrogen bonds · protein-protein
E–e · 609 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

6MK1 · Cryo-EM of self-assembly peptide filament HEAT_R1 · the same entry in another collection · chain e against e, 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
Elsewhere: RCSB PDB 6MK1 · PDBe 6MK1

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