MolNFT v1 · #185634 · protein

Type II beta-amyloid 42 filaments from human brain

7Q4M · Amyloid-beta precursor protein: “Type II beta-amyloid 42 filaments from human brain”. Electron microscopy, 1 ligand (UNX), 2 pockets (best druggability 0.28). MolNFT v1 #185634 on GenesisL1: 3D structure, binding sites and pockets…

PDB: 7Q4M
Type: protein
Length: 310 residues
Chains: 10
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Amyloid-beta precursor protein
UniProt: P05067
Ligands: UNX
Pockets: 2 · best druggability 0.28

Structure

electron microscopy · 1 distinct chain · 0% helix, 61% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J	Amyloid-beta precursor protein	protein	31	0% helix, 61% strand	P05067

Ligands and binding sites

UNX · Unknown atom or ion · ion · 10 copies · chains A, C, B, D, E, F, G, H, I, J

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

Pockets

2 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	78	0.28	0.73	20	empty
2	70	0.26	0.72	20	empty

Interfaces

21 interfaces between chains.

B–D · 1234 Å² buried · 36 hydrogen bonds · protein-protein
B–H · 1223 Å² buried · 32 hydrogen bonds · protein-protein
D–F · 1220 Å² buried · 34 hydrogen bonds · protein-protein
A–C · 1219 Å² buried · 33 hydrogen bonds · protein-protein
G–I · 1216 Å² buried · 32 hydrogen bonds · protein-protein

Compared structures

7Q4M · Type II beta-amyloid 42 Filaments from Human Brain · the same entry in another collection · chain J against J, TM-score 1.00
P05067 · AlphaFold monomer V2.0 prediction for amyloid-beta precursor protein (P05067) · a predicted model of the same protein · chain F against A, TM-score 0.28

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 P05067
Elsewhere: RCSB PDB 7Q4M · PDBe 7Q4M · UniProt P05067

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