MolNFT v1 · #127489 · protein

Ks-mat di-domain of mouse fas

5MY2 · Fatty acid synthase: “Ks-mat di-domain of mouse fas”. X-ray diffraction, 1 ligand (COA), 20 pockets (best druggability 0.85). MolNFT v1 #127489 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5MY2
Type: protein
Length: 3,396 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Fatty acid synthase
EC: 2.3.1.85, 2.3.1.38, 2.3.1.39, 2.3.1.41, 1.1.1.100, 4.2.1.59, 1.3.1.39, 3.1.2.14
UniProt: P19096
Ligands: COA
Pockets: 20 · best druggability 0.85

Structure

x-ray diffraction · 3 distinct chains · 39% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D	Fatty acid synthase (EC 2.3.1.85, 2.3.1.38, 2.3.1.39, 2.3.1.41, 1.1.1.100, 4.2.1.59, 1.3.1.39, 3.1.2.14)	protein	852	39% helix, 18% strand	P19096
B	Fatty acid synthase (EC 2.3.1.85, 2.3.1.38, 2.3.1.39, 2.3.1.41, 1.1.1.100, 4.2.1.59, 1.3.1.39, 3.1.2.14)	protein	844	39% helix, 18% strand	P19096
C	Fatty acid synthase (EC 2.3.1.85, 2.3.1.38, 2.3.1.39, 2.3.1.41, 1.1.1.100, 4.2.1.59, 1.3.1.39, 3.1.2.14)	protein	848	39% helix, 18% strand	P19096

Ligands and binding sites

COA · Coenzyme A · ligand · chains D

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

Pockets

20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	289	0.85	0.96	58	empty
2	304	0.85	0.95	57	empty
3	1062	0.80	0.82	98	empty
4	572	0.75	0.82	64	empty
5	170	0.70	0.88	31	empty

Interfaces

3 interfaces between chains.

C–D · 2695 Å² buried · 46 hydrogen bonds · protein-protein
A–B · 2661 Å² buried · 41 hydrogen bonds · protein-protein
B–C · 1233 Å² buried · 8 hydrogen bonds · protein-protein

Compared structures

5MY2 · Ks-mat di-domain of mouse fas · the same entry in another collection · chain D against D, TM-score 1.00
P19096 · AlphaFold monomer V2.0 prediction for fatty acid synthase (P19096) · a predicted model of the same protein · chain C 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 P19096
Elsewhere: RCSB PDB 5MY2 · PDBe 5MY2 · UniProt P19096

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.