MolNFT v1 · #136795 · protein

Crystal structure of the SR1 domain of human sacsin

5V44: “Crystal structure of the SR1 domain of human sacsin”. X-ray diffraction, 5 pockets (best druggability 0.71). MolNFT v1 #136795 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5V44
Type: protein
Length: 698 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Sacsin
UniProt: Q9NZJ4
Pockets: 5 · best druggability 0.71

Structure

x-ray diffraction · 3 distinct chains · 36% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Sacsin	protein	225	36% helix, 23% strand	Q9NZJ4
B	Sacsin	protein	231	35% helix, 23% strand	Q9NZJ4
C	Sacsin	protein	242	36% helix, 21% strand	Q9NZJ4

Ligands and binding sites

GOL · Glycerol · additive · 6 copies · chains A, C, B

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

Pockets

5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	560	0.71	0.80	56	GOL
2	444	0.61	0.76	44	GOL
3	210	0.54	0.78	39	empty
4	115	0.51	0.81	20	empty
5	53	0.40	0.81	16	empty

Interfaces

2 interfaces between chains.

A–C · 718 Å² buried · 8 hydrogen bonds · protein-protein
B–C · 151 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 modified (engineered).

Compared structures

5V44 · Crystal structure of the SR1 domain of human sacsin · 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 Q9NZJ4
Elsewhere: RCSB PDB 5V44 · PDBe 5V44 · UniProt Q9NZJ4

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