MolNFT v1 · #115119 · protein

Structure of the C. elegans nono-1 homodimer

5CA5: “Structure of the C. elegans nono-1 homodimer”. X-ray diffraction, 6 pockets (best druggability 0.81). MolNFT v1 #115119 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5CA5
Type: protein
Length: 496 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nono-1
UniProt: B3GWA1
Pockets: 6 · best druggability 0.81

Structure

x-ray diffraction · 1 distinct chain · 42% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Nono-1	protein	248	42% helix, 21% strand	B3GWA1

Ligands and binding sites

EDO · 1,2-ethanediol · additive · 4 copies · chains A, B

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1189	0.81	0.82	103	empty
2	181	0.47	0.75	29	EDO
3	149	0.45	0.76	22	empty
4	78	0.37	0.77	14	empty
5	78	0.35	0.76	14	empty

Interfaces

1 interface between chains.

A–B · 4424 Å² buried · 61 hydrogen bonds · protein-protein

Compared structures

5CA5 · Structure of the C. elegans NONO-1 homodimer · 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 B3GWA1
Elsewhere: RCSB PDB 5CA5 · PDBe 5CA5 · UniProt B3GWA1

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