MolNFT v1 · #37011 · protein

The crystal structure of the 13TH PDZ domain of mpdz

2FNE · Multiple PDZ domain protein: “The crystal structure of the 13TH PDZ domain of mpdz”. X-ray diffraction, 3 pockets (best druggability 0.61). MolNFT v1 #37011 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2FNE
Type: protein
Length: 299 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Multiple PDZ domain protein
UniProt: Q5VZ62
Pockets: 3 · best druggability 0.61

Structure

x-ray diffraction · 3 distinct chains · 16% helix, 42% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Multiple PDZ domain protein	protein	95	16% helix, 46% strand	Q5VZ62
B	Multiple PDZ domain protein	protein	100	15% helix, 43% strand	Q5VZ62
C	Multiple PDZ domain protein	protein	104	17% helix, 38% strand	Q5VZ62

Pockets

3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	447	0.61	0.76	55	empty
2	283	0.58	0.78	45	empty
3	55	0.32	0.76	12	empty

Interfaces

2 interfaces between chains.

B–C · 787 Å² buried · 19 hydrogen bonds · protein-protein
A–B · 462 Å² buried · 14 hydrogen bonds · protein-protein

Compared structures

2FNE · The crystal structure of the 13th PDZ domain of MPDZ · 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 Q5VZ62
Elsewhere: RCSB PDB 2FNE · PDBe 2FNE · UniProt Q5VZ62

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