MolNFT v1 · #168949 · protein

Structure of human FRIZZLED5 by fiducial-assisted cryo-EM

6WW2 · Anti-bril Fab heavy chain: “Structure of human FRIZZLED5 by fiducial-assisted cryo-EM”. Electron microscopy, 10 pockets (best druggability 0.85). MolNFT v1 #168949 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6WW2
Type: protein
Length: 982 residues
Chains: 4
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Anti-bril Fab heavy chain; Anti-Fab nanobody; Anti-bril Fab light chain…
UniProt: Q13467, P0ABE7
Pockets: 10 · best druggability 0.85

Structure

electron microscopy · 4 distinct chains · 35% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	Anti-bril Fab heavy chain	protein	225	6% helix, 45% strand	—
K	Anti-Fab nanobody	protein	120	3% helix, 50% strand	—
L	Anti-bril Fab light chain	protein	212	3% helix, 47% strand	—
R	Frizzled-5,SOLUBLE cytochrome B562	protein	425	75% helix, 2% strand	Q13467, P0ABE7

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	515	0.85	0.90	71	empty
2	61	0.59	0.90	19	empty
3	90	0.58	0.86	18	empty
4	194	0.50	0.77	31	empty
5	208	0.50	0.76	33	empty

Interfaces

4 interfaces between chains.

H–L · 1985 Å² buried · 9 hydrogen bonds · protein-protein
K–L · 728 Å² buried · 9 hydrogen bonds · protein-protein
L–R · 484 Å² buried · 6 hydrogen bonds · protein-protein
H–R · 347 Å² buried · 2 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 7 disulfide (disulfide).

Compared structures

6WW2 · Structure of human Frizzled5 by fiducial-assisted cryo-EM · the same entry in another collection · chain H against H, TM-score 1.00
Q13467 · AlphaFold monomer V2.0 prediction for frizzled-5 (Q13467) · a predicted model of the same protein · chain R against A, TM-score 0.75
P0ABE7 · AlphaFold monomer V2.0 prediction for soluble cytochrome B562 (P0ABE7) · a predicted model of the same protein · chain R against A, TM-score 0.24

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 Q13467
Every structure of UniProt P0ABE7
Elsewhere: RCSB PDB 6WW2 · PDBe 6WW2 · UniProt Q13467 · UniProt P0ABE7

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