Research workbench
Structure of human FRIZZLED5 by fiducial-assisted cryo-EM
Analyse Structure of human FRIZZLED5 by fiducial-assisted cryo-EM in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- 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.
| Volume (ų) | 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 Ų buried · 9 hydrogen bonds · protein-protein
- K–L · 728 Ų buried · 9 hydrogen bonds · protein-protein
- L–R · 484 Ų buried · 6 hydrogen bonds · protein-protein
- H–R · 347 Ų 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
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