MolNFT v1 · #125132 · protein
Crystal structure of the xenopus smoothened cysteine-rich domain (crd) in its apo-form
5KZZ: “Crystal structure of the xenopus smoothened cysteine-rich domain (crd) in its apo-form”. X-ray diffraction, 1 ligand (ZN), 1 pocket (best druggability 0.29). MolNFT v1 #125132 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5KZZ
- Type
- protein
- Length
- 116 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Smoothened
- UniProt
- Q98SW5
- Ligands
- ZN
- Pockets
- 1 · best druggability 0.29
Structure
x-ray diffraction · 1 distinct chain · 38% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Smoothened | protein | 116 | 38% helix, 14% strand | Q98SW5 |
Ligands and binding sites
- ZN · Zinc ion · metal · 5 copies · chains A
- ACT · Acetate ion · additive · 2 copies · chains A
- GOL · Glycerol · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 68 | 0.29 | 0.73 | 17 | empty |
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 5KZZ · Crystal structure of the xenopus Smoothened cysteine-rich domain (CRD) in its apo-form · 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 Q98SW5
- Elsewhere: RCSB PDB 5KZZ · PDBe 5KZZ · UniProt Q98SW5
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