MolNFT v1 · #93939 · protein
Crystal structure of ceramide transfer protein pleckstrin homology domain
4HHV · Collagen type IV alpha-3-binding protein: “Crystal structure of ceramide transfer protein pleckstrin homology domain”. X-ray diffraction, 2 ligands (CL, SO4), 1 pocket (best druggability 0.59). MolNFT v1 #93939 on GenesisL1: 3D…
- PDB
- 4HHV
- Type
- protein
- Length
- 204 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Collagen type IV alpha-3-binding protein
- UniProt
- Q9Y5P4
- Ligands
- CL, SO4
- Pockets
- 1 · best druggability 0.59
Structure
x-ray diffraction · 2 distinct chains · 18% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Collagen type IV alpha-3-binding protein | protein | 103 | 17% helix, 46% strand | Q9Y5P4 |
| B | Collagen type IV alpha-3-binding protein | protein | 101 | 18% helix, 44% strand | Q9Y5P4 |
Ligands and binding sites
- CL · Chloride ion · ion · 3 copies · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
- GOL · Glycerol · additive · 3 copies · chains A, B
- ACT · Acetate ion · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 283 | 0.59 | 0.78 | 44 | GOL, CL |
Interfaces
1 interface between chains.
- A–B · 745 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 4HHV · Crystal structure of ceramide transfer protein pleckstrin homology domain · the same entry in another collection · chain A against A, TM-score 1.00
- Q9Y5P4 · AlphaFold monomer V2.0 prediction for ceramide transfer protein (Q9Y5P4) · a predicted model of the same protein · chain B against A, TM-score 0.95
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 Q9Y5P4
- Elsewhere: RCSB PDB 4HHV · PDBe 4HHV · UniProt Q9Y5P4
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