MolNFT v1 · #28410 · protein
Crystal structure of a had-like phosphatase from streptococcus pneumoniae
1YDF · Hydrolase, haloacid dehalogenase-like family: “Crystal structure of a had-like phosphatase from streptococcus pneumoniae”. X-ray diffraction, 1 ligand (MG), 2 pockets (best druggability 0.69). MolNFT v1 #28410 on GenesisL1: 3D…
- PDB
- 1YDF
- Type
- protein
- Length
- 255 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hydrolase, haloacid dehalogenase-like family
- UniProt
- Q97Q24
- Ligands
- MG
- Pockets
- 2 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hydrolase, haloacid dehalogenase-like family | protein | 255 | 39% helix, 21% strand | Q97Q24 |
Ligands and binding sites
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 368 | 0.69 | 0.81 | 42 | MG |
| 2 | 69 | 0.43 | 0.81 | 15 | empty |
Compared structures
- 1YDF · Crystal structure of a HAD-like phosphatase from Streptococcus pneumoniae · 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 Q97Q24
- Elsewhere: RCSB PDB 1YDF · PDBe 1YDF · UniProt Q97Q24
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