MolNFT v1 · #8675 · protein
Schiff-base complex of yeast 5-aminolaevulinic acid dehydratase with 4-keto-5-amino-hexanoic (kah) at 1.64 a resolution
1H7P: “Schiff-base complex of yeast 5-aminolaevulinic acid dehydratase with 4-keto-5-amino-hexanoic (kah) at 1.64 a…”. X-ray diffraction, 2 ligands (KAH, ZN), 4 pockets (best druggability 0.65). MolNFT v1 #8675 on GenesisL1: 3D structure…
- PDB
- 1H7P
- Type
- protein
- Length
- 340 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5-aminolaevulinic acid dehydratase
- EC
- 4.2.1.24
- UniProt
- P05373
- Ligands
- KAH, ZN
- Pockets
- 4 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 5-aminolaevulinic acid dehydratase (EC 4.2.1.24) | protein | 340 | 40% helix, 17% strand | P05373 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 86 | 0.65 | 0.91 | 26 | KAH |
| 2 | 60 | 0.36 | 0.77 | 13 | empty |
| 3 | 93 | 0.36 | 0.75 | 20 | empty |
| 4 | 54 | 0.27 | 0.74 | 14 | empty |
Modifications
Observed in the structure: 1 covalent (covalent ligand).
Compared structures
- 1H7P · Schiff-base complex of yeast 5-aminolaevulinic acid dehydratase with… · the same entry in another collection · chain A against A, TM-score 1.00
- P05373 · AlphaFold monomer V2.0 prediction for delta-aminolevulinic acid dehydratase (P05373) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 P05373
- Elsewhere: RCSB PDB 1H7P · PDBe 1H7P · UniProt P05373
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