MolNFT v1 · #151494 · protein
Crystal structure of human PIF1 helicase in complex with AMP-pnp
6HPH · ATP-dependent DNA helicase PIF1: “Crystal structure of human PIF1 helicase in complex with AMP-pnp”. X-ray diffraction, 2 ligands (ANP, MG), 3 pockets (best druggability 0.77). MolNFT v1 #151494 on GenesisL1: 3D structure, binding…
- PDB
- 6HPH
- Type
- protein
- Length
- 418 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ATP-dependent DNA helicase PIF1
- EC
- 3.6.4.12
- UniProt
- Q9H611
- Ligands
- ANP, MG
- Pockets
- 3 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ATP-dependent DNA helicase PIF1 (EC 3.6.4.12) | protein | 418 | 37% helix, 23% strand | Q9H611 |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · chains A
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 953 | 0.77 | 0.80 | 104 | ANP, MG |
| 2 | 119 | 0.42 | 0.76 | 25 | empty |
| 3 | 84 | 0.38 | 0.77 | 17 | empty |
Compared structures
- 6HPH · Crystal structure of human Pif1 helicase in complex with AMP-PNP · the same entry in another collection · chain A against A, TM-score 1.00
- Q9H611 · AlphaFold monomer V2.0 prediction for ATP-dependent DNA helicase PIF1 (Q9H611) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q9H611
- Elsewhere: RCSB PDB 6HPH · PDBe 6HPH · UniProt Q9H611
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