MolNFT v1 · #18130 · protein
Crystal structure of human pnp complexed with immucillin H
1PF7 · Purine nucleoside phosphorylase: “Crystal structure of human pnp complexed with immucillin H”. X-ray diffraction, 2 ligands (IMH, SO4), 2 pockets (best druggability 0.62). MolNFT v1 #18130 on GenesisL1: 3D structure, binding sites…
- PDB
- 1PF7
- Type
- protein
- Length
- 288 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Purine nucleoside phosphorylase
- EC
- 2.4.2.1
- UniProt
- P00491
- Ligands
- IMH, SO4
- Pockets
- 2 · best druggability 0.62
Structure
x-ray diffraction · 1 distinct chain · 34% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E | Purine nucleoside phosphorylase (EC 2.4.2.1) | protein | 288 | 34% helix, 23% strand | P00491 |
Ligands and binding sites
- IMH · 1,4-dideoxy-4-aza-1-(S)-(9-deazahypoxanthin-9-yl)-D-ribitol · ligand · chains E
- SO4 · Sulfate ion · ion · 3 copies · chains E
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 | 306 | 0.62 | 0.79 | 52 | SO4, IMH |
| 2 | 56 | 0.25 | 0.72 | 12 | empty |
Compared structures
- 1PF7 · Crystal structure of human pnp complexed with immucillin H · the same entry in another collection · chain E against E, TM-score 1.00
- P00491 · AlphaFold monomer V2.0 prediction for purine nucleoside phosphorylase (P00491) · a predicted model of the same protein · chain E 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 P00491
- Elsewhere: RCSB PDB 1PF7 · PDBe 1PF7 · UniProt P00491
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