MolNFT v1 · #90945 · protein
Crystal structure of cyclophilin a like protein from piriformospora indica
4EYV · Peptidyl-prolyl cis-trans isomerase: “Crystal structure of cyclophilin a like protein from piriformospora indica”. X-ray diffraction, 3 ligands (NA, K, PO4), 4 pockets (best druggability 0.54). MolNFT v1 #90945 on GenesisL1: 3D…
- PDB
- 4EYV
- Type
- protein
- Length
- 486 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Peptidyl-prolyl cis-trans isomerase
- EC
- 5.2.1.8
- UniProt
- C6KGV3
- Ligands
- NA, K, PO4
- Pockets
- 4 · best druggability 0.54
Structure
x-ray diffraction · 1 distinct chain · 14% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | protein | 162 | 14% helix, 32% strand | C6KGV3 |
Ligands and binding sites
- NA · Sodium ion · metal · 10 copies · chains A, B, C
- K · Potassium ion · metal · 4 copies · chains A, B, C
- PO4 · Phosphate ion · ion · chains A, B
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 | 307 | 0.54 | 0.75 | 48 | PO4 |
| 2 | 54 | 0.30 | 0.76 | 15 | empty |
| 3 | 57 | 0.29 | 0.75 | 16 | empty |
| 4 | 59 | 0.28 | 0.74 | 16 | empty |
Interfaces
2 interfaces between chains.
- A–B · 620 Ų buried · 10 hydrogen bonds · protein-protein
- A–C · 346 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 4EYV · Crystal structure of Cyclophilin A like protein from Piriformospora indica · 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 C6KGV3
- Elsewhere: RCSB PDB 4EYV · PDBe 4EYV · UniProt C6KGV3
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