MolNFT v1 · #113985 · protein
Crystal structure of ERDJ5 form II
5AYL · Dnaj homolog subfamily C member 10: “Crystal structure of ERDJ5 form II”. X-ray diffraction, 1 ligand (1PS), 10 pockets (best druggability 0.79). MolNFT v1 #113985 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5AYL
- Type
- protein
- Length
- 743 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dnaj homolog subfamily C member 10
- EC
- 1.8.4.-
- UniProt
- Q9DC23
- Ligands
- 1PS
- Pockets
- 10 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 38% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Dnaj homolog subfamily C member 10 (EC 1.8.4.-) | protein | 743 | 38% helix, 20% strand | Q9DC23 |
Ligands and binding sites
- 1PS · 3-pyridinium-1-ylpropane-1-sulfonate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 718 | 0.79 | 0.83 | 69 | empty |
| 2 | 811 | 0.78 | 0.82 | 67 | empty |
| 3 | 305 | 0.65 | 0.81 | 41 | empty |
| 4 | 242 | 0.61 | 0.80 | 47 | empty |
| 5 | 199 | 0.50 | 0.76 | 28 | empty |
Modifications
Observed in the structure: 7 disulfide (disulfide).
Compared structures
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 Q9DC23
- Elsewhere: RCSB PDB 5AYL · PDBe 5AYL · UniProt Q9DC23
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