MolNFT v1 · #50192 · protein
3-methylbenzylazide in complex with T4 lysozyme L99A
2RB2: “3-methylbenzylazide in complex with T4 lysozyme L99A”. X-ray diffraction, 2 ligands (263, PO4), 2 pockets (best druggability 0.73). MolNFT v1 #50192 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2RB2
- Type
- protein
- Length
- 162 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lysozyme
- EC
- 3.2.1.17
- UniProt
- P00720
- Ligands
- 263, PO4
- Pockets
- 2 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 66% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| X | Lysozyme (EC 3.2.1.17) | protein | 162 | 66% helix, 8% strand | P00720 |
Ligands and binding sites
- 263 · 1-(azidomethyl)-3-methylbenzene · ligand · chains X
- PO4 · Phosphate ion · ion · 3 copies · chains X
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 63 | 0.73 | 0.97 | 15 | 263 |
| 2 | 218 | 0.52 | 0.77 | 31 | empty |
Compared structures
- 2RB2 · 3-methylbenzylazide in complex with T4 lysozyme L99A · the same entry in another collection · chain X against X, 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 P00720
- Elsewhere: RCSB PDB 2RB2 · PDBe 2RB2 · UniProt P00720
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