MolNFT v1 · #144901 · protein
Crystal structure of PBP5 from enterococcus faecium
6C84 · Penicillin-binding protein: “Crystal structure of PBP5 from enterococcus faecium”. X-ray diffraction, 15 pockets (best druggability 0.68). MolNFT v1 #144901 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6C84
- Type
- protein
- Length
- 1,281 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Penicillin-binding protein
- UniProt
- A0A133MY97
- Pockets
- 15 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 30% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Penicillin-binding protein | protein | 640 | 31% helix, 21% strand | A0A133MY97 |
| B | Penicillin-binding protein | protein | 641 | 30% helix, 24% strand | A0A133MY97 |
Pockets
15 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 124 | 0.68 | 0.89 | 27 | empty |
| 2 | 308 | 0.63 | 0.80 | 28 | empty |
| 3 | 288 | 0.58 | 0.78 | 45 | empty |
| 4 | 335 | 0.56 | 0.76 | 41 | empty |
| 5 | 211 | 0.50 | 0.76 | 36 | empty |
Interfaces
1 interface between chains.
- A–B · 112 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 6C84 · Crystal structure of PBP5 from Enterococcus faecium · the same entry in another collection · chain B against B, 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 A0A133MY97
- Elsewhere: RCSB PDB 6C84 · PDBe 6C84 · UniProt A0A133MY97
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