MolNFT v1 · #135612 · protein
1.95 ångström resolution crystal structure of penicillin binding protein 2X from streptococcus thermophilus
5U47: “1.95 ångström resolution crystal structure of penicillin binding protein 2X from streptococcus thermophilus”. X-ray diffraction, 1 ligand (CL), 6 pockets (best druggability 0.70). MolNFT v1 #135612 on GenesisL1: 3D structure…
- PDB
- 5U47
- Type
- protein
- Length
- 684 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Penicillin binding protein 2X
- UniProt
- Q5M2U8
- Ligands
- CL
- Pockets
- 6 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 29% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Penicillin binding protein 2X | protein | 684 | 29% helix, 26% strand | Q5M2U8 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 379 | 0.70 | 0.82 | 45 | CL |
| 2 | 375 | 0.60 | 0.77 | 42 | empty |
| 3 | 219 | 0.53 | 0.77 | 32 | empty |
| 4 | 76 | 0.46 | 0.82 | 22 | empty |
| 5 | 81 | 0.43 | 0.80 | 17 | empty |
Compared structures
- 5U47 · 1.95 Angstrom Resolution Crystal Structure of Penicillin Binding Protein 2X from… · 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 Q5M2U8
- Elsewhere: RCSB PDB 5U47 · PDBe 5U47 · UniProt Q5M2U8
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