MolNFT v1 · #88856 · protein
Crystal structure of a chimeric protein with the SEC7 domain of legionella pneumophila ralf and the capping domain of rickettsia prowazekii ralf
4D7Q · Ralf, PROLINE/BETAINE transporter: “Crystal structure of a chimeric protein with the SEC7 domain of legionella pneumophila ralf and the capping…”. X-ray diffraction, 1 ligand (NO3), 5 pockets (best druggability 0.72). MolNFT v1…
- PDB
- 4D7Q
- Type
- protein
- Length
- 347 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ralf, PROLINE/BETAINE transporter
- UniProt
- Q8RT31, M9TGB4
- Ligands
- NO3
- Pockets
- 5 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 52% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ralf, PROLINE/BETAINE transporter | protein | 347 | 52% helix, 12% strand | Q8RT31, M9TGB4 |
Ligands and binding sites
- NO3 · Nitrate ion · ion · chains A
- GOL · Glycerol · additive · 4 copies · chains A
- PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains A
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 389 | 0.72 | 0.83 | 58 | NO3, GOL, PEG |
| 2 | 57 | 0.36 | 0.78 | 15 | empty |
| 3 | 76 | 0.33 | 0.75 | 18 | empty |
| 4 | 62 | 0.29 | 0.74 | 14 | empty |
| 5 | 54 | 0.28 | 0.74 | 12 | empty |
Compared structures
- 4D7Q · Crystal structure of a chimeric protein with the Sec7 domain of Legionella pneumophila… · 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 Q8RT31
- Every structure of UniProt M9TGB4
- Elsewhere: RCSB PDB 4D7Q · PDBe 4D7Q · UniProt Q8RT31 · UniProt M9TGB4
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