MolNFT v1 · #92238 · protein
Structure of the prgh periplasmic domain
4G1I · Protein prgh: “Structure of the prgh periplasmic domain”. X-ray diffraction, 1 ligand (PO4), 4 pockets (best druggability 0.40). MolNFT v1 #92238 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4G1I
- Type
- protein
- Length
- 385 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein prgh
- UniProt
- P41783
- Ligands
- PO4
- Pockets
- 4 · best druggability 0.40
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein prgh | protein | 189 | 41% helix, 26% strand | P41783 |
| B | Protein prgh | protein | 196 | 41% helix, 21% strand | P41783 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 4 copies · chains A, B
- 1PE · Pentaethylene glycol · additive · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 114 | 0.40 | 0.76 | 19 | empty |
| 2 | 70 | 0.37 | 0.78 | 20 | empty |
| 3 | 112 | 0.35 | 0.72 | 15 | empty |
| 4 | 70 | 0.29 | 0.73 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 344 Ų buried · 10 hydrogen bonds · protein-protein
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 P41783
- Elsewhere: RCSB PDB 4G1I · PDBe 4G1I · UniProt P41783
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