MolNFT v1 · #134827 · protein
Structure of the SNX5 px domain in complex with chlamydial protein ince in space group I2
5TGJ · Sorting nexin-5: “Structure of the SNX5 px domain in complex with chlamydial protein ince in space group I2”. X-ray diffraction, 3 pockets (best druggability 0.68). MolNFT v1 #134827 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5TGJ
- Type
- protein
- Length
- 326 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sorting nexin-5; Ince
- UniProt
- Q9Y5X3, B7SCI5
- Pockets
- 3 · best druggability 0.68
Structure
x-ray diffraction · 4 distinct chains · 44% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sorting nexin-5 | protein | 142 | 51% helix, 18% strand | Q9Y5X3 |
| B | Ince | protein | 22 | 0% helix, 45% strand | B7SCI5 |
| C | Sorting nexin-5 | protein | 141 | 50% helix, 18% strand | Q9Y5X3 |
| D | Ince | protein | 21 | 0% helix, 48% strand | B7SCI5 |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 397 | 0.68 | 0.80 | 31 | empty |
| 2 | 442 | 0.66 | 0.78 | 42 | empty |
| 3 | 54 | 0.34 | 0.78 | 14 | empty |
Interfaces
6 interfaces between chains.
- C–D · 722 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 668 Ų buried · 10 hydrogen bonds · protein-protein
- A–C · 420 Ų buried · 1 hydrogen bond · protein-protein
- B–D · 235 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 216 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 5TGJ · Structure of the SNX5 PX domain in complex with chlamydial protein IncE in space group I2 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9Y5X3 · AlphaFold monomer V2.0 prediction for sorting nexin-5 (Q9Y5X3) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 Q9Y5X3
- Every structure of UniProt B7SCI5
- Elsewhere: RCSB PDB 5TGJ · PDBe 5TGJ · UniProt Q9Y5X3 · UniProt B7SCI5
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