MolNFT v1 · #134825 · protein
Structure of the SNX5 px domain in complex with chlamydial protein ince in space group P32
5TGH · Sorting nexin-5: “Structure of the SNX5 px domain in complex with chlamydial protein ince in space group P32”. X-ray diffraction, 8 pockets (best druggability 0.82). MolNFT v1 #134825 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5TGH
- Type
- protein
- Length
- 652 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sorting nexin-5; Ince
- UniProt
- Q9Y5X3, B7SCI5
- Pockets
- 8 · best druggability 0.82
Structure
x-ray diffraction · 4 distinct chains · 45% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Sorting nexin-5 | protein | 142 | 52% helix, 20% strand | Q9Y5X3 |
| B, D | Ince | protein | 21 | 0% helix, 43% strand | B7SCI5 |
| E, G | Sorting nexin-5 | protein | 143 | 50% helix, 18% strand | Q9Y5X3 |
| F, H | Ince | protein | 20 | 0% helix, 50% strand | B7SCI5 |
Pockets
8 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 544 | 0.82 | 0.88 | 58 | empty |
| 2 | 527 | 0.80 | 0.86 | 70 | empty |
| 3 | 150 | 0.66 | 0.87 | 27 | empty |
| 4 | 134 | 0.61 | 0.85 | 20 | empty |
| 5 | 90 | 0.57 | 0.86 | 16 | empty |
Interfaces
16 interfaces between chains.
- C–D · 729 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 707 Ų buried · 11 hydrogen bonds · protein-protein
- C–E · 661 Ų buried · 6 hydrogen bonds · protein-protein
- E–F · 653 Ų buried · 7 hydrogen bonds · protein-protein
- G–H · 652 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- Q9Y5X3 · AlphaFold monomer V2.0 prediction for sorting nexin-5 (Q9Y5X3) · a predicted model of the same protein · chain A against A, TM-score 0.95
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 5TGH · PDBe 5TGH · UniProt Q9Y5X3 · UniProt B7SCI5
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