Research workbench
The PDZ domain of SNX27 complexed with the PDZ-binding motif of MERS-E
Analyse The PDZ domain of SNX27 complexed with the PDZ-binding motif of MERS-E in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7P72
- Type
- protein
- Length
- 409 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sorting nexin-27,ANNEXIN A2; Envelope small membrane protein
- UniProt
- Q96L92, P07355, K9N5R3
- Ligands
- CA
- Pockets
- 4 · best druggability 0.60
Structure
x-ray diffraction · 2 distinct chains · 59% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sorting nexin-27,ANNEXIN A2 | protein | 403 | 60% helix, 6% strand | Q96L92, P07355 |
| B | Envelope small membrane protein | protein | 6 | 0% helix, 50% strand | K9N5R3 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 390 | 0.60 | 0.77 | 48 | empty |
| 2 | 179 | 0.49 | 0.77 | 34 | GOL |
| 3 | 86 | 0.36 | 0.75 | 15 | empty |
| 4 | 60 | 0.30 | 0.75 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 495 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 7P72 · The PDZ domain of SNX27 complexed with the PDZ-binding motif of MERS-E · the same entry in another collection · chain A against A, TM-score 1.00
- P07355 · AlphaFold monomer V2.0 prediction for annexin A2 (P07355) · a predicted model of the same protein · chain A against A, TM-score 0.81
- Q96L92 · AlphaFold monomer V2.0 prediction for sorting nexin-27 (Q96L92) · a predicted model of the same protein · chain A against A, TM-score 0.29
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 Q96L92
- Every structure of UniProt P07355
- Every structure of UniProt K9N5R3
- Elsewhere: RCSB PDB 7P72 · PDBe 7P72 · UniProt Q96L92 · UniProt P07355 · UniProt K9N5R3
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