Research workbench
The PDZ domain of SNTB1 complexed with the PDZ-binding motif of HTLV1- TAX1
Analyse The PDZ domain of SNTB1 complexed with the PDZ-binding motif of HTLV1- TAX1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7PC4
- Type
- protein
- Length
- 413 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-1-SYNTROPHIN,ANNEXIN A2; Protein tax-1
- UniProt
- Q13884, P07355, P03409
- Ligands
- CA
- Pockets
- 4 · best druggability 0.62
Structure
x-ray diffraction · 2 distinct chains · 60% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-1-SYNTROPHIN,ANNEXIN A2 | protein | 407 | 61% helix, 9% strand | Q13884, P07355 |
| C | Protein tax-1 | protein | 6 | 0% helix, 33% strand | P03409 |
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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 535 | 0.62 | 0.75 | 56 | empty |
| 2 | 121 | 0.53 | 0.82 | 25 | EDO |
| 3 | 57 | 0.29 | 0.75 | 16 | empty |
| 4 | 56 | 0.26 | 0.72 | 12 | empty |
Interfaces
1 interface between chains.
- A–C · 487 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 7PC4 · The PDZ domain of SNTB1 complexed with the PDZ-binding motif of HTLV1-TAX1 · 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 0.79
- Q13884 · AlphaFold monomer V2.0 prediction for beta-1-syntrophin (Q13884) · a predicted model of the same protein · chain A against A, TM-score 0.27
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 Q13884
- Every structure of UniProt P07355
- Every structure of UniProt P03409
- Elsewhere: RCSB PDB 7PC4 · PDBe 7PC4 · UniProt Q13884 · UniProt P07355 · UniProt P03409
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