MolNFT v1 · #184913 · protein
The PDZ domain of SYNJ2BP complexed with the phosphorylated PDZ- binding motif of RSK1
7P74 · Synaptojanin-2-binding PROTEIN,ANNEXIN A2: “The PDZ domain of SYNJ2BP complexed with the phosphorylated PDZ- binding motif of RSK1”. X-ray diffraction, 1 ligand (CA), 2 pockets (best druggability 0.74). MolNFT v1 #184913 on…
- PDB
- 7P74
- Type
- protein
- Length
- 422 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Synaptojanin-2-binding PROTEIN,ANNEXIN A2; Ribosomal protein S6 kinase alpha-1
- EC
- 2.7.11.1
- UniProt
- P57105, P07355, Q15418
- Ligands
- CA
- Pockets
- 2 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 58% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Synaptojanin-2-binding PROTEIN,ANNEXIN A2 | protein | 417 | 58% helix, 10% strand | P57105, P07355 |
| B | Ribosomal protein S6 kinase alpha-1 (EC 2.7.11.1) | protein | 5 | 0% helix, 40% strand | Q15418 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1073 | 0.74 | 0.77 | 96 | GOL |
| 2 | 62 | 0.30 | 0.75 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 421 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (phosphorylation).
Compared structures
- 7P74 · The PDZ domain of SYNJ2BP complexed with the phosphorylated PDZ-binding motif of RSK1 · the same entry in another collection · chain A against A, TM-score 1.00
- Q15418 · AlphaFold monomer V2.0 prediction for ribosomal protein S6 kinase alpha-1 (Q15418) · a predicted model of the same protein · chain B against A, TM-score 0.92
- P07355 · AlphaFold monomer V2.0 prediction for annexin A2 (P07355) · a predicted model of the same protein · chain A against A, TM-score 0.77
- P57105 · AlphaFold monomer V2.0 prediction for synaptojanin-2-binding protein (P57105) · a predicted model of the same protein · chain A against A, TM-score 0.25
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 P57105
- Every structure of UniProt P07355
- Every structure of UniProt Q15418
- Elsewhere: RCSB PDB 7P74 · PDBe 7P74 · UniProt P57105 · UniProt P07355 · UniProt Q15418
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