Research workbench
MAGI1_2 complexed with a phosphomimetic 16E6 peptide
Analyse MAGI1_2 complexed with a phosphomimetic 16E6 peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6TWU
- Type
- protein
- Length
- 845 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Membrane-associated guanylate kinase, ww and PDZ domain- containing protein 1,ANNEXIN A2…
- UniProt
- Q96QZ7, P07355, P03126
- Ligands
- CA
- Pockets
- 9 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 57% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Membrane-associated guanylate kinase, ww and PDZ domain- containing protein 1,ANNEXIN A2 | protein | 421 | 57% helix, 8% strand | Q96QZ7, P07355 |
| C | Protein E6 | protein | 3 | 0% helix, 0% strand | P03126 |
Ligands and binding sites
- CA · Calcium ion · metal · 11 copies · chains A, B
- GOL · Glycerol · additive · 3 copies · chains A, B
- CIT · Citric acid · additive · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1173 | 0.76 | 0.79 | 86 | GOL, CA |
| 2 | 636 | 0.67 | 0.76 | 72 | GOL |
| 3 | 540 | 0.67 | 0.78 | 63 | empty |
| 4 | 91 | 0.48 | 0.82 | 24 | GOL |
| 5 | 68 | 0.36 | 0.77 | 14 | empty |
Interfaces
2 interfaces between chains.
- A–B · 371 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 284 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 6TWU · MAGI1_2 complexed with a phosphomimetic 16E6 peptide · 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 B against A, TM-score 0.77
- Q96QZ7 · AlphaFold monomer V2.0 prediction for membrane-associated guanylate kinase, ww and PDZ… · a predicted model of the same protein · chain A against A, TM-score 0.31
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 Q96QZ7
- Every structure of UniProt P07355
- Every structure of UniProt P03126
- Elsewhere: RCSB PDB 6TWU · PDBe 6TWU · UniProt Q96QZ7 · UniProt P07355 · UniProt P03126
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