Research workbench
The crystal structure of the cortactin-SH3 domain and AMAP1- peptide complex
Analyse The crystal structure of the cortactin-SH3 domain and AMAP1- peptide complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2D1X
- Type
- protein
- Length
- 262 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cortactin isoform a; Proline rich region from development and differentiation enhancing…
- UniProt
- Q14247
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.29
Structure
x-ray diffraction · 4 distinct chains · 5% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cortactin isoform a | protein | 60 | 5% helix, 45% strand | Q14247 |
| B, D | Cortactin isoform a | protein | 59 | 5% helix, 46% strand | Q14247 |
| C | Cortactin isoform a | protein | 66 | 5% helix, 42% strand | Q14247 |
| P, Q | Proline rich region from development and differentiation enhancing factor 1 | protein | 9 | 0% helix, 0% strand | — |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains B, P, D, Q
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 65 | 0.29 | 0.74 | 17 | empty |
Interfaces
7 interfaces between chains.
- A–C · 717 Ų buried · 13 hydrogen bonds · protein-protein
- A–P · 399 Ų buried · 8 hydrogen bonds · protein-protein
- C–Q · 396 Ų buried · 7 hydrogen bonds · protein-protein
- D–Q · 334 Ų buried · 4 hydrogen bonds · protein-protein
- B–P · 332 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 2D1X · The crystal structure of the cortactin-SH3 domain and AMAP1-peptide complex · the same entry in another collection · chain Q against Q, TM-score 1.00
- Q14247 · AlphaFold monomer V2.0 prediction for src substrate cortactin (Q14247) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 Q14247
- Elsewhere: RCSB PDB 2D1X · PDBe 2D1X · UniProt Q14247
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