Research workbench
Co-crystal structure of the SAM domains of EPHA1 and EPHA2
Analyse Co-crystal structure of the SAM domains of EPHA1 and EPHA2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3KKA
- Type
- protein
- Length
- 320 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ephrin type-a receptor 1; Ephrin type-a receptor 2
- EC
- 2.7.10.1
- UniProt
- P21709, P29317
- Ligands
- CL
- Pockets
- 2 · best druggability 0.73
Structure
x-ray diffraction · 5 distinct chains · 62% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ephrin type-a receptor 1 (EC 2.7.10.1) | protein | 64 | 59% helix, 0% strand | P21709 |
| B | Ephrin type-a receptor 1 (EC 2.7.10.1) | protein | 63 | 60% helix, 0% strand | P21709 |
| C | Ephrin type-a receptor 2 (EC 2.7.10.1) | protein | 59 | 68% helix, 0% strand | P29317 |
| D | Ephrin type-a receptor 2 (EC 2.7.10.1) | protein | 68 | 63% helix, 0% strand | P29317 |
| E | Ephrin type-a receptor 2 (EC 2.7.10.1) | protein | 66 | 61% helix, 0% strand | P29317 |
Ligands and binding sites
- CL · Chloride ion · ion · chains B
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 | 797 | 0.73 | 0.78 | 75 | empty |
| 2 | 80 | 0.32 | 0.74 | 17 | empty |
Interfaces
6 interfaces between chains.
- A–B · 577 Ų buried · 9 hydrogen bonds · protein-protein
- D–E · 345 Ų buried · 3 hydrogen bonds · protein-protein
- C–E · 312 Ų buried · 3 hydrogen bonds · protein-protein
- A–E · 237 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 209 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 3KKA · Co-crystal structure of the sam domains of EPHA1 AND EPHA2 · the same entry in another collection · chain D against D, TM-score 1.00
- P29317 · AlphaFold monomer V2.0 prediction for ephrin type-a receptor 2 (P29317) · a predicted model of the same protein · chain C against A, TM-score 0.98
- P21709 · AlphaFold monomer V2.0 prediction for ephrin type-a receptor 1 (P21709) · a predicted model of the same protein · chain B against A, TM-score 0.96
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 P21709
- Every structure of UniProt P29317
- Elsewhere: RCSB PDB 3KKA · PDBe 3KKA · UniProt P21709 · UniProt P29317
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.