Research workbench
Crystal structure of mbp-fused human SIX1 bound to human EYA2 eya domain
Analyse Crystal structure of mbp-fused human SIX1 bound to human EYA2 eya domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4EGC
- Type
- protein
- Length
- 794 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Maltose-binding periplasmic protein, homeobox protein SIX1 chimera; Eyes absent homolog 2
- EC
- 3.1.3.48
- UniProt
- P0AEX9, Q15475, O00167
- Ligands
- GLC, MG
- Pockets
- 8 · best druggability 0.78
Structure
x-ray diffraction · 2 distinct chains · 54% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Maltose-binding periplasmic protein, homeobox protein SIX1 chimera | protein | 539 | 54% helix, 14% strand | P0AEX9, Q15475 |
| B | Eyes absent homolog 2 (EC 3.1.3.48) | protein | 255 | 55% helix, 10% strand | O00167 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 713 | 0.78 | 0.82 | 61 | empty |
| 2 | 259 | 0.74 | 0.87 | 28 | GLC |
| 3 | 223 | 0.51 | 0.76 | 21 | empty |
| 4 | 64 | 0.45 | 0.82 | 14 | empty |
| 5 | 72 | 0.36 | 0.77 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 848 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 4EGC · Crystal Structure of MBP-fused Human Six1 Bound to Human Eya2 Eya Domain · the same entry in another collection · chain A against A, TM-score 1.00
- O00167 · AlphaFold monomer V2.0 prediction for eyes absent homolog 2 (O00167) · a predicted model of the same protein · chain B against A, TM-score 0.99
- Q15475 · AlphaFold monomer V2.0 prediction for homeobox protein SIX1 (Q15475) · a predicted model of the same protein · chain A against A, TM-score 0.22
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 P0AEX9
- Every structure of UniProt Q15475
- Every structure of UniProt O00167
- Elsewhere: RCSB PDB 4EGC · PDBe 4EGC · UniProt P0AEX9 · UniProt Q15475 · UniProt O00167
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