Research workbench
Structure of complex between the 3RD lim domain of tes and the EVH1 domain of mena
Analyse Structure of complex between the 3RD lim domain of tes and the EVH1 domain of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2IYB
- Type
- protein
- Length
- 705 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein enabled homolog; Testin
- UniProt
- Q8N8S7, Q9UGI8
- Ligands
- ZN
- Pockets
- 8 · best druggability 0.65
Structure
x-ray diffraction · 6 distinct chains · 14% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein enabled homolog | protein | 114 | 18% helix, 46% strand | Q8N8S7 |
| B | Protein enabled homolog | protein | 113 | 19% helix, 48% strand | Q8N8S7 |
| C, D | Protein enabled homolog | protein | 112 | 15% helix, 50% strand | Q8N8S7 |
| E | Testin | protein | 64 | 8% helix, 31% strand | Q9UGI8 |
| F, H | Testin | protein | 63 | 10% helix, 29% strand | Q9UGI8 |
| G | Testin | protein | 64 | 8% helix, 28% strand | Q9UGI8 |
Ligands and binding sites
- ZN · Zinc ion · metal · 9 copies · chains E, F, G, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 101 | 0.65 | 0.89 | 30 | empty |
| 2 | 496 | 0.64 | 0.77 | 48 | empty |
| 3 | 86 | 0.64 | 0.90 | 26 | empty |
| 4 | 82 | 0.63 | 0.91 | 25 | empty |
| 5 | 86 | 0.62 | 0.90 | 25 | empty |
Interfaces
9 interfaces between chains.
- A–E · 795 Ų buried · 10 hydrogen bonds · protein-protein
- C–G · 771 Ų buried · 14 hydrogen bonds · protein-protein
- D–H · 763 Ų buried · 12 hydrogen bonds · protein-protein
- B–F · 762 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 571 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 2IYB · Structure of complex between the 3rd LIM domain of TES and the EVH1 domain of Mena · the same entry in another collection · chain H against H, TM-score 1.00
- Q8N8S7 · AlphaFold monomer V2.0 prediction for protein enabled homolog (Q8N8S7) · a predicted model of the same protein · chain D against A, TM-score 0.99
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 Q8N8S7
- Every structure of UniProt Q9UGI8
- Elsewhere: RCSB PDB 2IYB · PDBe 2IYB · UniProt Q8N8S7 · UniProt Q9UGI8
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