Research workbench
TAB2 nzf domain in complex with LYS63-linked tri-ubiquitin, P212121
Analyse TAB2 nzf domain in complex with LYS63-linked tri-ubiquitin, P212121 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2WX1
- Type
- protein
- Length
- 170 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin; Mitogen-activated protein kinase kinase kinase 7-interacting protein 2
- UniProt
- P62990, Q9NYJ8
- Ligands
- ZN
- Pockets
- 1 · best druggability 0.38
Structure
x-ray diffraction · 3 distinct chains · 16% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin | protein | 72 | 18% helix, 35% strand | P62990 |
| B | Ubiquitin | protein | 68 | 22% helix, 31% strand | P62990 |
| C | Mitogen-activated protein kinase kinase kinase 7-interacting protein 2 | protein | 30 | 0% helix, 13% strand | Q9NYJ8 |
Ligands and binding sites
- ZN · Zinc ion · metal · chains C
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 | 112 | 0.38 | 0.75 | 20 | empty |
Interfaces
2 interfaces between chains.
- A–C · 336 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 295 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 2WX1 · TAB2 NZF DOMAIN IN COMPLEX WITH Lys63-linked tri-ubiquitin, P212121 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9NYJ8 · AlphaFold monomer V2.0 prediction for TGF-beta-activated kinase 1 and MAP3K7-binding… · a predicted model of the same protein · chain C against A, TM-score 0.82
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 P62990
- Every structure of UniProt Q9NYJ8
- Elsewhere: RCSB PDB 2WX1 · PDBe 2WX1 · UniProt P62990 · UniProt Q9NYJ8
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