Research workbench
Structural basis for targeted P97 remodelling by aspl as prerequisite for P97 trimethylation by METTL21D
Analyse Structural basis for targeted P97 remodelling by aspl as prerequisite for P97… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7OAT
- Type
- protein
- Length
- 816 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tether containing ubx domain for GLUT4; Transitional endoplasmic reticulum ATPase…
- EC
- 3.6.4.6, 2.1.1.-
- UniProt
- Q9BZE9, P55072, Q9H867
- Ligands
- ATP, SAH, MG
- Pockets
- 12 · best druggability 0.74
Structure
x-ray diffraction · 3 distinct chains · 35% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tether containing ubx domain for GLUT4 | protein | 171 | 36% helix, 20% strand | Q9BZE9 |
| B | Transitional endoplasmic reticulum ATPase (EC 3.6.4.6) | protein | 434 | 35% helix, 26% strand | P55072 |
| C | Protein-lysine methyltransferase METTL21D (EC 2.1.1.-) | protein | 211 | 33% helix, 27% strand | Q9H867 |
Ligands and binding sites
- ATP · Adenosine-5'-triphosphate · ligand · chains B
- SAH · S-adenosyl-L-homocysteine · ligand · chains B, C
- MG · Magnesium ion · metal
- EDO · 1,2-ethanediol · additive · 4 copies · chains B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 263 | 0.74 | 0.88 | 32 | empty |
| 2 | 913 | 0.74 | 0.78 | 104 | EDO, ATP |
| 3 | 151 | 0.70 | 0.90 | 36 | SAH |
| 4 | 296 | 0.70 | 0.84 | 36 | empty |
| 5 | 80 | 0.58 | 0.89 | 22 | empty |
Interfaces
2 interfaces between chains.
- A–B · 2531 Ų buried · 24 hydrogen bonds · protein-protein
- B–C · 1405 Ų buried · 21 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (methylation).
Compared structures
- 7OAT · Structural basis for targeted p97 remodelling by ASPL as prerequisite for p97… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9H867 · AlphaFold monomer V2.0 prediction for protein-lysine methyltransferase METTL21D (Q9H867) · a predicted model of the same protein · chain C against A, TM-score 0.99
- P55072 · AlphaFold monomer V2.0 prediction for transitional endoplasmic reticulum ATPase (P55072) · a predicted model of the same protein · chain B against A, TM-score 0.96
- Q9BZE9 · AlphaFold monomer V2.0 prediction for tether containing ubx domain for GLUT4 (Q9BZE9) · a predicted model of the same protein · chain A against A, TM-score 0.93
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 Q9BZE9
- Every structure of UniProt P55072
- Every structure of UniProt Q9H867
- Elsewhere: RCSB PDB 7OAT · PDBe 7OAT · UniProt Q9BZE9 · UniProt P55072 · UniProt Q9H867
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.