Research workbench
Cryo-EM structure of transmembrane AAA+ protease FtsH in the ADP state
Analyse Cryo-EM structure of transmembrane AAA+ protease FtsH in the ADP state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7TDO
- Type
- protein
- Length
- 2,520 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.15
- Source
- Thermotoga maritima
- Molecule
- ATP-dependent zinc metalloprotease FtsH
- EC
- 3.4.24.-
- UniProt
- Q9WZ49
- Ligands
- ADP
- Pockets
- 20 · best druggability 0.75
Structure
electron microscopy · resolution 3.15 · 1 distinct chain · 42% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | ATP-dependent zinc metalloprotease FtsH (EC 3.4.24.-) | protein | 420 | 42% helix, 10% strand | Q9WZ49 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · 6 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1042 | 0.75 | 0.78 | 104 | empty |
| 2 | 1041 | 0.75 | 0.78 | 102 | ADP |
| 3 | 950 | 0.74 | 0.78 | 109 | empty |
| 4 | 1101 | 0.74 | 0.77 | 106 | ADP |
| 5 | 815 | 0.73 | 0.78 | 93 | empty |
Interfaces
6 interfaces between chains.
- D–F · 2125 Ų buried · 24 hydrogen bonds · protein-protein
- A–B · 2076 Ų buried · 21 hydrogen bonds · protein-protein
- A–E · 1994 Ų buried · 16 hydrogen bonds · protein-protein
- B–C · 1984 Ų buried · 16 hydrogen bonds · protein-protein
- C–D · 1979 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 7TDO · Cryo-EM structure of transmembrane aaa+ protease ftsh in the ADP state · the same entry in another collection · chain F against F, TM-score 1.00
- Q9WZ49 · AlphaFold monomer V2.0 prediction for ATP-dependent zinc metalloprotease ftsh (Q9WZ49) · a predicted model of the same protein · chain C against A, TM-score 0.88
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 Q9WZ49
- Elsewhere: RCSB PDB 7TDO · PDBe 7TDO · UniProt Q9WZ49
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