Research workbench
Electron cryo-microscopy of the complex formed between the hexameric ATPase rava and the decameric inducible decarboxylase ldci
Analyse Electron cryo-microscopy of the complex formed between the hexameric ATPase… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4UPB
- Type
- protein
- Length
- 2,775 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lysine decarboxylase, inducible; ATPase rava
- EC
- 4.1.1.18, 3.6.3.1
- UniProt
- P0A9H3, P31473
- Pockets
- 2 · best druggability 0.48
Structure
electron microscopy · 3 distinct chains · 0% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Lysine decarboxylase, inducible (EC 4.1.1.18) | protein | 710 | 0% helix, 0% strand | P0A9H3 |
| C, D | ATPase rava (EC 3.6.3.1) | protein | 453 | 0% helix, 0% strand | P31473 |
| E | ATPase rava (EC 3.6.3.1) | protein | 449 | 0% helix, 0% strand | P31473 |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 219 | 0.48 | 0.72 | 45 | empty |
| 2 | 69 | 0.32 | 0.73 | 13 | empty |
Interfaces
2 interfaces between chains.
- A–B · 456 Ų buried · 0 hydrogen bonds · protein-protein
- C–E · 25 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4UPB · Electron cryo-microscopy of the complex formed between the hexameric ATPase RavA and the… · the same entry in another collection · chain E against E, TM-score 1.00
- P0A9H3 · AlphaFold monomer V2.0 prediction for inducible lysine decarboxylase (P0A9H3) · a predicted model of the same protein · chain A against A, TM-score 0.98
- P31473 · AlphaFold monomer V2.0 prediction for ATPase rava (P31473) · a predicted model of the same protein · chain E against A, TM-score 0.86
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 P0A9H3
- Every structure of UniProt P31473
- Elsewhere: RCSB PDB 4UPB · PDBe 4UPB · UniProt P0A9H3 · UniProt P31473
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