MolNFT v1 · #187791 · protein
Cryoem structure of the N-terminal-deleted RIX7 aaa-ATPase
7SWL: “Cryoem structure of the N-terminal-deleted RIX7 aaa-ATPase”. Electron microscopy, 3 ligands (ATP, ADP, MG), 20 pockets (best druggability 0.80). MolNFT v1 #187791 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7SWL
- Type
- protein
- Length
- 3,070 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RIX7; Polyleucine
- UniProt
- G0RZG1
- Ligands
- ATP, ADP, MG
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 7 distinct chains · 51% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RIX7 | protein | 553 | 54% helix, 11% strand | G0RZG1 |
| B | RIX7 | protein | 551 | 52% helix, 12% strand | G0RZG1 |
| C | RIX7 | protein | 559 | 51% helix, 11% strand | G0RZG1 |
| D | RIX7 | protein | 555 | 51% helix, 12% strand | G0RZG1 |
| E | RIX7 | protein | 480 | 51% helix, 13% strand | G0RZG1 |
| F | RIX7 | protein | 348 | 49% helix, 7% strand | G0RZG1 |
| G | Polyleucine | protein | 24 | 0% helix, 25% strand | — |
Ligands and binding sites
- ATP · Adenosine-5'-triphosphate · ligand · 9 copies · chains A, B, C, D, E
- ADP · Adenosine-5'-diphosphate · ligand · chains E
- MG · Magnesium ion · metal · 9 copies · chains A, B, C, D, E
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 | 916 | 0.80 | 0.82 | 78 | ATP, MG |
| 2 | 1050 | 0.79 | 0.81 | 95 | ATP, MG |
| 3 | 1109 | 0.79 | 0.81 | 99 | ATP, MG |
| 4 | 556 | 0.78 | 0.85 | 49 | ATP, MG |
| 5 | 721 | 0.78 | 0.83 | 75 | ATP, MG |
Interfaces
12 interfaces between chains.
- A–B · 4403 Ų buried · 35 hydrogen bonds · protein-protein
- C–D · 4351 Ų buried · 27 hydrogen bonds · protein-protein
- B–C · 4264 Ų buried · 25 hydrogen bonds · protein-protein
- D–E · 4213 Ų buried · 32 hydrogen bonds · protein-protein
- A–F · 2388 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 7SWL · CryoEM structure of the N-terminal-deleted Rix7 AAA-ATPase · the same entry in another collection · chain A against A, TM-score 1.00
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 G0RZG1
- Elsewhere: RCSB PDB 7SWL · PDBe 7SWL · UniProt G0RZG1
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