MolNFT v1 · #156641 · protein
Cryo-EM structure of the essential ribosome assembly aaa-ATPase RIX7
6MAT · RIX7 mutant: “Cryo-EM structure of the essential ribosome assembly aaa-ATPase RIX7”. Electron microscopy, 1 ligand (ATP), 20 pockets (best druggability 0.82). MolNFT v1 #156641 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 6MAT
- Type
- protein
- Length
- 3,475 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RIX7 mutant; Unknown protein
- UniProt
- G0RZG1
- Ligands
- ATP
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 3 distinct chains · 48% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | RIX7 mutant | protein | 578 | 48% helix, 11% strand | G0RZG1 |
| E, F | RIX7 mutant | protein | 568 | 50% helix, 11% strand | G0RZG1 |
| G | Unknown protein | protein | 27 | 0% helix, 19% strand | — |
Ligands and binding sites
- ATP · Adenosine-5'-triphosphate · ligand · 11 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 | 1073 | 0.82 | 0.83 | 98 | ATP |
| 2 | 1096 | 0.80 | 0.82 | 87 | ATP |
| 3 | 1142 | 0.80 | 0.82 | 99 | ATP |
| 4 | 1120 | 0.80 | 0.82 | 97 | ATP |
| 5 | 1013 | 0.80 | 0.81 | 100 | ATP |
Interfaces
14 interfaces between chains.
- B–C · 4262 Ų buried · 36 hydrogen bonds · protein-protein
- C–D · 4258 Ų buried · 33 hydrogen bonds · protein-protein
- A–B · 4237 Ų buried · 31 hydrogen bonds · protein-protein
- D–E · 4050 Ų buried · 36 hydrogen bonds · protein-protein
- A–F · 2566 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
- 6MAT · Cryo-EM structure of the essential ribosome assembly AAA-ATPase Rix7 · 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 6MAT · PDBe 6MAT · UniProt G0RZG1
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