MolNFT v1 · #183041 · protein
Cryo-EM structure of the human ferry complex
7ND2 · Protein phosphatase 1 regulatory subunit 21: “Cryo-EM structure of the human ferry complex”. Electron microscopy, 20 pockets (best druggability 0.90). MolNFT v1 #183041 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7ND2
- Type
- protein
- Length
- 2,204 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein phosphatase 1 regulatory subunit 21; Quinone oxidoreductase-like protein 1…
- EC
- 1.-.-.-
- UniProt
- Q6ZMI0, O95825, Q8NB37
- Pockets
- 20 · best druggability 0.90
Structure
electron microscopy · 3 distinct chains · 50% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Protein phosphatase 1 regulatory subunit 21 | protein | 330 | 78% helix, 0% strand | Q6ZMI0 |
| C, D | Quinone oxidoreductase-like protein 1 (EC 1.-.-.-) | protein | 352 | 31% helix, 24% strand | O95825 |
| E, F, H, G | Glutamine amidotransferase-like class 1 domain-containing protein 1 | protein | 210 | 40% helix, 17% strand | Q8NB37 |
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 780 | 0.90 | 0.93 | 77 | empty |
| 2 | 832 | 0.90 | 0.92 | 84 | empty |
| 3 | 1015 | 0.87 | 0.88 | 111 | empty |
| 4 | 909 | 0.80 | 0.82 | 101 | empty |
| 5 | 958 | 0.80 | 0.81 | 103 | empty |
Interfaces
12 interfaces between chains.
- C–D · 1514 Ų buried · 14 hydrogen bonds · protein-protein
- A–D · 1333 Ų buried · 7 hydrogen bonds · protein-protein
- C–B · 1324 Ų buried · 7 hydrogen bonds · protein-protein
- D–B · 1086 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 1083 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 7ND2 · Cryo-EM structure of the human FERRY complex · the same entry in another collection · chain G against G, TM-score 1.00
- O95825 · AlphaFold monomer V2.0 prediction for quinone oxidoreductase-like protein 1 (O95825) · a predicted model of the same protein · chain C against A, TM-score 0.96
- Q8NB37 · AlphaFold monomer V2.0 prediction for glutamine amidotransferase-like class 1… · a predicted model of the same protein · chain E against A, TM-score 0.94
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 Q6ZMI0
- Every structure of UniProt O95825
- Every structure of UniProt Q8NB37
- Elsewhere: RCSB PDB 7ND2 · PDBe 7ND2 · UniProt Q6ZMI0 · UniProt O95825 · UniProt Q8NB37
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