MolNFT v1 · #179597 · protein
Cryo-EM structure of the sec complex from T. lanuginosus, wild-type, class without SEC62
7KAK · Protein transport channel SEC61 complex, alpha subunit…: “Cryo-EM structure of the sec complex from T. lanuginosus, wild-type, class without SEC62”. Electron microscopy, 20 pockets (best druggability 0.77). MolNFT v1 #179597 on…
- PDB
- 7KAK
- Type
- protein
- Length
- 1,371 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein transport channel SEC61 complex, alpha subunit (SEC61); Protein transport channel…
- Pockets
- 20 · best druggability 0.77
Structure
electron microscopy · 6 distinct chains · 60% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein transport channel SEC61 complex, alpha subunit (SEC61) | protein | 446 | 63% helix, 6% strand | — |
| C | Protein transport channel SEC61 complex, gamma subunit (SSS1) | protein | 57 | 86% helix, 2% strand | — |
| B | Protein transport channel SEC61 complex, beta subunit (SBH1) | protein | 32 | 84% helix, 6% strand | — |
| D | Protein transport protein SEC63 | protein | 470 | 43% helix, 13% strand | — |
| E | Protein transport protein SEC66/SEC71 | protein | 172 | 81% helix, 0% strand | — |
| F | Protein transport protein SEC72 | protein | 194 | 67% helix, 4% strand | — |
Pockets
20 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 957 | 0.77 | 0.79 | 105 | empty |
| 2 | 733 | 0.70 | 0.77 | 51 | empty |
| 3 | 786 | 0.67 | 0.74 | 66 | empty |
| 4 | 323 | 0.62 | 0.79 | 41 | empty |
| 5 | 316 | 0.62 | 0.78 | 33 | empty |
Interfaces
11 interfaces between chains.
- E–F · 2162 Ų buried · 14 hydrogen bonds · protein-protein
- A–C · 1697 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 1252 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 951 Ų buried · 5 hydrogen bonds · protein-protein
- D–E · 827 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 7KAK · Cryo-EM structure of the Sec complex from T. lanuginosus, wild-type, class without Sec62 · 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
- Elsewhere: RCSB PDB 7KAK · PDBe 7KAK
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