MolNFT v1 · #113156 · protein
Native mammalian ribosome-bound SEC61 protein-conducting channel in the 'non-inserting' state
5A6U · SEC61A: “Native mammalian ribosome-bound SEC61 protein-conducting channel in the 'non-inserting' state”. Electron microscopy, 9 pockets (best druggability 0.81). MolNFT v1 #113156 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5A6U
- Type
- protein
- Length
- 490 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SEC61A; SEC61B; SEC61G
- UniProt
- P38377, P60467, P60058
- Pockets
- 9 · best druggability 0.81
Structure
electron microscopy · 3 distinct chains · 59% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SEC61A | protein | 392 | 60% helix, 4% strand | P38377 |
| B | SEC61B | protein | 36 | 44% helix, 0% strand | P60467 |
| G | SEC61G | protein | 62 | 63% helix, 0% strand | P60058 |
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 930 | 0.81 | 0.82 | 113 | empty |
| 2 | 60 | 0.70 | 0.96 | 20 | empty |
| 3 | 371 | 0.63 | 0.78 | 45 | empty |
| 4 | 74 | 0.42 | 0.80 | 16 | empty |
| 5 | 139 | 0.42 | 0.74 | 20 | empty |
Interfaces
3 interfaces between chains.
- A–G · 1441 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 894 Ų buried · 2 hydrogen bonds · protein-protein
- B–G · 100 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5A6U · Native mammalian ribosome-bound Sec61 protein-conducting channel in the 'non-inserting'… · the same entry in another collection · chain A against A, TM-score 1.00
- P38377 · AlphaFold monomer V2.0 prediction for protein transport protein SEC61 subunit alpha… · a predicted model of the same protein · chain A against A, TM-score 0.84
- P60058 · AlphaFold monomer V2.0 prediction for protein transport protein SEC61 subunit gamma… · a predicted model of the same protein · chain G against A, TM-score 0.73
- P60467 · AlphaFold monomer V2.0 prediction for protein transport protein SEC61 subunit beta… · a predicted model of the same protein · chain B against A, TM-score 0.49
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 P38377
- Every structure of UniProt P60467
- Every structure of UniProt P60058
- Elsewhere: RCSB PDB 5A6U · PDBe 5A6U · UniProt P38377 · UniProt P60467 · UniProt P60058
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