Research workbench
Human tom complex with cross-linking
Analyse Human tom complex with cross-linking in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7VDD
- Type
- protein
- Length
- 1,044 residues
- Chains
- 10
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mitochondrial import receptor subunit TOM6 homolog; Mitochondrial import receptor subunit…
- UniProt
- Q96B49, Q9NS69, Q8N4H5, Q9P0U1, O96008
- Pockets
- 16 · best druggability 0.86
Structure
electron microscopy · 5 distinct chains · 38% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, F | Mitochondrial import receptor subunit TOM6 homolog | protein | 42 | 71% helix, 0% strand | Q96B49 |
| C, H | Mitochondrial import receptor subunit TOM22 homolog | protein | 105 | 85% helix, 0% strand | Q9NS69 |
| D, E | Mitochondrial import receptor subunit TOM5 homolog | protein | 34 | 94% helix, 0% strand | Q8N4H5 |
| G, J | Mitochondrial import receptor subunit TOM7 homolog | protein | 55 | 69% helix, 0% strand | Q9P0U1 |
| B, I | Mitochondrial import receptor subunit TOM40 homolog | protein | 286 | 3% helix, 66% strand | O96008 |
Pockets
16 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 746 | 0.86 | 0.89 | 69 | empty |
| 2 | 304 | 0.53 | 0.74 | 41 | empty |
| 3 | 187 | 0.50 | 0.76 | 18 | empty |
| 4 | 230 | 0.49 | 0.74 | 24 | empty |
| 5 | 220 | 0.48 | 0.74 | 35 | empty |
Interfaces
14 interfaces between chains.
- G–I · 1264 Ų buried · 10 hydrogen bonds · protein-protein
- J–B · 1206 Ų buried · 10 hydrogen bonds · protein-protein
- F–B · 902 Ų buried · 5 hydrogen bonds · protein-protein
- A–I · 869 Ų buried · 3 hydrogen bonds · protein-protein
- E–B · 720 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 7VDD · Human TOM complex with cross-linking · the same entry in another collection · chain I against I, TM-score 1.00
- O96008 · AlphaFold monomer V2.0 prediction for mitochondrial import receptor subunit TOM40 homolog… · a predicted model of the same protein · chain B against A, TM-score 0.97
- Q8N4H5 · AlphaFold monomer V2.0 prediction for mitochondrial import receptor subunit TOM5 homolog… · a predicted model of the same protein · chain D against A, TM-score 0.86
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 Q96B49
- Every structure of UniProt Q9NS69
- Every structure of UniProt Q8N4H5
- Every structure of UniProt Q9P0U1
- Every structure of UniProt O96008
- Elsewhere: RCSB PDB 7VDD · PDBe 7VDD · UniProt Q96B49 · UniProt Q9NS69 · UniProt Q8N4H5 · UniProt Q9P0U1 · UniProt O96008
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