Research workbench
Cryo-EM structure of yiip-Fab complex in apo state
Analyse Cryo-EM structure of yiip-Fab complex in apo state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7KZX
- Type
- protein
- Length
- 1,361 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cadmium and zinc efflux pump fief; FAB2R light chain; FAB2R heavy chain
- UniProt
- Q8E919
- Pockets
- 17 · best druggability 0.83
Structure
electron microscopy · 4 distinct chains · 24% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Cadmium and zinc efflux pump fief | protein | 281 | 63% helix, 10% strand | Q8E919 |
| C | FAB2R light chain | protein | 190 | 6% helix, 40% strand | — |
| D, F | FAB2R heavy chain | protein | 209 | 4% helix, 45% strand | — |
| E | FAB2R light chain | protein | 191 | 6% helix, 43% strand | — |
Pockets
17 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 814 | 0.83 | 0.85 | 82 | empty |
| 2 | 272 | 0.70 | 0.84 | 39 | empty |
| 3 | 133 | 0.61 | 0.85 | 32 | empty |
| 4 | 254 | 0.61 | 0.80 | 22 | empty |
| 5 | 419 | 0.57 | 0.74 | 51 | empty |
Interfaces
7 interfaces between chains.
- A–B · 2674 Ų buried · 22 hydrogen bonds · protein-protein
- E–F · 1932 Ų buried · 14 hydrogen bonds · protein-protein
- C–D · 1926 Ų buried · 7 hydrogen bonds · protein-protein
- A–F · 785 Ų buried · 6 hydrogen bonds · protein-protein
- B–D · 729 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 7KZX · Cryo-EM structure of YiiP-Fab complex in Apo state · 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 Q8E919
- Elsewhere: RCSB PDB 7KZX · PDBe 7KZX · UniProt Q8E919
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.