Research workbench
Complex structure of the fission yeast srebp-scap binding domains
Analyse Complex structure of the fission yeast srebp-scap binding domains in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5GRS
- Type
- protein
- Length
- 2,506 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sterol regulatory element-binding protein cleavage- activating protein; Sterol regulatory…
- UniProt
- O43043, Q9UUD1
- Pockets
- 20 · best druggability 0.83
Structure
electron microscopy · 5 distinct chains · 41% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Sterol regulatory element-binding protein cleavage- activating protein | protein | 375 | 5% helix, 40% strand | O43043 |
| I, J, K, L | Sterol regulatory element-binding protein cleavage- activating protein | protein | 62 | 0% helix, 53% strand | O43043 |
| E | Sterol regulatory element-binding protein 1 | protein | 189 | 70% helix, 0% strand | Q9UUD1 |
| F, H | Sterol regulatory element-binding protein 1 | protein | 191 | 69% helix, 0% strand | Q9UUD1 |
| G | Sterol regulatory element-binding protein 1 | protein | 187 | 70% helix, 1% strand | Q9UUD1 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1199 | 0.83 | 0.83 | 80 | empty |
| 2 | 1077 | 0.81 | 0.82 | 58 | empty |
| 3 | 958 | 0.81 | 0.82 | 114 | empty |
| 4 | 983 | 0.76 | 0.78 | 84 | empty |
| 5 | 838 | 0.76 | 0.80 | 84 | empty |
Interfaces
16 interfaces between chains.
- A–I · 3188 Ų buried · 44 hydrogen bonds · protein-protein
- C–K · 3187 Ų buried · 44 hydrogen bonds · protein-protein
- B–J · 3186 Ų buried · 44 hydrogen bonds · protein-protein
- D–L · 3185 Ų buried · 44 hydrogen bonds · protein-protein
- G–H · 843 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 5GRS · Complex structure of the fission yeast SREBP-SCAP binding domains · the same entry in another collection · chain H against H, 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 O43043
- Every structure of UniProt Q9UUD1
- Elsewhere: RCSB PDB 5GRS · PDBe 5GRS · UniProt O43043 · UniProt Q9UUD1
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