Research workbench
Wt chicken scap L1-L7 / Fab 4G10 complex focused refinement
Analyse Wt chicken scap L1-L7 / Fab 4G10 complex focused refinement in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7LKF
- Type
- protein
- Length
- 511 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sterol regulatory element-binding protein cleavage- activating protein; 4G10 heavy chain…
- UniProt
- A0A3Q3ANV4
- Ligands
- NAG
- Pockets
- 5 · best druggability 0.61
Structure
electron microscopy · 3 distinct chains · 19% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sterol regulatory element-binding protein cleavage- activating protein | protein | 281 | 30% helix, 18% strand | A0A3Q3ANV4 |
| H | 4G10 heavy chain | protein | 121 | 7% helix, 50% strand | — |
| L | 4G10 light chain | protein | 109 | 3% helix, 49% strand | — |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 398 | 0.61 | 0.77 | 44 | empty |
| 2 | 59 | 0.48 | 0.85 | 11 | empty |
| 3 | 96 | 0.40 | 0.77 | 19 | empty |
| 4 | 76 | 0.35 | 0.76 | 16 | empty |
| 5 | 57 | 0.25 | 0.72 | 20 | empty |
Interfaces
3 interfaces between chains.
- H–L · 845 Ų buried · 9 hydrogen bonds · protein-protein
- A–H · 623 Ų buried · 15 hydrogen bonds · protein-protein
- A–L · 359 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
- 7LKF · WT Chicken Scap L1-L7 / Fab 4G10 complex focused refinement · 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 A0A3Q3ANV4
- Elsewhere: RCSB PDB 7LKF · PDBe 7LKF · UniProt A0A3Q3ANV4
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