Research workbench
Teneurin 2 in complex with latrophilin 1 lec-olf domains
Analyse Teneurin 2 in complex with latrophilin 1 lec-olf domains in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6SKA
- Type
- protein
- Length
- 2,183 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Teneurin-2; Adhesion G protein-coupled receptor L1
- UniProt
- Q9DER5, Q80TR1
- Ligands
- NAG, MAN, BMA, CA
- Pockets
- 20 · best druggability 0.87
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Teneurin-2 | protein | 1836 | 7% helix, 47% strand | Q9DER5 |
| D | Adhesion G protein-coupled receptor L1 | protein | 347 | 4% helix, 41% strand | Q80TR1 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 17 copies · chains A
- MAN · alpha-D-mannopyranose · sugar · 5 copies · chains A
- BMA · beta-D-mannopyranose · sugar · chains A
- CA · Calcium ion · metal · chains D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 1012 | 0.87 | 0.88 | 88 | empty |
| 2 | 745 | 0.87 | 0.90 | 91 | empty |
| 3 | 1034 | 0.84 | 0.85 | 114 | empty |
| 4 | 246 | 0.84 | 0.96 | 37 | empty |
| 5 | 517 | 0.81 | 0.87 | 54 | empty |
Interfaces
1 interface between chains.
- A–D · 1391 Ų buried · 16 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 11 disulfide, 11 glycan (disulfide, N-glycosylation).
Compared structures
- 6SKA · Teneurin 2 in complex with Latrophilin 1 Lec-Olf domains · the same entry in another collection · chain A against A, TM-score 1.00
- Q80TR1 · AlphaFold monomer V2.0 prediction for adhesion G protein-coupled receptor L1 (Q80TR1) · a predicted model of the same protein · chain D against A, TM-score 0.79
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 Q9DER5
- Every structure of UniProt Q80TR1
- Elsewhere: RCSB PDB 6SKA · PDBe 6SKA · UniProt Q9DER5 · UniProt Q80TR1
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