Research workbench
Crystal structure of the complex of jaml and coxsackie and adenovirus receptor, car
Analyse Crystal structure of the complex of jaml and coxsackie and adenovirus receptor… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3MJ7
- Type
- protein
- Length
- 418 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Junctional adhesion molecule-like; Coxsackievirus and adenovirus receptor homolog
- UniProt
- Q80UL9, P97792
- Ligands
- NAG, BMA, MAN, FUC
- Pockets
- 2 · best druggability 0.55
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Junctional adhesion molecule-like | protein | 229 | 5% helix, 49% strand | Q80UL9 |
| B | Coxsackievirus and adenovirus receptor homolog | protein | 189 | 8% helix, 41% strand | P97792 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 5 copies · chains A, B
- BMA · beta-D-mannopyranose · sugar
- MAN · alpha-D-mannopyranose · sugar
- FUC · alpha-L-fucopyranose · sugar · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 314 | 0.55 | 0.76 | 38 | empty |
| 2 | 102 | 0.47 | 0.80 | 27 | empty |
Interfaces
1 interface between chains.
- A–B · 911 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide, 3 glycan (disulfide, N-glycosylation).
Compared structures
- 3MJ7 · Crystal structure of the complex of JAML and Coxsackie and Adenovirus receptor, CAR · the same entry in another collection · chain A against A, TM-score 1.00
- Q80UL9 · AlphaFold monomer V2.0 prediction for junctional adhesion molecule- like (Q80UL9) · a predicted model of the same protein · chain A against A, TM-score 0.99
- P97792 · AlphaFold monomer V2.0 prediction for coxsackievirus and adenovirus receptor homolog… · a predicted model of the same protein · chain B against A, TM-score 0.82
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 Q80UL9
- Every structure of UniProt P97792
- Elsewhere: RCSB PDB 3MJ7 · PDBe 3MJ7 · UniProt Q80UL9 · UniProt P97792
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