Research workbench
Crystal structure of the second ig domain from mouse polymeric immunoglobulin receptor [psi-nysgrc-006220]
Analyse Crystal structure of the second ig domain from mouse polymeric immunoglobulin… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4NOF
- Type
- protein
- Length
- 217 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Polymeric immunoglobulin receptor
- UniProt
- O70570
- Ligands
- NAG
- Pockets
- 1 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 8% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Polymeric immunoglobulin receptor | protein | 111 | 8% helix, 47% strand | O70570 |
| B | Polymeric immunoglobulin receptor | protein | 106 | 8% helix, 51% strand | O70570 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A, B
- GOL · Glycerol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 271 | 0.52 | 0.75 | 24 | empty |
Interfaces
1 interface between chains.
- A–B · 279 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- 4NOF · Crystal structure of the second Ig domain from mouse Polymeric Immunoglobulin receptor… · the same entry in another collection · chain A against A, TM-score 1.00
- O70570 · AlphaFold monomer V2.0 prediction for polymeric immunoglobulin receptor (O70570) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 O70570
- Elsewhere: RCSB PDB 4NOF · PDBe 4NOF · UniProt O70570
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.