Research workbench
Crystal structure of red abalone verl repeat 1 at 1.8 a resolution
Analyse Crystal structure of red abalone verl repeat 1 at 1.8 a resolution in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5II5
- Type
- protein
- Length
- 476 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Maltose-binding periplasmic PROTEIN,VITELLINE envelope sperm lysin receptor
- UniProt
- P0AEX9, Q8WR62
- Ligands
- GLC
- Pockets
- 4 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 35% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Maltose-binding periplasmic PROTEIN,VITELLINE envelope sperm lysin receptor | protein | 476 | 35% helix, 28% strand | P0AEX9, Q8WR62 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 2 copies · chains A
- PGE · Triethylene glycol · additive · 4 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 308 | 0.72 | 0.85 | 37 | GLC |
| 2 | 278 | 0.61 | 0.79 | 29 | PGE |
| 3 | 230 | 0.56 | 0.78 | 36 | empty |
| 4 | 193 | 0.51 | 0.77 | 25 | empty |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5II5 · Crystal structure of red abalone VERL repeat 1 at 1.8 A resolution · 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 P0AEX9
- Every structure of UniProt Q8WR62
- Elsewhere: RCSB PDB 5II5 · PDBe 5II5 · UniProt P0AEX9 · UniProt Q8WR62
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