Research workbench
All three CA(2+)-binding loops of light-sensitive ctenophore photoprotein berovin bind magnesium ions: the spatial structure of MG(2+)-loaded apo-berovin
Analyse All three CA(2+)-binding loops of light-sensitive ctenophore photoprotein… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5BPJ
- Type
- protein
- Length
- 180 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Apoberovin 1
- UniProt
- H8ZZK1
- Ligands
- MG
- Pockets
- 2 · best druggability 0.58
Structure
x-ray diffraction · 1 distinct chain · 61% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Apoberovin 1 | protein | 180 | 61% helix, 4% strand | H8ZZK1 |
Ligands and binding sites
- MG · Magnesium ion · metal · 3 copies · 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 | 156 | 0.58 | 0.82 | 15 | empty |
| 2 | 57 | 0.35 | 0.79 | 15 | empty |
Compared structures
- 5BPJ · All Three Ca(2+)-binding Loops of Light-sensitive Ctenophore Photoprotein Berovin Bind… · 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 H8ZZK1
- Elsewhere: RCSB PDB 5BPJ · PDBe 5BPJ · UniProt H8ZZK1
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