Research workbench
Crystal structure of rhagium inquisitor antifreeze protein
Analyse Crystal structure of rhagium inquisitor antifreeze protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4DT5
- Type
- protein
- Length
- 281 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Antifreeze protein
- UniProt
- E5LR38
- Ligands
- SO4
- Pockets
- 4 · best druggability 0.38
Structure
x-ray diffraction · 2 distinct chains · 0% helix, 69% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Antifreeze protein | protein | 143 | 0% helix, 69% strand | E5LR38 |
| B | Antifreeze protein | protein | 138 | 0% helix, 70% strand | E5LR38 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 125 | 0.38 | 0.74 | 26 | empty |
| 2 | 88 | 0.36 | 0.76 | 19 | empty |
| 3 | 77 | 0.30 | 0.73 | 19 | empty |
| 4 | 53 | 0.26 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 843 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 4DT5 · Crystal Structure of Rhagium inquisitor Antifreeze Protein · 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 E5LR38
- Elsewhere: RCSB PDB 4DT5 · PDBe 4DT5 · UniProt E5LR38
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