MolNFT v1 · #21457 · protein
High resolution structure determination of rhodocetin
1SB2 · Rhodocetin alpha subunit: “High resolution structure determination of rhodocetin”. X-ray diffraction, 2 pockets (best druggability 0.52). MolNFT v1 #21457 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1SB2
- Type
- protein
- Length
- 256 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Rhodocetin alpha subunit; Rhodocetin beta subunit
- UniProt
- P81397, P81398
- Pockets
- 2 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 19% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Rhodocetin alpha subunit | protein | 132 | 17% helix, 37% strand | P81397 |
| B | Rhodocetin beta subunit | protein | 124 | 20% helix, 37% strand | P81398 |
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 | 159 | 0.52 | 0.79 | 24 | empty |
| 2 | 55 | 0.34 | 0.78 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 1752 Ų buried · 22 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 1SB2 · High resolution Structure determination of rhodocetin · the same entry in another collection · chain A against A, TM-score 1.00
- P81398 · AlphaFold monomer V2.0 prediction for snaclec rhodocetin subunit beta (P81398) · a predicted model of the same protein · chain B against A, TM-score 0.95
- P81397 · AlphaFold monomer V2.0 prediction for snaclec rhodocetin subunit alpha (P81397) · a predicted model of the same protein · chain A against A, TM-score 0.78
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 P81397
- Every structure of UniProt P81398
- Elsewhere: RCSB PDB 1SB2 · PDBe 1SB2 · UniProt P81397 · UniProt P81398
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