MolNFT v1 · #59444 · protein
Crystal structure of a protein structurally similar to SM/LSM-like RNA-binding proteins (JCVI_PEP_1096686650277) from uncultured marine organism at 2.60 a resolution
3BY7 · Uncharacterized protein: “Crystal structure of a protein structurally similar to SM/LSM-like RNA-binding proteins…”. X-ray diffraction, 6 pockets (best druggability 0.56). MolNFT v1 #59444 on GenesisL1: 3D structure, binding sites…
- PDB
- 3BY7
- Type
- protein
- Length
- 405 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized protein
- Pockets
- 6 · best druggability 0.56
Structure
x-ray diffraction · 5 distinct chains · 15% helix, 56% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized protein | protein | 80 | 15% helix, 58% strand | — |
| B | Uncharacterized protein | protein | 81 | 16% helix, 54% strand | — |
| C | Uncharacterized protein | protein | 82 | 16% helix, 56% strand | — |
| D | Uncharacterized protein | protein | 86 | 14% helix, 53% strand | — |
| E | Uncharacterized protein | protein | 76 | 16% helix, 58% strand | — |
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 288 | 0.56 | 0.76 | 20 | empty |
| 2 | 52 | 0.49 | 0.86 | 15 | empty |
| 3 | 54 | 0.33 | 0.77 | 15 | empty |
| 4 | 56 | 0.30 | 0.75 | 13 | empty |
| 5 | 67 | 0.29 | 0.74 | 16 | empty |
Interfaces
5 interfaces between chains.
- B–D · 705 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 688 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 680 Ų buried · 13 hydrogen bonds · protein-protein
- C–E · 599 Ų buried · 10 hydrogen bonds · protein-protein
- D–E · 547 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 modified (engineered).
Compared structures
- 3BY7 · Crystal structure of a protein structurally similar to SM/LSM-like RNA-binding proteins… · 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
- Elsewhere: RCSB PDB 3BY7 · PDBe 3BY7
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