Research workbench
Crystal structure of SPLSM5/6/7
Analyse Crystal structure of SPLSM5/6/7 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4EMK
- Type
- protein
- Length
- 205 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- U6 snrna-associated sm-like protein LSM5; U6 snrna-associated sm-like protein LSM6; U6…
- UniProt
- O42978, Q9UUI1, O74499
- Pockets
- 2 · best druggability 0.30
Structure
x-ray diffraction · 3 distinct chains · 9% helix, 59% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | U6 snrna-associated sm-like protein LSM5 | protein | 72 | 10% helix, 57% strand | O42978 |
| B | U6 snrna-associated sm-like protein LSM6 | protein | 73 | 15% helix, 56% strand | Q9UUI1 |
| C | U6 snrna-associated sm-like protein LSM7 | protein | 60 | 0% helix, 65% strand | O74499 |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 61 | 0.30 | 0.74 | 13 | empty |
| 2 | 50 | 0.28 | 0.75 | 17 | empty |
Interfaces
2 interfaces between chains.
- A–C · 890 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 607 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 modified (engineered).
Compared structures
- 4EMK · Crystal structure of SpLsm5/6/7 · the same entry in another collection · chain A against A, TM-score 1.00
- O42978 · AlphaFold monomer V2.0 prediction for U6 snrna-associated sm-like protein LSM5 (O42978) · a predicted model of the same protein · chain A against A, TM-score 0.98
- O74499 · AlphaFold monomer V2.0 prediction for U6 snrna-associated sm-like protein LSM7 (O74499) · a predicted model of the same protein · chain C against A, TM-score 0.96
- Q9UUI1 · AlphaFold monomer V2.0 prediction for U6 snrna-associated sm-like protein LSM6 (Q9UUI1) · a predicted model of the same protein · chain B against A, TM-score 0.86
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 O42978
- Every structure of UniProt Q9UUI1
- Every structure of UniProt O74499
- Elsewhere: RCSB PDB 4EMK · PDBe 4EMK · UniProt O42978 · UniProt Q9UUI1 · UniProt O74499
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