MolNFT v1 · #50413 · protein
Crystal structure of the 3-mbt domain from human L3MBTL1 in complex with H1.5K27ME2 at 1.66 ångström
2RHI · LETHAL(3)MALIGNANT brain tumor-like protein: “Crystal structure of the 3-mbt domain from human L3MBTL1 in complex with H1.5K27ME2 at 1.66 ångström”. X-ray diffraction, 1 pocket (best druggability 0.73). MolNFT v1 #50413 on…
- PDB
- 2RHI
- Type
- protein
- Length
- 327 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- LETHAL(3)MALIGNANT brain tumor-like protein; Histone H1.5
- UniProt
- Q9Y468, P16401
- Pockets
- 1 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 20% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | LETHAL(3)MALIGNANT brain tumor-like protein | protein | 324 | 21% helix, 30% strand | Q9Y468 |
| B | Histone H1.5 | protein | 3 | 0% helix, 0% strand | P16401 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 777 | 0.73 | 0.78 | 69 | empty |
Interfaces
1 interface between chains.
- A–B · 263 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 1 modified (methylation).
Compared structures
- 2RHI · Crystal structure of the 3-MBT domain from human L3MBTL1 in complex with H1.5K27me2 at… · the same entry in another collection · chain A against A, TM-score 1.00
- P16401 · AlphaFold monomer V2.0 prediction for histone H1.5 (P16401) · a predicted model of the same protein · chain B against A, TM-score 1.00
- Q9Y468 · AlphaFold monomer V2.0 prediction for LETHAL(3)MALIGNANT brain tumor- like protein 1… · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q9Y468
- Every structure of UniProt P16401
- Elsewhere: RCSB PDB 2RHI · PDBe 2RHI · UniProt Q9Y468 · UniProt P16401
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