Research workbench
Crystal structure of suppressor of variegation 4-20 homolog 2
Analyse Crystal structure of suppressor of variegation 4-20 homolog 2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3RQ4
- Type
- protein
- Length
- 240 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone-lysine N-methyltransferase SUV420H2
- EC
- 2.1.1.43
- UniProt
- Q86Y97
- Ligands
- SAM, ZN, UNX
- Pockets
- 2 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 35% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Histone-lysine N-methyltransferase SUV420H2 (EC 2.1.1.43) | protein | 240 | 35% helix, 21% strand | Q86Y97 |
Ligands and binding sites
- SAM · S-adenosylmethionine · ligand · chains A
- ZN · Zinc ion · metal · chains A
- UNX · Unknown atom or ion · ion · 28 copies · chains A
- EDO · 1,2-ethanediol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 382 | 0.72 | 0.83 | 64 | SAM, EDO, UNX |
| 2 | 74 | 0.29 | 0.73 | 22 | UNX |
Compared structures
- 3RQ4 · Crystal structure of suppressor of variegation 4-20 homolog 2 · the same entry in another collection · chain A against A, TM-score 1.00
- Q86Y97 · AlphaFold monomer V2.0 prediction for histone-lysine N-methyltransferase KMT5C (Q86Y97) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q86Y97
- Elsewhere: RCSB PDB 3RQ4 · PDBe 3RQ4 · UniProt Q86Y97
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