MolNFT v1 · #32192 · protein
Crystal structure of the wild-type mbt domains of human SCML2
2BIV · Sex comb on midleg-like protein 2: “Crystal structure of the wild-type mbt domains of human SCML2”. X-ray diffraction, 2 ligands (NA, IOD), 6 pockets (best druggability 0.64). MolNFT v1 #32192 on GenesisL1: 3D structure, binding…
- PDB
- 2BIV
- Type
- protein
- Length
- 616 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sex comb on midleg-like protein 2
- UniProt
- Q9UQR0
- Ligands
- NA, IOD
- Pockets
- 6 · best druggability 0.64
Structure
x-ray diffraction · 3 distinct chains · 15% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sex comb on midleg-like protein 2 | protein | 212 | 18% helix, 29% strand | Q9UQR0 |
| B | Sex comb on midleg-like protein 2 | protein | 211 | 15% helix, 29% strand | Q9UQR0 |
| C | Sex comb on midleg-like protein 2 | protein | 193 | 13% helix, 32% strand | Q9UQR0 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 441 | 0.64 | 0.77 | 64 | empty |
| 2 | 269 | 0.48 | 0.73 | 37 | empty |
| 3 | 134 | 0.44 | 0.76 | 25 | empty |
| 4 | 112 | 0.42 | 0.76 | 19 | empty |
| 5 | 50 | 0.34 | 0.79 | 12 | empty |
Interfaces
2 interfaces between chains.
- A–B · 430 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 402 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 2BIV · Crystal structure of the wild-type MBT domains of Human SCML2 · the same entry in another collection · chain B against B, TM-score 1.00
- Q9UQR0 · AlphaFold monomer V2.0 prediction for sex comb on midleg-like protein 2 (Q9UQR0) · 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 Q9UQR0
- Elsewhere: RCSB PDB 2BIV · PDBe 2BIV · UniProt Q9UQR0
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