MolNFT v1 · #171208 · protein + DNA
MECP2 is a microsatellite binding protein that protects ca repeats from nucleosome invasion
6YWW · Truncated methyl cpg binding protein 2 transcript 1: “MECP2 is a microsatellite binding protein that protects ca repeats from nucleosome invasion”. X-ray diffraction, 2 pockets (best druggability 0.61). MolNFT v1 #171208 on…
- PDB
- 6YWW
- Type
- protein + DNA
- Length
- 111 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Truncated methyl cpg binding protein 2 transcript 1; DNA/RNA…
- UniProt
- D5L9I4
- Pockets
- 2 · best druggability 0.61
Structure
x-ray diffraction · 3 distinct chains · 20% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Truncated methyl cpg binding protein 2 transcript 1 | protein | 71 | 20% helix, 20% strand | D5L9I4 |
| B | DNA/RNA (5'-D(*TP*CP*TP*GP*CP*AP*CP*A)-R(P*(5HC))- D(P*AP*CP*AP*CP*AP*AP*TP*TP*AP*TP*A)-3') | dna | 20 | — | — |
| C | DNA (5'- D(*AP*TP*AP*TP*AP*AP*TP*TP*GP*TP*GP*TP*GP*TP*GP*TP*GP*CP*AP*G)-3') | dna | 20 | — | — |
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 96 | 0.61 | 0.88 | 24 | empty |
| 2 | 230 | 0.50 | 0.75 | 22 | empty |
Interfaces
3 interfaces between chains.
- B–C · 932 Ų buried · 90 hydrogen bonds · nucleic-nucleic
- A–B · 356 Ų buried · 7 hydrogen bonds · protein-nucleic
- A–C · 352 Ų buried · 12 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 1 modified (nucleotide modification).
Compared structures
- 6YWW · MeCP2 is a microsatellite binding protein that protects CA repeats from nucleosome… · 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
- Every structure of UniProt D5L9I4
- Elsewhere: RCSB PDB 6YWW · PDBe 6YWW · UniProt D5L9I4
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