MolNFT v1 · #63562 · protein
Crystal structure of the serine phosphatase of RNA polymerase II ctd (SSU72 superfamily) from drosophila melanogaster. orthorhombic crystal form. northeast structural genomics consortium target FR253.
3FDF: “Crystal structure of the serine phosphatase of RNA polymerase II ctd (SSU72 superfamily) from drosophila…”. X-ray diffraction, 11 pockets (best druggability 0.77). MolNFT v1 #63562 on GenesisL1: 3D structure, binding sites and…
- PDB
- 3FDF
- Type
- protein
- Length
- 764 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- FR253
- UniProt
- Q9VWE4
- Pockets
- 11 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 43% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | FR253 | protein | 191 | 43% helix, 18% strand | Q9VWE4 |
Pockets
11 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 828 | 0.77 | 0.81 | 57 | empty |
| 2 | 207 | 0.57 | 0.80 | 28 | empty |
| 3 | 211 | 0.52 | 0.77 | 40 | empty |
| 4 | 120 | 0.45 | 0.78 | 20 | empty |
| 5 | 64 | 0.43 | 0.82 | 15 | empty |
Interfaces
5 interfaces between chains.
- A–B · 504 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 365 Ų buried · 0 hydrogen bonds · protein-protein
- B–C · 274 Ų buried · 4 hydrogen bonds · protein-protein
- B–D · 69 Ų buried · 0 hydrogen bonds · protein-protein
- A–D · 19 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 44 modified (engineered).
Compared structures
- 3FDF · Crystal structure of the serine phosphatase of RNA polymerase II CTD (SSU72 superfamily)… · 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 Q9VWE4
- Elsewhere: RCSB PDB 3FDF · PDBe 3FDF · UniProt Q9VWE4
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