MolNFT v1 · #12360 · protein
Crystal structure of murine terminal deoxynucleotidyl transferase complexed with ddatp
1KEJ · Terminal deoxynucleotidyltransferase short isoform: “Crystal structure of murine terminal deoxynucleotidyl transferase complexed with ddatp”. X-ray diffraction, 3 ligands (DAD, CO, NA), 2 pockets (best druggability 0.69). MolNFT v1…
- PDB
- 1KEJ
- Type
- protein
- Length
- 357 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Terminal deoxynucleotidyltransferase short isoform
- EC
- 2.7.7.31
- UniProt
- P09838
- Ligands
- DAD, CO, NA
- Pockets
- 2 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Terminal deoxynucleotidyltransferase short isoform (EC 2.7.7.31) | protein | 357 | 44% helix, 13% strand | P09838 |
Ligands and binding sites
- DAD · 2',3'-dideoxyadenosine-5'-triphosphate · ligand · chains A
- CO · Cobalt (II) ion · metal · 2 copies · chains A
- NA · Sodium ion · metal · 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 | 870 | 0.69 | 0.75 | 73 | CO, NA, DAD |
| 2 | 62 | 0.35 | 0.77 | 13 | empty |
Compared structures
- 1KEJ · Crystal Structure of Murine Terminal Deoxynucleotidyl Transferase complexed with ddATP · the same entry in another collection · chain A against A, TM-score 1.00
- P09838 · AlphaFold monomer V2.0 prediction for DNA nucleotidylexotransferase (P09838) · 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 P09838
- Elsewhere: RCSB PDB 1KEJ · PDBe 1KEJ · UniProt P09838
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.