MolNFT v1 · #94634 · protein

Binary complex of mouse tdt with dctp

4I2J · DNA nucleotidylexotransferase: “Binary complex of mouse tdt with dctp”. X-ray diffraction, 2 ligands (DCP, ZN), 2 pockets (best druggability 0.66). MolNFT v1 #94634 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4I2J
Type: protein
Length: 353 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA nucleotidylexotransferase
EC: 2.7.7.31
UniProt: P09838
Ligands: DCP, ZN
Pockets: 2 · best druggability 0.66

Structure

x-ray diffraction · 1 distinct chain · 50% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	DNA nucleotidylexotransferase (EC 2.7.7.31)	protein	353	50% helix, 15% strand	P09838

Ligands and binding sites

DCP · 2'-deoxycytidine-5'-triphosphate · ligand · chains A
ZN · Zinc ion · metal · 4 copies · 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.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	767	0.66	0.74	67	DCP, ZN
2	63	0.43	0.82	21	ZN

Compared structures

4I2J · Binary complex of mouse TdT with dCTP · 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 4I2J · PDBe 4I2J · UniProt P09838

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