PDB Entry (6y3j)

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Visualizer: MichelaNGLo

PDB ID: 6y3j Resolution: 2.6 Å Exp. Method: X-RAY DIFFRACTION
PMID: 32937373 DOI: 10.1126/sciadv.abc0629
Protein
Protein Name: Probable E3 ubiquitin-protein ligase DTX2
Protein Class: LIGASE
Uniprot ID/ACC: Q86UW9 (DTX2_HUMAN) Organism: Homo sapiens
Gene Symbol: DTX2 Gene ID: 113878
Pocket Descriptors
Volume: 634.752 Depth: 22.7051
Hydrophobicity: 0.658228 Drug Score: 0.342942
Pocket Similarity: Calculate
Ligand
Ligand Name:   ADENOSINE-5-DIPHOSPHORIBOSE
HET ID:   APR PubChem:   445794
DrugBank:   - ChEMBL:   CHEMBL1231026
Canonical SMILES:   O[C@@H]1[C@@H](CO[P@@](=O)(O[P@@](=O)(OC[C@H]2O[C@H]([C@@H]([C@@H]2O)O)O)O)O)O[C@H]([C@@H]1O)n1cnc2c1ncnc2N
Standard InChI:   InChI=1S/C15H23N5O14P2/c16-12-7-13(18-3-17-12)20(4-19-7)14-10(23)8(21)5(32-14)1-30-35(26,27)34-36(28,29)31-2-6-9(22)11(24)15(25)33-6/h3-6,8-11,14-15,21-25H,1-2H2,(H,26,27)(H,28,29)(H2,16,17,18)/t5-,6-,8-,9-,10-,11-,14-,15-/m1/s1
Molecular Formula:   C15H23N5O14P2 Mol. Weight:   559.31573 Heavy Atoms:   36
Charge:   0 Is Chiral:   True logP:   -2.7015
HBD:   8 HBA:   19 TPSA:   311.14
#Bonds:   47 #Rotatable Bonds:   9 Shape Complexity:   0.6666667
Stereocomplexity:   0.6666667 Ligand Type:   Small Molecule
Binding Affinity
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