Structure of PDB 5t2t Chain A Binding Site BS02

Receptor Information

>5t2t Chain A (length=189)

HDEIISELRELCLNYIEQDERLSRQKLNFLGQREPRMVLIEGLKLLSRCI
EIDSADKSGCTHNHDDKSVETILVESGIVCPGLPLIIPDGYKLIDNSLIL
LECFVRSTPASFEKKFIEDTNKLACIREDLAVAGVTLVPIVDGRCDYDNS
FMPEWANFKFRDLLFKLLEYSNQDEKVFEESEYFRLCES

Ligand information

• Ligand ID: 0N8
• InChI: InChI=1S/C23H24ClNO4/c24-19-8-6-17(7-9-19)15-23(21(27)14-20(26)22(28)29)10-12-25(13-11-23)16-18-4-2-1-3-5-18/h1-9,14,26H,10-13,15-16H2,(H,28,29)/b20-14-
• InChIKey: DGJZJCIAWLMRBY-ZHZULCJRSA-N
• SMILES:
  OpenEye OEToolkits 1.7.6: c1ccc(cc1)CN2CCC(CC2)(Cc3ccc(cc3)Cl)C(=O)C=C(C(=O)O)O
  CACTVS 3.370: OC(=O)C(O)=CC(=O)C1(CCN(CC1)Cc2ccccc2)Cc3ccc(Cl)cc3
  OpenEye OEToolkits 1.7.6: c1ccc(cc1)CN2CCC(CC2)(Cc3ccc(cc3)Cl)C(=O)/C=C(/C(=O)O)\O
  ACDLabs 12.01: O=C(O)C(\O)=C\C(=O)C2(CCN(Cc1ccccc1)CC2)Cc3ccc(Cl)cc3
  CACTVS 3.370: OC(=O)C(/O)=C/C(=O)C1(CCN(CC1)Cc2ccccc2)Cc3ccc(Cl)cc3
• Formula: C23 H24 Cl N O4
• Name: (2Z)-4-[1-benzyl-4-(4-chlorobenzyl)piperidin-4-yl]-2-hydroxy-4-oxobut-2-enoic acid
• ChEMBL: CHEMBL463590
• ZINC: ZINC000100970611
• PDB chain: 5t2t Chain A Residue 203

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5t2t Crystal structures ofLymphocytic choriomeningitis virusendonuclease domain complexed with diketo-acid ligands.
• Resolution: 1.967 Å
• Binding residue (original residue number in PDB): K43 R47 L84 I86 D88 K114
• Binding residue (residue number reindexed from 1): K44 R48 L85 I87 D89 K115
• Annotation score: 1
• Binding affinity: PDBbind-CN: -logKd/Ki=6.29,Kd=0.51uM

Enzymatic activity

• Enzyme Commision number: 2.7.7.48: RNA-directed RNA polymerase.
  3.1.-.-

External links

• PDB: RCSB:5t2t, PDBe:5t2t, PDBj:5t2t
• PDBsum: 5t2t
• PubMed: 29765612
• UniProt: P14240|L_LYCVA RNA-directed RNA polymerase L (Gene Name=L)