Structure of PDB 6ld2 Chain A

Receptor sequence

>6ld2A (length=565) Species: 2043570 (Zika virus ZIKV/H. sapiens/FrenchPolynesia/10087PF/2013)

PNMKIIGNRIERIRSEHAETWFFDENHPYRTWAYHGSYEAPLINGVVRLL
SKPWDVVTGVTGIAGQQRVFKEKVDTRVPDPQEGTRQVMSMVSSWLWKEL
GKHKRPRVCTKEEFINKVRSEAVNDPRFWALVDKEREHHLRGECQSCVYN
MMGRAIWYMWLGARFLEFEALGFLNEDHWMGRENSGGGVEGLGLQRLGYV
LEEMSRIPGGRMYADDTAGWDTRISRFDLENEALITNQMEKGHRALALAI
IKYTYQNKVVKVLRKGKTVMDIISRQDQRGSGQVVTYALNTFTNLVVQLI
RNMEAEEVLEMQDLWLLRRSEKVTNWLQSNGWDRLKRMAVSGDDCVVKPI
DDRFAHALRFLNDMGKVRKDTQEWKPSTGWDNWEEVPFCSHHFNKLHLKD
GRSIVVPCRHQDELIGRARVSPGAGWSIRETACLAKSYAQMWQLLYFHRR
DLRLMANAICSSVPVDWVPTGRTTWSIHGKGEWMTTEDMLVVWNRVWIEE
NDHMEDKTPVTKWTDIPYLGKREDLWCGSLIGHRPRTTWAENIKNTVNMV
RRIIGDEEKYMDYLS

3D structure

• PDB: 6ld2 Non-nucleoside Inhibitors of Zika Virus RNA-Dependent RNA Polymerase.
• Chain: A
• Resolution: 1.4 Å

Enzymatic activity

• Enzyme Commision number: 2.1.1.56: mRNA (guanine-N(7))-methyltransferase.
  2.1.1.57: methyltransferase cap1.
  2.7.7.48: RNA-directed RNA polymerase.
  3.4.21.91: flavivirin.
  3.6.1.15: nucleoside-triphosphate phosphatase.
  3.6.4.13: RNA helicase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	ZN	A	E439 H443 C448 C451	E135 H139 C144 C147
BS02	ZN	A	H714 C730 C849	H392 C408 C527
BS03	KY3	A	L513 C711 S712 H713 R731 M763 L767 T796 S798 H800 G801 W805	L194 C389 S390 H391 R409 M441 L445 T474 S476 H478 G479 W483	MOAD: ic50=246.6uM

Gene Ontology

Molecular Function

• GO:0003968 RNA-dependent RNA polymerase activity
• GO:0005524 ATP binding

Biological Process

• GO:0039694 viral RNA genome replication

External links

• PDB: RCSB:6ld2, PDBe:6ld2, PDBj:6ld2
• PDBsum: 6ld2
• PubMed: 32796069
• UniProt: A0A024B7W1|POLG_ZIKVF Genome polyprotein