Structure of PDB 4lq3 Chain A

Receptor sequence

>4lq3A (length=495) Species: 142786 (Norovirus)

GTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKG
GPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDPPEKWS
FTQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEGGK
NMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLMDE
LKAHCVTLPIRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAVL
AAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFKISINEPSGVPCTSQ
WNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEK
LTAKLKEYGLKPTRPDGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSS
ILRQMYWTRGPNHEDPSETMSQRPIQLMSLLGEAALHGPAFYSKISKLVI
AELKEGMDYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE

3D structure

• PDB: 4lq3 Naphthalene-sulfonate inhibitors of human norovirus RNA-dependent RNA-polymerase.
• Chain: A
• Resolution: 2.6 Å

Enzymatic activity

• Enzyme Commision number: 3.6.1.15: nucleoside-triphosphate phosphatase.

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	rna	A	K27 R126 N128 R419 G420 P421 N422	K22 R121 N123 R409 G410 P411 N412
BS02	20V	A	V324 N326 D354	V317 N319 D347	PDBbind-CN: -logKd/Ki=6.35,IC50=0.45uM
BS03	20V	A	K166 E168 R392 L406 S410 I411 Q414 R419 D507 E510	K161 E163 R382 L396 S400 I401 Q404 R409 D492 E495	PDBbind-CN: -logKd/Ki=6.35,IC50=0.45uM
BS04	20V	A	I463 A464 K467	I450 A451 K454	PDBbind-CN: -logKd/Ki=6.35,IC50=0.45uM
BS05	MG	A	D240 D344 E345 T389	D235 D337 E338 T379

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003723 RNA binding
• GO:0003968 RNA-dependent RNA polymerase activity
• GO:0004386 helicase activity
• GO:0005524 ATP binding
• GO:0046872 metal ion binding

Biological Process

• GO:0001172 RNA-templated transcription
• GO:0006351 DNA-templated transcription
• GO:0039694 viral RNA genome replication

External links

• PDB: RCSB:4lq3, PDBe:4lq3, PDBj:4lq3
• PDBsum: 4lq3
• PubMed: 24316032
• UniProt: Q2N379