Structure of PDB 4qpx Chain A

Receptor sequence

>4qpxA (length=495) Species: 11983 (Norwalk virus)

SKGTYCGAPILGPGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRV
KGGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDPPDK
WSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEE
GKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLM
DELKTHCVTLPIRVGMNMNEDGPIIFERHSRYRYHYDADYSRWDSTQQRA
VLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKL
DPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWF
GKLEQSSILRQMYWTRGPNHEDPSETMIPHSQRPIQLMSLLGEAALHGPA
FYSKISKLVIAELYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVN

3D structure

• PDB: 4qpx Structure of a backtracked state reveals conformational changes similar to the state following nucleotide incorporation in human norovirus polymerase.
• Chain: A
• Resolution: 1.86 Å

Enzymatic activity

• Enzyme Commision number: 3.4.22.66: calicivirin.

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	T116 R126 K166 D242 D247 S300 G301 S306 Y341 D343 D344 L391 R392 S410 R413 Q414 R419 Q435 Q439	T113 R123 K163 D239 D244 S297 G298 S303 Y338 D340 D341 L388 R389 S407 R410 Q411 R416 Q432 Q436
BS02	rna	A	S23 K25 T117 S118 K127 A164 D167 L184 G186 M192 K207 G218 N220 G301 P303 Y341 N422 S502 F503	S20 K22 T114 S115 K124 A161 D164 L181 G183 M189 K204 G215 N217 G298 P300 Y338 N419 S492 F493
BS03	MN	A	D242 D343 D344	D239 D340 D341
BS04	MN	A	D242 Y243 D343	D239 Y240 D340
BS05	MN	A	D99 E205 H209	D96 E202 H206

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003968 RNA-dependent RNA polymerase activity
• GO:0004386 helicase activity
• GO:0005524 ATP binding

Biological Process

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

External links

• PDB: RCSB:4qpx, PDBe:4qpx, PDBj:4qpx
• PDBsum: 4qpx
• PubMed: 25478829
• UniProt: Q70ET3