Structure of PDB 5f98 Chain A

Receptor sequence

>5f98A (length=650) Species: 9606 (Homo sapiens)

PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQ
KGKVVFFANQIPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVE
NNDIIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFN
YLDQKLGGSSGPLPQVIGLTASVGVGDAKNTDEALDYICKLCASLDASVI
ATVKHNLEELEQVVYKPQKFFRKVESRISDKFKYIIAQLMRDTESLAKRI
CKDLREFGTQKYEQWIVTVQKACMVFQMPDKDEESRICKALFLYTSHLRK
YNDALIISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKLQEL
ESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWI
EGNPKLSFLKPGILTGRDHNILIATSVADEGIDIAQCNLVILYEYVGNVI
KMIQTRGRGRARGSKCFLLTSNAGVIEKEQINMYKEKMMNDSILRLQTWD
EAVFREKILHIQTHEKFIRDSQEKPKPVPDKENKKLLCRKCKALACYTAD
VRVIEECHYTVLGDAFKECFVSRPHPKPKQFSSFEKRAKIFCARQNCSHD
WGIHVKYKTFEIPVIKIESFVVEDIATGVQTLYSKWKDFHFEKIPFDPAE

3D structure

• PDB: 5f98 Structural basis for m7G recognition and 2'-O-methyl discrimination in capped RNAs by the innate immune receptor RIG-I.
• Chain: A
• Resolution: 3.28 Å

Enzymatic activity

• Enzyme Commision number: 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	rna	A	N298 Q299 I300 S325 G326 T347 Q349 I350 K379 Q507 E510 R546 K635 T636 R637 T662 G663 T697 S698 H830 F853 S854 K858 K888 K909	N59 Q60 I61 S86 G87 T108 Q110 I111 K140 Q260 E263 R299 K388 T389 R390 T415 G416 T425 S426 H558 F581 S582 K586 K616 K637	PDBbind-CN: Kd=1.7nM
BS02	ZN	A	C810 C813 C864 C869	C538 C541 C592 C597
BS03	M7G	A	K851 K858 I875	K579 K586 I603

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0005524 ATP binding

External links

• PDB: RCSB:5f98, PDBe:5f98, PDBj:5f98
• PDBsum: 5f98
• PubMed: 26733676
• UniProt: O95786|RIGI_HUMAN Antiviral innate immune response receptor RIG-I (Gene Name=RIGI)