Structure of PDB 5f98 Chain E

Receptor sequence

>5f98E (length=641) Species: 9606 (Homo sapiens)

KPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKG
KVVFFANQIPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVENN
DIIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYL
DQKLGGSSGPLPQVIGLTASVGVGDAKNTDEALDYICKLCASLDASVIAT
VKHNLEELEQVVYKPQKFFRKVESRIDKFKYIIAQLMRDTESLAKRICKR
EFGTQKYEQWIVTVQKACMVFQMPDKDEESRICKALFLYTSHLRKYNDAL
IISEHARMKDALDYLKDFFSNVRAFDEIEQDLTQRFEEKLQELESVSRDP
SNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLS
FLKPGILTDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRG
RARGSKCFLLTSNAGVIEKEQINMYKEKMMNDSILRLQTWDEAVFREKIL
HIQTHEKFIRDSQEKPKPVPDKENKKLLCRKCKALACYTADVRVIEECHY
TVLGDAFKECFVSRPHPKPKQFSSFEKRAKIFCARQNCSHDWGIHVKYKT
FEIPVIKIESFVVEDIATGVQTLYSKWKDFHFEKIPFDPAE

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: E
• 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	E	N298 I300 S325 G326 T347 Q349 I350 K379 Q380 Q507 K635 T636 R637 T662 T697 S698 K750 H830 F853 S854 K858 K888 S906 W908	N57 I59 S84 G85 T106 Q108 I109 K138 Q139 Q255 K381 T382 R383 T408 T416 S417 K469 H549 F572 S573 K577 K607 S625 W627	PDBbind-CN: Kd=1.7nM
BS02	ZN	E	C810 C864	C529 C583
BS03	M7G	E	H847 K858 K861 I875	H566 K577 K580 I594

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)