Structure of PDB 5f98 Chain K

Receptor sequence

>5f98K (length=644) Species: 9606 (Homo sapiens)

FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQK
GKVVFFANQIPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVEN
NDIIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNY
LDQKLGGSSGPLPQVIGLTASVGVGDAKNTDEALDYICKLCASLDASVIA
TVKHNLEELEQVVYKPQKFFRKVESRISDKFKYIIAQLMRDTESLAKRIC
KDLNREFGTQKYEQWIVTVQKACMVFQMPDKDEESRICKALFLYTSHLRK
YNDALIISEHARMKDALDYLKDFFSNVREIEQDLTQRFEEKLQELESVSR
DPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPK
LSFLKPGILTGRDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQT
RGRGRARGSKCFLLTSNAGVIEKEQINMYKEKMMNDSILRLQTWDEAVFR
EKILHIQTHEKFIRDSQEKPPVPDKENKKLLCRKCKALACYTADVRVIEE
CHYTVLGDAFKECFVSRPHPKPKQFSSFEKRAKIFCARQNCSHDWGIHVK
YKTFEIPVIKIESFVVEDIATGVQTLYSKWKDFHFEKIPFDPAE

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: K
• 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	K	N298 Q299 I300 S325 G326 T347 Q349 K379 Q380 H381 Q507 E510 Q511 V514 R546 K635 T636 R637 G663 R664 T697 S698 N720 C829 H830 F853 I875 K888 S906	N58 Q59 I60 S85 G86 T107 Q109 K139 Q140 H141 Q260 E263 Q264 V267 R299 K383 T384 R385 G411 R412 T420 S421 N443 C551 H552 F575 I597 K610 S628	PDBbind-CN: Kd=1.7nM
BS02	ZN	K	C810 C864	C532 C586

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)