Structure of PDB 5f9f Chain A

Receptor sequence

>5f9fA (length=673) Species: 9606 (Homo sapiens)

PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQ
KGKVVFFANQIPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVE
NNDIIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFN
YLDQKLGGSSGPLPQVIGLTASVGVGDAKNTDEALDYICKLCASLDASVI
ATVKHNLEELEQVVYKPQKFFRKVESRISDKFKYIIAQLMRDTESLAKRI
CKDLREFGTQKYEQWIVTVQKACMVFQMPDKDEESRICKALFLYTSHLRK
YNDALIISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKLQEL
ESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWI
EGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIAT
SVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLLTSNAGV
IEKEQINMYKEKMMNDSILRLQTWDEAVFREKILHIQTHEKFIRDSQPKP
VPDKENKKLLCRKCKALACYTADVRVIEECHYTVLGDAFKECFVSRPHPK
PKQFSSFEKRAKIFCARQNCSHDWGIHVKYKTFEIPVIKIESFVVEDIAT
GVQTLYSKWKDFHFEKIPFDPAE

3D structure

• PDB: 5f9f Structural basis for m7G recognition and 2'-O-methyl discrimination in capped RNAs by the innate immune receptor RIG-I.
• Chain: A
• Resolution: 2.601 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 K379 Q380 Q507 E510 Q511 K518 R546 K635 T636 R637 T662 G663 T667 N668 T697 S698 N720 C829 H830 F853 K858 I875 V886 K888	N59 Q60 I61 S86 G87 T108 Q110 K140 Q141 Q260 E263 Q264 K271 R299 K388 T389 R390 T415 G416 T420 N421 T450 S451 N473 C580 H581 F604 K609 I626 V637 K639	PDBbind-CN: Kd=38.5nM
BS02	ZN	A	C810 C864 C869	C561 C615 C620
BS03	BU3	A	D550 T636	D303 T389
BS04	BU3	A	G269 T271 F272	G30 T32 F33
BS05	BU3	A	Q336 I337 N340 N341	Q97 I98 N101 N102

Gene Ontology

Molecular Function

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

External links

• PDB: RCSB:5f9f, PDBe:5f9f, PDBj:5f9f
• PDBsum: 5f9f
• PubMed: 26733676
• UniProt: O95786|RIGI_HUMAN Antiviral innate immune response receptor RIG-I (Gene Name=RIGI)