Structure of PDB 5f98 Chain C Binding Site BS01

Receptor Information
>5f98 Chain C (length=648) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQ
KGKVVFFANQIPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVE
NNDIIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFN
YLDQKLGGSSGPLPQVIGLTASVGVGDAKNTDEALDYICKLCASLDASVI
ATVKHNLEELEQVVYKPQKFFRKVESRIDKFKYIIAQLMRDTESLAKRIC
KDLREFGTQKYEQWIVTVQKACMVFQMPDKDEESRICKALFLYTSHLRKY
NDALIISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKLQELE
SVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIE
GNPKLSFLKPGILTGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKM
IQTRGRGRARGSKCFLLTSNAGVIEKEQINMYKEKMMNDSILRLQTWDEA
VFREKILHIQTHEKFIRDSQEKPKPVPDKENKKLLCRKCKALACYTADVR
VIEECHYTVLGDAFKECFVSRPHPKPKQFSSFEKRAKIFCARQNCSHDWG
IHVKYKTFEIPVIKIESFVVEDIATGVQTLYSKWKDFHFEKIPFDPAE
Ligand information
>5f98 Chain D (length=24) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
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Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5f98 Structural basis for m7G recognition and 2'-O-methyl discrimination in capped RNAs by the innate immune receptor RIG-I.
Resolution3.28 Å
Binding residue
(original residue number in PDB)		N298 Q299 I300 S325 G326 T347 Q349 K379 Q380 H381 Q507 E510 Q511 R546 K635 T636 R637 T662 T697 S698 N720 H830 F853 K858 I875 K888 S906 K909
Binding residue
(residue number reindexed from 1)		N59 Q60 I61 S86 G87 T108 Q110 K140 Q141 H142 Q259 E262 Q263 R298 K387 T388 R389 T414 T423 S424 N446 H556 F579 K584 I601 K614 S632 K635
Binding affinityPDBbind-CN: Kd=1.7nM
Enzymatic activity
Enzyme Commision number 3.6.4.13: RNA helicase.
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0005524 ATP binding

View graph for
Molecular Function
External links
PDB RCSB:5f98, PDBe:5f98, PDBj:5f98
PDBsum5f98
PubMed26733676
UniProtO95786|RIGI_HUMAN Antiviral innate immune response receptor RIG-I (Gene Name=RIGI)

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