Structure of PDB 7bkp Chain A

Receptor sequence

>7bkpA (length=689) Species: 10090 (Mus musculus) [Search protein sequence]

LQLRPYQMEVAQPALDGKNIIICLPTGSGKTRVAVYITKDHLDKKKQASE
SGKVIVLVNKVMLAEQLFRKEFNPYLKKWYRIIGLSGDTQLKISFPEVVK
SYDVIISTAQILENSLLNLESGDDDGVQLSDFSLIIIDECHHTNKEAVYN
NIMRRYLKQKLRNNDLKKQNKPAIPLPQILGLTASPGVGAAKKQSEAEKH
ILNICANLDAFTIKTVKENLGQLKHQIKEPCKKFVIADDTRENPFKEKLL
EIMASIQTYCQKSPMSDFGTQHYEQWAIQMEKKAAKDGNRKDRVCAEHLR
KYNEALQINDTIRMIDAYSHLETFYTDEKEKKFAVLNDSSLKLDETDEFL
MNLFFDNKKMLKKLAENPKYENEKLIKLRNTILEQFTRSEESSRGIIFTK
TRQSTYALSQWIMENAKFAEVGVKAHHLIGAGHSSEVKPMTQTEQKEVIS
KFRTGEINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGRARAD
ESTYVLVTSSGSGVTEREIVNDFREKMKYKAINRVQNMKPEEYAHKILEL
QVQSILEKKMKVKRSIAYNDNPSLITLLCKNCSMLVCSGENIHVIEKMHH
VNMTPEFKGLYIVRENKALQKDYQTNGEIICKCGQAWGTMMVHKGLDLPC
LKIRNFVVNFKNNSPKKQYKKWVELPIRFPDLDYSEYCL

3D structure

PDB

7bkp MDA5 disease variant M854K prevents ATP-dependent structural discrimination of viral and cellular RNA.

Chain

Resolution

2.8 Å

3D
structure

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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)
BS01	rna	A	N365 G393 K398 E580 K726 R728 G756 S761 T790 M926 H927 V973 H974	N59 G87 K92 E274 K400 R402 G430 S435 T464 M598 H599 V642 H643
BS02	rna	A	E452 K764 T811 N957 K983 V1004	E146 K438 T485 N626 K652 V673
BS03	ZN	A	C907 C962	C579 C631
BS04	ATP	A	R310 G333 G335 K336 T337 R338	R4 G27 G29 K30 T31 R32

Gene Ontology

	Molecular Function
GO:0003677	DNA binding
GO:0003723	RNA binding
GO:0003724	RNA helicase activity
GO:0003725	double-stranded RNA binding
GO:0003727	single-stranded RNA binding
GO:0004386	helicase activity
GO:0005515	protein binding
GO:0005524	ATP binding
GO:0008270	zinc ion binding
GO:0016787	hydrolase activity
GO:0016887	ATP hydrolysis activity
GO:0019904	protein domain specific binding
GO:0038187	pattern recognition receptor activity
GO:0042802	identical protein binding
GO:0043021	ribonucleoprotein complex binding
GO:0046872	metal ion binding

	Biological Process
GO:0002376	immune system process
GO:0009615	response to virus
GO:0016925	protein sumoylation
GO:0032727	positive regulation of interferon-alpha production
GO:0032728	positive regulation of interferon-beta production
GO:0032755	positive regulation of interleukin-6 production
GO:0032760	positive regulation of tumor necrosis factor production
GO:0039530	MDA-5 signaling pathway
GO:0045071	negative regulation of viral genome replication
GO:0045087	innate immune response
GO:0051259	protein complex oligomerization
GO:0051607	defense response to virus
GO:0060337	type I interferon-mediated signaling pathway
GO:0060760	positive regulation of response to cytokine stimulus
GO:0071360	cellular response to exogenous dsRNA
GO:0098586	cellular response to virus
GO:0140374	antiviral innate immune response

	Cellular Component
GO:0005634	nucleus
GO:0005737	cytoplasm
GO:0005739	mitochondrion

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:7bkp, PDBe:7bkp, PDBj:7bkp
PDBsum	7bkp
PubMed	34795277
UniProt	Q8R5F7\|IFIH1_MOUSE Interferon-induced helicase C domain-containing protein 1 (Gene Name=Ifih1)

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