7JL0 | pdb_00007jl0

Cryo-EM structure of MDA5-dsRNA in complex with TRIM65 PSpry domain (Monomer)


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
C [auth A]SCOP2B SuperfamilyMss4-like 8103682 3001994 SCOP2B (2022-06-29)
C [auth A]SCOP2B SuperfamilyRecA-like P-loop NTPases 8103685 3002019 SCOP2B (2022-06-29)
C [auth A]SCOP2B SuperfamilyRecA-like P-loop NTPases 8103684 3002019 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
C [auth A]RIG-I_C-RDe7jl0A3 A: beta complex topologyX: ETN0001 domain-like (From Homology)H: ETN0001 domain-likeT: Mss4-likeF: RIG-I_C-RDECOD (1.6)
C [auth A]MDA5_IDe7jl0A2 A: alpha bundlesX: Helical bundle insertion in helicase domainsH: Helical bundle in Hef helicase (From Topology)T: Helical bundle in Hef helicaseF: MDA5_IDECOD (1.6)
C [auth A]DEAD_1e7jl0A1 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: DEAD_1ECOD (1.6)
C [auth A]Helicase_C_1e7jl0A4 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Helicase_C_1ECOD (1.6)
D [auth B]SPRYe7jl0B1 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Concanavalin A-like lectins/glucanasesF: SPRYECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
C [auth A]PF00271Helicase conserved C-terminal domain (Helicase_C)Helicase conserved C-terminal domainThe Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. Domain
C [auth A]PF04851Type III restriction enzyme, res subunit (ResIII)Type III restriction enzyme, res subunit- Family
C [auth A]PF11648C-terminal domain of RIG-I (RIG-I_C-RD)C-terminal domain of RIG-IThis family of proteins represents the regulatory domain RD of RIG-I, a protein which initiates a signalling cascade that provides essential antiviral protection for the host. The RD domain binds viral RNA, activating the RIG-I ATPase by RNA-dependen ...This family of proteins represents the regulatory domain RD of RIG-I, a protein which initiates a signalling cascade that provides essential antiviral protection for the host. The RD domain binds viral RNA, activating the RIG-I ATPase by RNA-dependent dimerisation. The structure of RD contains a zinc-binding domain and is thought to confer ligand specificity [1].
Domain
C [auth A]PF18119RIG-I receptor C-terminal domain (RIG-I_C)RIG-I receptor C-terminal domainThis is the C-terminal domain of Innate Immune Pattern-Recognition Receptor RIG-I present in homo sapiens. RIG-I is a key cytosolic pattern-recognition receptors of the vertebrate innate immune system that form the first line of defense against RNA v ...This is the C-terminal domain of Innate Immune Pattern-Recognition Receptor RIG-I present in homo sapiens. RIG-I is a key cytosolic pattern-recognition receptors of the vertebrate innate immune system that form the first line of defense against RNA viral infection. RNA binding to RIG-I is mediated both by the C-terminal domain and by the helicase domain. The C-terminal domain specifically binds the 5'triphosphate end with a 10-fold higher affinity compared to 5'OH-dsRNA [1].
Domain
D [auth B]PF00622SPRY domain (SPRY)SPRY domainSPRY Domain is named from SPla and the RYanodine Receptor and it is found in many eukaryotic proteins with a wide range of functions. It is a protein-interaction module involved in many important signalling pathways like RNA processing, regulation of ...SPRY Domain is named from SPla and the RYanodine Receptor and it is found in many eukaryotic proteins with a wide range of functions. It is a protein-interaction module involved in many important signalling pathways like RNA processing, regulation of histone H3 methylation, innate immunity or embryonic development [1,2,3,4]. It can be divided into 11 subfamilies based on amino acid sequence similarity or the presence of additional protein domains. The greater SPRY family is divided into the SPRY/B30.2 (which contains a PRY extension at the N-terminal) and SPRY-only sub-families which are preceded by a subdomain that is structurally similar to the PRY region [2]. SPRY/B30.2 structures revealed a bent beta-sandwich fold comprised of two beta-sheets. Distant homologues are domains in butyrophilin/ marenostrin/pyrin [1].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
B [auth Y]RNA (5'-R(P*UP*CP*AP*GP*UP*CP*AP*GP*UP*CP*AP*GP*UP*C)-3')---
C [auth A]Interferon-induced helicase C domain-containing protein 1
D [auth B]Tripartite motif-containing protein 65
A [auth X]RNA (5'-R(P*GP*AP*CP*UP*GP*AP*CP*UP*GP*AP*CP*UP*GP*A)-3')---

InterPro: Protein Family Classification InterPro Database Homepage