6BUA

Drosophila Dicer-2 apo homology model (helicase, Platform-PAZ, RNaseIII domains)


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AF_UNCLASSIFIEDe6buaA4 A: alpha bundlesX: Helical bundle insertion in helicase domainsH: Helical bundle in Hef helicase (From Topology)T: Helical bundle in Hef helicaseF: F_UNCLASSIFIEDECOD (1.6)
AKOG0701e6buaA2 A: a+b two layersX: Giardia Dicer N-terminal domain (From Topology)H: Giardia Dicer N-terminal domain (From Topology)T: Giardia Dicer N-terminal domainF: KOG0701ECOD (1.6)
ADEAD_3e6buaA1 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: DEAD_3ECOD (1.6)
AHelicase_C_1e6buaA3 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)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF00636Ribonuclease III domain (Ribonuclease_3)Ribonuclease III domain- Family
PF02170PAZ domain (PAZ)PAZ domainThis domain is named PAZ after the proteins Piwi Argonaut and Zwille. This domain is found in two families of proteins that are involved in post-transcriptional gene silencing. These are the Piwi family and the Dicer family, that includes the Carpel ...This domain is named PAZ after the proteins Piwi Argonaut and Zwille. This domain is found in two families of proteins that are involved in post-transcriptional gene silencing. These are the Piwi family and the Dicer family, that includes the Carpel factory protein. The function of the domains is unknown but has been suggested to mediate complex formation between proteins of the Piwi and Dicer families by hetero-dimerisation. The three-dimensional structure of this domain has been solved [2-4]. The PAZ domain is composed of two subdomains. One subdomain is similar to the OB fold, albeit with a different topology. The OB-fold is well known as a single-stranded nucleic acid binding fold. The second subdomain is composed of a beta-hairpin followed by an alpha-helix. The PAZ domains shows low-affinity nucleic acid binding and appears to interact with the 3' ends of single-stranded regions of RNA in the cleft between the two subdomains. PAZ can bind the characteristic two-base 3' overhangs of siRNAs, indicating that although PAZ may not be a primary nucleic acid binding site in Dicer or RISC, it may contribute to the specific and productive incorporation of siRNAs and miRNAs into the RNAi pathway.
Domain
PF00270DEAD/DEAH box helicase (DEAD)DEAD/DEAH box helicaseMembers of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ...Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.
Domain
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
PF20931Dicer, platform domain (Dicer_platform)Dicer, platform domainThis domain is found in Endoribonuclease Dicer from chordates. This dsRNA endoribonuclease is involved in the cleavage of long RNA precursors into short dsRNAs and plays a role in gene silencing. Dicer shows two N-terminal helicase domains (Pfam:PF04 ...This domain is found in Endoribonuclease Dicer from chordates. This dsRNA endoribonuclease is involved in the cleavage of long RNA precursors into short dsRNAs and plays a role in gene silencing. Dicer shows two N-terminal helicase domains (Pfam:PF04851 and Pfam:PF00271), a dimerisation domain (Pfam:PF03368), a Platform domain, a PAZ domain (Pfam:PF02170), an RNase IIIa/b domain (Pfam:PF00636) and a dsRNA-binding domain in its C-terminal region. This entry represents the platform domain, which sits on the top of the L-shaped Dicer structure and shows a phosphate pocket [1-3].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Dicer-2, isoform A