The PR/SET domain in PRDM4 is preceded by a zinc knuckle

Briknarová, Klára; Atwater, Daniel Z.; Glicken, J.M.; Maynard, Stacy J.; Ness, Tara

doi:10.1002/prot.23057

Cited by 8 publications

(5 citation statements)

References 43 publications

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“…ZCCHC8 possesses one zinc knuckle (ZnK) motif that can potentially interact with RNA, similarly to the yeast ZnK-containing protein Air2p ( 7 ). However, a single ZnK typically interacts with one or two nucleotides and is not able to recognize longer stretches of RNA ( 38 , 39 ). RBM7, the smallest subunit of NEXT, comprises an RNA recognition motif (RRM).…”

Section: Resultsmentioning

confidence: 99%

RBM7 subunit of the NEXT complex binds U-rich sequences and targets 3′-end extended forms of snRNAs

Hroššová

Sikorsky

Potěšil

et al. 2015

Nucleic Acids Research

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The Nuclear Exosome Targeting (NEXT) complex is a key cofactor of the mammalian nuclear exosome in the removal of Promoter Upstream Transcripts (PROMPTs) and potentially aberrant forms of other noncoding RNAs, such as snRNAs. NEXT is composed of three subunits SKIV2L2, ZCCHC8 and RBM7. We have recently identified the NEXT complex in our screen for oligo(U) RNA-binding factors. Here, we demonstrate that NEXT displays preference for U-rich pyrimidine sequences and this RNA binding is mediated by the RNA recognition motif (RRM) of the RBM7 subunit. We solved the structure of RBM7 RRM and identified two phenylalanine residues that are critical for interaction with RNA. Furthermore, we showed that these residues are required for the NEXT interaction with snRNAs in vivo. Finally, we show that depletion of components of the NEXT complex alone or together with exosome nucleases resulted in the accumulation of mature as well as extended forms of snRNAs. Thus, our data suggest a new scenario in which the NEXT complex is involved in the surveillance of snRNAs and/or biogenesis of snRNPs.

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Section: Resultsmentioning

confidence: 99%

RBM7 subunit of the NEXT complex binds U-rich sequences and targets 3′-end extended forms of snRNAs

Hroššová

Sikorsky

Potěšil

et al. 2015

Nucleic Acids Research

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“…PRDM11 locates to chromosome 11p11.2 in humans and encodes a gene with 6 coding exons that generate a protein with a PR domain, a nuclear localization signal, and a zinc knuckle motif (C-X 2 -C-X 7 -C-X 2 -H-P-G) of unknown function 28 ( Figure 1B). Unlike all other PRDMs, 3 PRDM11 does not contain zinc fingers.…”

Section: Functional Screening Identifies Prdm11 As a Putative Tumor Smentioning

confidence: 99%

Loss of PRDM11 promotes MYC-driven lymphomagenesis

Fog

Asmar²,

Côme

et al. 2015

Blood

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“…PRDM4 (PR/SET domain 4) encodes the transcription factor of the PR-domain protein family. PR proteins are crucial for cell differentiation and organismal development, but when their regulation is disrupted, they contribute to cancer development [ 83 ]. Sequence-tagged site marker and radiation hybrid analyses mapped PRDM4 to the human chromosome 12q23–q24.1, which is believed to contain tumor suppressor genes associated with ovarian, gastric, and pancreatic cancers [ 84 ].…”

Section: Resultsmentioning

confidence: 99%

Genome-Wide Characterization of Somatic Mutation Patterns in Cloned Dogs Reveals Implications for Neuronal Function, Tumorigenesis, and Aging

Woo,

Kim,

Kang

et al. 2024

Genes

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Studies on somatic mutations in cloned animals have revealed slight genetic variances between clones and their originals, but have yet to identify the precise effects of these differences within the organism. Somatic mutations contribute to aging and are implicated in tumor development and other age-related diseases. Thus, we compared whole genome sequencing data from an original dog with that of cloned dogs, identifying candidate somatic mutations that were disproportionately located within genes previously implicated in aging. The substitutional signature of cloning-specific somatic mutations mirrored the uniform distribution characteristic of the signature associated with human aging. Further analysis of genes revealed significant enrichment of traits associated with body size as well as the molecular mechanisms underlying neuronal function and tumorigenesis. Overall, the somatic mutations found in cloned dogs may indicate a conserved mechanism driving aging across species and a broad spectrum of pathway alterations.

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The PR/SET domain in PRDM4 is preceded by a zinc knuckle

Cited by 8 publications

References 43 publications

RBM7 subunit of the NEXT complex binds U-rich sequences and targets 3′-end extended forms of snRNAs

RBM7 subunit of the NEXT complex binds U-rich sequences and targets 3′-end extended forms of snRNAs

Loss of PRDM11 promotes MYC-driven lymphomagenesis

Genome-Wide Characterization of Somatic Mutation Patterns in Cloned Dogs Reveals Implications for Neuronal Function, Tumorigenesis, and Aging

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