Jonathan Pruneda
@jnpruneda.bsky.social
Associate Professor at Oregon Health & Science University studying microbial interference in host ubiquitin signaling. Current ASM Northwest Branch President. Formerly @UWBiochemistry and @MRC_LMB.
But how does the reader function of RNF114’s MUBD lead to extension of K11 polyUb? Well, RNF114 also has a RING-type E3 ligase domain at its other end. We again turned to AlphaFold3 to now model the entire transfer complex, and surprisingly found that it perfectly modeled the K11 polyUb extension!
May 17, 2025 at 2:45 PM
But how does the reader function of RNF114’s MUBD lead to extension of K11 polyUb? Well, RNF114 also has a RING-type E3 ligase domain at its other end. We again turned to AlphaFold3 to now model the entire transfer complex, and surprisingly found that it perfectly modeled the K11 polyUb extension!
RNF114 has a Di19 domain and Ub-interacting motif that we thought might be involved. Excitingly, AlphaFold3 perfectly modeled Ub and NAD in a way that mimics conjugated Ub-ADPr! These sites are very well conserved, and we proposed to rename this region the MARUbe-Binding Domain (MUBD).
May 17, 2025 at 2:45 PM
RNF114 has a Di19 domain and Ub-interacting motif that we thought might be involved. Excitingly, AlphaFold3 perfectly modeled Ub and NAD in a way that mimics conjugated Ub-ADPr! These sites are very well conserved, and we proposed to rename this region the MARUbe-Binding Domain (MUBD).
To unravel RNF114’s reader/writer function for MARUbylation, superstar chemist Kapil Upadhyaya from Mike’s lab teamed up with superstar biochemist Rachel Lacoursiere from our lab to create a fluorescent Ub-ADPr. Using this, we found that RNF114 specifically “reads” the Ub-ADPr combo, but how?
May 17, 2025 at 2:45 PM
To unravel RNF114’s reader/writer function for MARUbylation, superstar chemist Kapil Upadhyaya from Mike’s lab teamed up with superstar biochemist Rachel Lacoursiere from our lab to create a fluorescent Ub-ADPr. Using this, we found that RNF114 specifically “reads” the Ub-ADPr combo, but how?
Really enjoyed a fantastic ASM Northwest Branch meeting last weekend, organized by @psmitchej.bsky.social and Alex Meeske. It was so great to discuss science with microbiologists from across the NW (>180 of them!), including some fantastic presentations from trainees! @samanthacrane.bsky.social
November 16, 2024 at 6:58 AM
Really enjoyed a fantastic ASM Northwest Branch meeting last weekend, organized by @psmitchej.bsky.social and Alex Meeske. It was so great to discuss science with microbiologists from across the NW (>180 of them!), including some fantastic presentations from trainees! @samanthacrane.bsky.social
Yesterday our lab produced its first PhD scientist! Congratulations Tyler Franklin on five years of incredible growth and science, capped by a fantastic thesis defense. Added bonus: his paper was accepted on the same day! Keep an eye on this one, he’ll do great things.
November 17, 2023 at 12:48 AM
Yesterday our lab produced its first PhD scientist! Congratulations Tyler Franklin on five years of incredible growth and science, capped by a fantastic thesis defense. Added bonus: his paper was accepted on the same day! Keep an eye on this one, he’ll do great things.