Structures of CYLD USP with Met1-or Lys63-linked diubiquitin reveal mechanisms for dual specificity

…, Y Shibata, Y Kubota, A Yamagata, S Goto-Ito… - Nature structural & …, 2015 - nature.com
… In both catalytic states, the distal Ub is bound to CYLD in a similar manner, and the scissile
bond is located close to the catalytic residue, whereas the proximal Ub is bound in a manner …

[HTML][HTML] Trm5 and TrmD: Two Enzymes from Distinct Origins Catalyze the Identical tRNA Modification, m1G37

S Goto-Ito, T Ito, S Yokoyama - Biomolecules, 2017 - mdpi.com
… The guanosine base of G36 is stabilized in the syn conformation, which is rare in tRNA
molecules. This G36-interacting pocket is formed only after the guanosine base of G37 is flipped …

Tertiary structure checkpoint at anticodon loop modification in tRNA functional maturation

S Goto-Ito, T Ito, M Kuratani, Y Bessho… - Nature structural & …, 2009 - nature.com
… D1 is connected to D2-D3 through a flexible linker and is designed to recognize the shape
of the tRNA outer corner, as a hallmark of the completed L shape formation. This interaction …

[HTML][HTML] Structural basis of epilepsy-related ligand–receptor complex LGI1–ADAM22

…, N Yokoi, H Shigematsu, Y Sato, S Goto-Ito… - Nature …, 2018 - nature.com
Epilepsy is a common brain disorder throughout history. Epilepsy-related ligand–receptor
complex, LGI1–ADAM22, regulates synaptic transmission and has emerged as a determinant …

Structural basis for specific cleavage of Lys6-linked polyubiquitin chains by USP30

…, N Matsuda, A Kaiho, A Yamagata, S Goto-Ito… - Nature structural & …, 2017 - nature.com
… This is probably because Ser65 of Ub dist is located close to the fingers subdomain and
interacts with His240 of zUSP30. In contrast, Ser65 of Ub prox is exposed to the solvent in the …

[HTML][HTML] Molecular basis of Lys-63-linked polyubiquitination inhibition by the interaction between human deubiquitinating enzyme OTUB1 and ubiquitin-conjugating …

…, S Goto-Ito, K Kubota, R Miyamoto, S Nakada… - Journal of Biological …, 2012 - ASBMB
… Significance: Learning how ubiquitination is regulated by the OTUB1-UBC13 interaction is
… mediated exclusively by UBC13, consistent with the fact that neither MMS2 nor UEV1a is

A SNARE geranylgeranyltransferase essential for the organization of the Golgi apparatus

R Shirakawa, S GotoIto, K Goto, S Wakayama… - The EMBO …, 2020 - embopress.org
… This sequence is called the CAAX motif, where C is cysteine, A is usually an aliphatic residue,
and X is any amino acid. FTase prefers Ser, Met, or Gln at the X position, whereas GGTase…

[HTML][HTML] Mechanisms of splicing-dependent trans-synaptic adhesion by PTPδ–IL1RAPL1/IL-1RAcP for synaptic differentiation

A Yamagata, T Yoshida, Y Sato, S Goto-Ito… - Nature …, 2015 - nature.com
… The length of the PTPδ-ECD·IL1RAPL1-ECD complex along the longest axis is 206 Å, which
is equivalent to the average length of excitatory synaptic clefts, implying that PTPδ-ECD is

Structural basis for methyl-donor–dependent and sequence-specific binding to tRNA substrates by knotted methyltransferase TrmD

…, K Yoshida, S Goto-Ito, S Sekine… - Proceedings of the …, 2015 - National Acad Sciences
is independent of the interaction with G36, which is consistent with the hypothesis that the
G36 interaction is established only after the G37 base is flipped out from the anticodon loop. …

[HTML][HTML] Structural insights into modulation and selectivity of transsynaptic neurexin–LRRTM interaction

A Yamagata, S Goto-Ito, Y Sato, T Shiroshima… - Nature …, 2018 - nature.com
… Ala355 of LRRTM2 H355A , which was mutated from His355 for its co-crystallization with
Nrxn1β, is located near the binding interface but is not involved in the Nrxn1β–LRRTM2 …