User:Marcos Vinícius Caetano/Sandbox 1

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'''Function''': This insert provides unique kinetic characteristics: it modulates nucleotide binding and switch 1 flexibility, therefore, it slows ADP release and ATP-induced dissociation of the motor from actin (at saturating ATP concentrations).
'''Function''': This insert provides unique kinetic characteristics: it modulates nucleotide binding and switch 1 flexibility, therefore, it slows ADP release and ATP-induced dissociation of the motor from actin (at saturating ATP concentrations).
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'''Mechanism''': As also seen in all other myosins, the conformation of switch I relative to the U50kDa subdomain is not altered by the presence of insert 1. However, the small loop (<scene name='97/973101/Insert_1_and_small_loop/1'>Gly304-Asp313</scene> - shown in gray) that follows this insert, is repositioned, standing out in the nucleotide-binding pocket (decreasing nucleotide accessibility by steric impediment ) and strongly interacting with switch 1 by the residues: <scene name='97/973101/Insert_1_and_small_loop_key/1'>L306, D308, L310, L311</scene> (shown in red). Also, <scene name='97/973101/Insert_1_and_small_loop_key/1'>C278 and F282</scene> (shown in green) of insert 1 interacts with switch 1. <scene name='97/973101/Insert_1_and_small_loop_key/2'>Leucine 310</scene> (highlighted in blue) is specifically important because its position selectively interfere with ATP binding, while having little or no effect on ADP binding. Mutation of leucine 310 to glycine removes all influence of insert-1 on ATP binding.
+
'''Mechanism''': As also seen in all other myosins, the conformation of switch I relative to the U50kDa subdomain is not altered by the presence of insert 1. However, the small loop (<scene name='97/973101/Insert_1_and_small_loop/1'>Gly304-Asp313</scene> - in <span style="color:grey">'''grey'''</span>) that follows this insert, is repositioned, standing out in the nucleotide-binding pocket (decreasing nucleotide accessibility by steric impediment ) and strongly interacting with switch 1 by the residues: <scene name='97/973101/Insert_1_and_small_loop_key/1'>L306, D308, L310, L311</scene> (in <span style="color:red">'''red'''</span>). Also, <scene name='97/973101/Insert_1_and_small_loop_key/1'>C278 and F282</scene> (in <span style="color:green">'''green'''</span>) of insert 1 interacts with switch 1. <scene name='97/973101/Insert_1_and_small_loop_key/2'>Leucine 310</scene> (highlighted in <span style="color:blue">'''blue'''</span>) is specifically important because its position selectively interfere with ATP binding, while having little or no effect on ADP binding. Mutation of leucine 310 to glycine removes all influence of insert-1 on ATP binding.
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'''Function''': Redirectionare the lever arm and contains a new CaM-binding motif.
'''Function''': Redirectionare the lever arm and contains a new CaM-binding motif.
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'''Mechanism''': The proximal part of insert 2 (<scene name='97/973101/774_812_distal_and_proximal/3'>Pro774-Trp787</scene> - shown in red) wraps around the converter, while the distal part (<scene name='97/973101/774_812_distal_and_proximal/3'>Trp787-Tyr812</scene> - shown in green) forms a CaM-binding motif. The insert 2 and its associated CaM molecule (with 4Ca2+), make specific interactions with the converter, many involving a variable loop (<scene name='97/973101/774-812_orange_magenta/1'>Lys719-Pro731</scene>). THe result of interactions is that IQ helix emerges ~120° from the position that it emerges in all other myosins, redirecting the IQ helix and the CaM towards the minus end of the actin filament.
+
'''Mechanism''': The proximal part of insert 2 (<scene name='97/973101/774_812_distal_and_proximal/3'>Pro774-Trp787</scene> - in <span style="color:red">'''red'''</span>) wraps around the converter, while the distal part (<scene name='97/973101/774_812_distal_and_proximal/3'>Trp787-Tyr812</scene> - in <span style="color:green">'''green'''</span>) forms a CaM-binding motif. The insert 2 and its associated CaM molecule (with 4Ca2+), make specific interactions with the converter, many involving a variable loop (<scene name='97/973101/774-812_orange_magenta/1'>Lys719-Pro731</scene> - in <span style="color:magenta">'''magenta'''</span>). The result of interactions is that IQ helix emerges ~120° from the position that it emerges in all other myosins, redirecting the IQ helix and the CaM towards the minus end of the actin filament.

Revision as of 12:30, 25 June 2023

Myosin VI nucleotide-free (MDinsert2-IQ) crystal structure

Caption for this structure

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References

  1. Hanson, R. M., Prilusky, J., Renjian, Z., Nakane, T. and Sussman, J. L. (2013), JSmol and the Next-Generation Web-Based Representation of 3D Molecular Structure as Applied to Proteopedia. Isr. J. Chem., 53:207-216. doi:http://dx.doi.org/10.1002/ijch.201300024
  2. Herraez A. Biomolecules in the computer: Jmol to the rescue. Biochem Mol Biol Educ. 2006 Jul;34(4):255-61. doi: 10.1002/bmb.2006.494034042644. PMID:21638687 doi:10.1002/bmb.2006.494034042644

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Marcos Vinícius Caetano

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