User:Alice Harmon/Sandbox 1: Difference between revisions
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The kinase structure used in the above tour is that of the active conformation of PKA. Following is a comparison of this active conformation, with its particular arrangement of structural elements, to the inactive conformation. While active conformations of protein kinases are very similar, there is great variation in the inactive conformations of protein kinases, but all involve misalignment of one or more of the structures, subdomain III (C-helix in PKA) and the catalytic, magnesium binding, and activation loops<ref name = "TaylorTIBS"/>. | The kinase structure used in the above tour is that of the active conformation of PKA. Following is a comparison of this active conformation, with its particular arrangement of structural elements, to the inactive conformation. While active conformations of protein kinases are very similar, there is great variation in the inactive conformations of protein kinases, but all involve misalignment of one or more of the structures, subdomain III (C-helix in PKA) and the catalytic, magnesium binding, and activation loops<ref name = "TaylorTIBS"/>. | ||
To get an idea of the structural differences in active and inactive kinase domains, on the left is PKA in complex with ANP and PKI ([[1atp]]], the same structure used above), and on the right is inactive | To get an idea of the structural differences in active and inactive kinase domains, on the left is active PKA in complex with ANP and PKI ([[1atp]]], the same structure used above), in the middle is active apo PKA in the open conformation ([[1j3h]]), and on the right is inactive, unphosphorylated PKA (activation loop threonine is not phosphorlated) ([[4dfy]]). | ||
<Structure load='4DFY' size='350' frame='true' align='right' caption='4dfy - apo unphosphorylated PKA, inactive' scene='55/555705/Unphospka/2' />In the | <Structure load='4DFY' size='350' frame='true' align='right' caption='4dfy - apo unphosphorylated PKA, inactive' scene='55/555705/Unphospka/2' />'''In the right frame''': <scene name='55/555705/Closedlobes/4'>1. Inactive conformation</scene><br><scene name='55/555705/Both_spines/2'>2. Disassembled catalytic and regulatory spines</scene><Structure load='1J3H' size='350' frame='true' align='right' caption='1j3h - apo PKA, open conformation' scene='55/555705/Apopka/2' /> <br>'''In the middle frame''': <scene name='55/555705/Twistedlobes/2'>1. Open conformation</scene><br><scene name='55/555705/Apo_spines/1'>2. Open spines</scene> <Structure load='1atp' size='350' frame='true' align='right' caption='1atp - PKA with ANP and PKI; closed and active' scene='55/555705/Pkaall/1' /><br>'''In the left frame:''' <scene name='55/555705/Closedlobes/4'>1. Closed, active conformation</scene><br><scene name='55/555705/Both_spines/2'>2. Assembled catalytic and regulatory spines</scene> | ||
<scene name='55/555705/Unphospka/2'>TextToBeDisplayed</scene> | <scene name='55/555705/Unphospka/2'>TextToBeDisplayed</scene> | ||