Disruption of the autoinhibited state primes the E3 ligase parkin for activation and catalysis

Atul Kumar, Jacob D Aguirre, Tara E. C. Condos, R. Julio Martinez-Torres, Viduth K Chaugule, Rachel Toth, Ramasubramanian Sundaramoorthy, Pascal Mercier, Axel Knebel, Donald E Spratt, Kathryn R. Barber, Gary S Shaw (Lead / Corresponding author), Helen Walden (Lead / Corresponding author)

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Abstract

The PARK2 gene is mutated in 50% of autosomal recessive juvenile parkinsonism (ARJP) cases. It encodes parkin, an E3 ubiquitin ligase of the RBR family. Parkin exists in an autoinhibited state that is activated by phosphorylation of its N-terminal ubiquitin-like (Ubl) domain and binding of phosphoubiquitin. We describe the 1.8 Å crystal structure of human parkin in its fully inhibited state and identify the key interfaces to maintain parkin inhibition. We identify the phosphoubiquitin-binding interface, provide a model for the phosphoubiquitin-parkin complex and show how phosphorylation of the Ubl domain primes parkin for optimal phosphoubiquitin binding. Furthermore, we demonstrate that the addition of phosphoubiquitin leads to displacement of the Ubl domain through loss of structure, unveiling a ubiquitin-binding site used by the E2~Ub conjugate, thus leading to active parkin. We find the role of the Ubl domain is to prevent parkin activity in the absence of the phosphorylation signals, and propose a model for parkin inhibition, optimization for phosphoubiquitin recruitment, release of inhibition by the Ubl domain and engagement with an E2~Ub conjugate. Taken together, this model provides a mechanistic framework for activating parkin.

Original languageEnglish
Pages (from-to)2506-2521
Number of pages16
JournalEMBO Journal
Volume34
Issue number20
Early online date7 Aug 2015
DOIs
Publication statusPublished - 14 Oct 2015

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Ubiquitin-Protein Ligases
Ubiquitin
Catalysis
Chemical activation
Phosphorylation
Parkinsonian Disorders
Genes
Crystal structure
Binding Sites

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Kumar, A., Aguirre, J. D., Condos, T. E. C., Martinez-Torres, R. J., Chaugule, V. K., Toth, R., ... Walden, H. (2015). Disruption of the autoinhibited state primes the E3 ligase parkin for activation and catalysis. EMBO Journal, 34(20), 2506-2521. https://doi.org/10.15252/embj.201592337
Kumar, Atul ; Aguirre, Jacob D ; Condos, Tara E. C. ; Martinez-Torres, R. Julio ; Chaugule, Viduth K ; Toth, Rachel ; Sundaramoorthy, Ramasubramanian ; Mercier, Pascal ; Knebel, Axel ; Spratt, Donald E ; Barber, Kathryn R. ; Shaw, Gary S ; Walden, Helen. / Disruption of the autoinhibited state primes the E3 ligase parkin for activation and catalysis. In: EMBO Journal. 2015 ; Vol. 34, No. 20. pp. 2506-2521.
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abstract = "The PARK2 gene is mutated in 50{\%} of autosomal recessive juvenile parkinsonism (ARJP) cases. It encodes parkin, an E3 ubiquitin ligase of the RBR family. Parkin exists in an autoinhibited state that is activated by phosphorylation of its N-terminal ubiquitin-like (Ubl) domain and binding of phosphoubiquitin. We describe the 1.8 {\AA} crystal structure of human parkin in its fully inhibited state and identify the key interfaces to maintain parkin inhibition. We identify the phosphoubiquitin-binding interface, provide a model for the phosphoubiquitin-parkin complex and show how phosphorylation of the Ubl domain primes parkin for optimal phosphoubiquitin binding. Furthermore, we demonstrate that the addition of phosphoubiquitin leads to displacement of the Ubl domain through loss of structure, unveiling a ubiquitin-binding site used by the E2~Ub conjugate, thus leading to active parkin. We find the role of the Ubl domain is to prevent parkin activity in the absence of the phosphorylation signals, and propose a model for parkin inhibition, optimization for phosphoubiquitin recruitment, release of inhibition by the Ubl domain and engagement with an E2~Ub conjugate. Taken together, this model provides a mechanistic framework for activating parkin.",
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Kumar, A, Aguirre, JD, Condos, TEC, Martinez-Torres, RJ, Chaugule, VK, Toth, R, Sundaramoorthy, R, Mercier, P, Knebel, A, Spratt, DE, Barber, KR, Shaw, GS & Walden, H 2015, 'Disruption of the autoinhibited state primes the E3 ligase parkin for activation and catalysis', EMBO Journal, vol. 34, no. 20, pp. 2506-2521. https://doi.org/10.15252/embj.201592337

Disruption of the autoinhibited state primes the E3 ligase parkin for activation and catalysis. / Kumar, Atul; Aguirre, Jacob D; Condos, Tara E. C.; Martinez-Torres, R. Julio; Chaugule, Viduth K; Toth, Rachel; Sundaramoorthy, Ramasubramanian; Mercier, Pascal; Knebel, Axel; Spratt, Donald E; Barber, Kathryn R.; Shaw, Gary S (Lead / Corresponding author); Walden, Helen (Lead / Corresponding author).

In: EMBO Journal, Vol. 34, No. 20, 14.10.2015, p. 2506-2521.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Disruption of the autoinhibited state primes the E3 ligase parkin for activation and catalysis

AU - Kumar, Atul

AU - Aguirre, Jacob D

AU - Condos, Tara E. C.

AU - Martinez-Torres, R. Julio

AU - Chaugule, Viduth K

AU - Toth, Rachel

AU - Sundaramoorthy, Ramasubramanian

AU - Mercier, Pascal

AU - Knebel, Axel

AU - Spratt, Donald E

AU - Barber, Kathryn R.

AU - Shaw, Gary S

AU - Walden, Helen

N1 - © 2015 The Authors. Published under the terms of the CC BY NC ND 4.0 license.

PY - 2015/10/14

Y1 - 2015/10/14

N2 - The PARK2 gene is mutated in 50% of autosomal recessive juvenile parkinsonism (ARJP) cases. It encodes parkin, an E3 ubiquitin ligase of the RBR family. Parkin exists in an autoinhibited state that is activated by phosphorylation of its N-terminal ubiquitin-like (Ubl) domain and binding of phosphoubiquitin. We describe the 1.8 Å crystal structure of human parkin in its fully inhibited state and identify the key interfaces to maintain parkin inhibition. We identify the phosphoubiquitin-binding interface, provide a model for the phosphoubiquitin-parkin complex and show how phosphorylation of the Ubl domain primes parkin for optimal phosphoubiquitin binding. Furthermore, we demonstrate that the addition of phosphoubiquitin leads to displacement of the Ubl domain through loss of structure, unveiling a ubiquitin-binding site used by the E2~Ub conjugate, thus leading to active parkin. We find the role of the Ubl domain is to prevent parkin activity in the absence of the phosphorylation signals, and propose a model for parkin inhibition, optimization for phosphoubiquitin recruitment, release of inhibition by the Ubl domain and engagement with an E2~Ub conjugate. Taken together, this model provides a mechanistic framework for activating parkin.

AB - The PARK2 gene is mutated in 50% of autosomal recessive juvenile parkinsonism (ARJP) cases. It encodes parkin, an E3 ubiquitin ligase of the RBR family. Parkin exists in an autoinhibited state that is activated by phosphorylation of its N-terminal ubiquitin-like (Ubl) domain and binding of phosphoubiquitin. We describe the 1.8 Å crystal structure of human parkin in its fully inhibited state and identify the key interfaces to maintain parkin inhibition. We identify the phosphoubiquitin-binding interface, provide a model for the phosphoubiquitin-parkin complex and show how phosphorylation of the Ubl domain primes parkin for optimal phosphoubiquitin binding. Furthermore, we demonstrate that the addition of phosphoubiquitin leads to displacement of the Ubl domain through loss of structure, unveiling a ubiquitin-binding site used by the E2~Ub conjugate, thus leading to active parkin. We find the role of the Ubl domain is to prevent parkin activity in the absence of the phosphorylation signals, and propose a model for parkin inhibition, optimization for phosphoubiquitin recruitment, release of inhibition by the Ubl domain and engagement with an E2~Ub conjugate. Taken together, this model provides a mechanistic framework for activating parkin.

U2 - 10.15252/embj.201592337

DO - 10.15252/embj.201592337

M3 - Article

VL - 34

SP - 2506

EP - 2521

JO - EMBO Journal

JF - EMBO Journal

SN - 0261-4189

IS - 20

ER -

Kumar A, Aguirre JD, Condos TEC, Martinez-Torres RJ, Chaugule VK, Toth R et al. Disruption of the autoinhibited state primes the E3 ligase parkin for activation and catalysis. EMBO Journal. 2015 Oct 14;34(20):2506-2521. https://doi.org/10.15252/embj.201592337