Document:

Omnibus Amendment to Retention Bonus Agreements

 EXHIBIT 10.1 
 OMNIBUS AMENDMENT TO RETENTION BONUS AGREEMENTS AND
CHANGE-IN-CONTROL AGREEMENTS OF 
 CERTAIN
EXECUTIVE EMPLOYEES 
 THIS OMNIBUS AMENDMENT TO
RETENTION BONUS AGREEMENTS AND CHANGE-IN-CONTROL AGREEMENTS OF CERTAIN EXECUTIVE
EMPLOYEES (this “Amendment”) is made and entered into effective September 7, 2006 by and between DISCOVERY PARTNERS INTERNATIONAL,
INC., a Delaware corporation (the “Company”), Craig Kussman, Richard Neale, Dan Harvey, Doug Livingston and Michael Venuti (collectively, the “Employees”). 
 RECITALS 
 WHEREAS, the Company is party to separate Retention Bonus Agreements with each of the Employees which were approved by the compensation committee of the Company’s board of directors on March 30, 2006 and
April 19, 2006, as amended by that Omnibus Amendment to Retention Bonus Agreements executed on behalf of the Company on July 27, 2006 as well as separate Change-In-Control Agreements For Certain Executives of Discovery Partners
International, Inc. with each of the Employees (collectively, the “Retention Agreements”); and 
 WHEREAS, the Company and the Employees desire to amend and clarify the Retention Agreements to provide that the Employees shall be entitled to receive six (6) months of Company-paid COBRA coverage
following a “Change in Control” as defined in the Retention Agreements; and 
 WHEREAS, the
Company and the Employees desire to amend and clarify the Retention Agreements to provide that the Employees’ resignation in connection with a “Change in Control” shall qualify as a termination by the Company of the Employees’
employment without “Cause.” 
 AGREEMENT 
 In consideration of the foregoing premises and the mutual covenants and conditions set forth below, and for other good and valuable consideration, the
receipt of which are hereby acknowledged, the parties to this Amendment, intending to be legally bound, agree as follows: 
 1. Amendment of
Section 2(e). Section 2(e) of the Retention Agreements is hereby amended and restated in its entirety as follows: 
 “(e) Change of Control Termination. The termination of Employee’s employment by the Company solely by virtue of a Change of Control becoming effective shall not constitute a termination without Cause for purposes of this
Agreement, provided that the Company’s successor-in-interest shall have offered Employee reasonably similar employment to that Employee held immediately prior to a Change of Control. Employee’s resignation, at the request or direction of
the Company or its successor-in-interest, of Employee’s employment and positions with the Company and/or any of its subsidiaries or affiliates (i) in connection with such Employee’s effective termination of employment with the Company
by virtue of the Company’s sale of all the stock related to a Company subsidiary or affiliate employing such Employee, and/or (ii) in furtherance or anticipation of a transaction qualifying as a Change of Control, shall constitute a
termination of Employee’s employment by the Company without Cause.” 
 2. Amendment of Section 3(c). Section 3(c) of the Retention
Agreements is hereby amended and restated in its entirety as follows: 
 “(c) Change-In-Control Agreement.
Employee and the Company are parties to that Change-In-Control Agreement For Certain Executives of Discovery Partners International, Inc. July 2003 (the “Change-In-Control Agreement”), the provisions of which remain in
full force and effect. Notwithstanding the foregoing, 1) Employee’s resignation, at the request or direction of the Company or its successor-in-interest, of Employee’s employment and positions with the Company and any of its subsidiaries
and affiliates in furtherance or anticipation of a transaction qualifying as a Change of Control 

 
shall constitute a termination of Employee’s employment by the Company without Cause for purposes of the Change-In-Control Agreement; and 2) in the
event Employee’s employment is terminated without Cause prior to December 31, 2006 by the Company or the Company’s successor in connection with or following a Change of Control, in addition to the benefits specified by the
Change-In-Control Agreement, i) the Company or said successor shall pay to Employee the Achievement Bonus, ii) if applicable, Employee shall receive the accelerated vesting benefit described in Section 5 hereof, and iii) the Company or said
successor shall, upon timely election by Employee, pay the premiums for COBRA group health insurance continuation coverage for Employee for a period of six (6) months following the effective date of such termination without Cause.”

 3. No Other Amendment. Except as modified by this Amendment, the Retention Agreements shall remain in full force and effect in all respects
without any modification. By executing this Amendment below, the parties hereto certify that this Amendment has been executed and delivered in compliance with the applicable amendment provisions of the Retention Agreements. 
 4. Governing Law. This Amendment will be governed by and construed and enforced in accordance with the laws of the State of California, U.S.A., as such
laws apply to agreements between California residents performed entirely within the State of California. 
 5. Counterparts. This Amendment may
be executed in several counterparts, each of which shall constitute an original and all of which, when taken together, shall constitute one agreement. This Amendment shall be effective with respect to individual Retention Agreements upon the later
of the execution hereof by the Chairman of the Board of the Company and the applicable Employee party to such Retention Agreement. 
 [Signature pages follow] 

 IN WITNESS WHEREOF, the parties hereto
have caused this Amendment to be executed and delivered as of the date first written above. 
  

			
	DISCOVERY PARTNERS INTERNATIONAL, INC.
		
	 By:
	 	 /s/ Harry F. Hixson, Jr.

		 	 Harry F. Hixson, Jr.
 Chairman of the Board

		
	 Date:
	 	  

 [Additional signatures follow] 
  

 SIGNATURE PAGE TO OMNIBUS
AMENDMENT TO RETENTION BONUS AGREEMENTS 

									
	EMPLOYEES:	 		 	
					
	By:	 	 /s/ Craig Kussman
	 		 	 By:
	 	 /s/ Richard Neale

		 	 Craig Kussman
	 		 		 	 Richard Neale

					
	 Date:
	 	  	 		 	 Date:
	 	  
					
	By:	 	 /s/ Dan Harvey
	 		 	 By:
	 	 /s/ Michael Venuti

		 	 Dan Harvey
	 		 		 	 Michael Venuti

					
	 Date:
	 	  	 		 	 Date:
	 	  
					
	By:	 	 /s/ Doug Livingston
	 		 		 	
		 	 Doug Livingston
	 		 		 	
					
	 Date:
	 	  	 		 		 	

  

 SIGNATURE PAGE TO OMNIBUS
AMENDMENT TO RETENTION BONUS AGREEMENTSLiability Limitation Agreement

 Exhibit 4.1 
  
 (TRANSLATION) 
  
 LIABILITY LIMITATION AGREEMENT 
  
 Matsushita Electric Industrial Co., Ltd. (the “Company”) and Yasuo Yoshino (the “Corporate Auditor”) hereby enter into an agreement as set forth
below. 
  
 The liability of the Corporate Auditor for damages incurred by the
Company in performing his or her duties as an outside corporate auditor under Article 423, Paragraph 1 of the Company Law shall be limited to the aggregate of the amounts specified in each item of Article 425, Paragraph 1 of the Company Law,
provided that the Corporate Auditor has performed such duties in good faith and without gross negligence. 
  
 IN WITNESS WHEREOF, two (2) originals of this Agreement have been executed, and each of the Company and the Corporate Auditor has affixed its seal hereto and retains one (1) original hereof. 
  
 June 28, 2006 
  

			
	Company:	  	 Kunio Nakamura, Chairman of the Board (seal)

	 	  	 Matsushita Electric Industrial Co., Ltd. (corporate seal)

	 	  	 1006, Oaza Kadoma, Kadoma-shi, Osaka

		
	Corporate Auditor:	  	 Yasuo Yoshino

	 	  	 11-28-706, Shoraiso, Nishinomiya-shi, Hyogo (seal)

 (TRANSLATION) 
  
 LIABILITY LIMITATION AGREEMENT 
  
 Matsushita Electric Industrial Co., Ltd. (the “Company”) and Ikuo Hata (the “Corporate Auditor”) hereby enter into an
agreement as set forth below. 
  
 The liability of the Corporate Auditor for
damages incurred by the Company in performing his or her duties as an outside corporate auditor under Article 423, Paragraph 1 of the Company Law shall be limited to the aggregate of the amounts specified in each item of Article 425, Paragraph 1 of
the Company Law, provided that the Corporate Auditor has performed such duties in good faith and without gross negligence. 
  
 IN WITNESS WHEREOF, two (2) originals of this Agreement have been executed, and each of the Company and the Corporate Auditor has affixed its seal hereto and retains
one (1) original hereof. 
  
 June 28,
2006 
  

			
	Company:	  	Kunio Nakamura, Chairman of the Board
	 	  	Matsushita Electric Industrial Co., Ltd.
	 	  	1006, Oaza Kadoma, Kadoma-shi, Osaka
		
	Corporate Auditor:	  	Ikuo Hata
	 	  	14-15-513, Okamoto 7-chome, Higashinada-ku, Kobe-shi, Hyogo

 (TRANSLATION) 
  
 LIABILITY LIMITATION AGREEMENT 
  
 Matsushita Electric Industrial Co., Ltd. (the “Company”) and Hiroyuki Takahashi (the “Corporate Auditor”) hereby enter
into an agreement as set forth below. 
  
 The liability of the Corporate Auditor
for damages incurred by the Company in performing his or her duties as an outside corporate auditor under Article 423, Paragraph 1 of the Company Law shall be limited to the aggregate of the amounts specified in each item of Article 425, Paragraph 1
of the Company Law, provided that the Corporate Auditor has performed such duties in good faith and without gross negligence. 
  
 IN WITNESS WHEREOF, two (2) originals of this Agreement have been executed, and each of the Company and the Corporate Auditor has affixed its seal hereto and retains
one (1) original hereof. 
  
 June 28,
2006 
  

			
	Company:	  	Kunio Nakamura, Chairman of the Board
	 	  	Matsushita Electric Industrial Co., Ltd.
	 	  	1006, Oaza Kadoma, Kadoma-shi, Osaka
		
	Corporate Auditor:	  	Hiroyuki Takahashi
	 	  	46-12, Honcho 4-chome, Nakano-ku, Tokyo

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