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AMENDED AND RESTATED EXECUTIVE EMPLOYMENT AGREEMENT

Employment Agreement

AMENDED AND RESTATED

EXECUTIVE EMPLOYMENT AGREEMENT | Document Parties: SGX PHARMACEUTICALS, INC. You are currently viewing:
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SGX PHARMACEUTICALS, INC.

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Title: AMENDED AND RESTATED EXECUTIVE EMPLOYMENT AGREEMENT
Governing Law: California     Date: 9/2/2005

AMENDED AND RESTATED

EXECUTIVE EMPLOYMENT AGREEMENT, Parties: sgx pharmaceuticals  inc.
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EXHIBIT 10.6

AMENDED AND RESTATED

EXECUTIVE EMPLOYMENT AGREEMENT

This Amended and Restated Executive Employment Agreement ("Agreement") is

effective as of January 1, 2005 ("Effective Date"), by and between Structural

GenomiX, Inc., with its principal place of business at 10505 Roselle Street, San

Diego, California 92121 ("SGX"), a Delaware corporation, and Michael Grey, who

resides at ___________________________________________________ ("Executive").

This Agreement amends and restates and supercedes and terminates in its entirety

that certain Employment Agreement dated September 4, 2001 by and between SGX and

Executive, as amended by that certain letter agreement dated December 20, 2004

(together, the "Prior Agreement").

The parties agree as follows:

1. Employment. SGX hereby employs Executive, and Executive hereby accepts

such employment, upon the terms and conditions set forth herein.

2. Duties.

2.1. Position; Duties and Responsibilities. Executive is employed in

the position of President and Chief Executive Officer and shall have the duties

and responsibilities assigned by the Board of Directors of SGX (the "Board").

Executive is responsible for overseeing the business and operations of SGX and

doing and performing all services, acts, or things reasonably necessary or

advisable to accomplish the objectives and complete the tasks assigned to

Executive by the Board. Executive shall serve as the leader and principal

officer of the executive team and shall report directly to the Board. Executive

shall perform faithfully and diligently such duties, as well as such other

duties as the Board shall reasonably assign from time to time. SGX reserves the

right to modify Executive's position and duties at any time in its sole and

reasonable discretion.

2.2. Best Efforts/Full-time. Executive will expend Executive's best

efforts on behalf of SGX, and will abide by all policies and decisions made by

SGX, as well as all applicable federal, state and local laws, regulations or

ordinances. Executive will act in the best interest of SGX at all times.

Executive shall devote Executive's full business time and efforts to the

performance of Executive's assigned duties, unless Executive notifies SGX in

advance of Executive's intent to engage in other paid work and receives SGX'

express written consent to do so. SGX consents to the continuing service by

Executive on the Boards of Directors of Achillion Pharmaceuticals, Inc. and

Epimmune, Inc. Executive must not engage in any work, paid or unpaid, that

creates an actual or potential conflict of interest with SGX. If SGX believes a

conflict exists, SGX may ask Executive to choose whether to discontinue the

other work or resign employment with SGX.

2.3. Board Seat. Executive shall continue to serve as a member of the

Board.

2.4. Work Location. Executive's principal place of work shall be

located in San Diego, California, at SGX' offices or as reasonably assigned by

SGX.

3. Term. The employment relationship pursuant to this Agreement shall be

for an initial term commencing on the Effective Date set forth above and

continuing for the period of one (1) year and for consecutive one year terms

thereafter unless sooner terminated in accordance with paragraph 7 below.

4. Compensation.

4.1. Salary. As compensation for the proper and satisfactory

performance of all duties to be performed by Executive hereunder, SGX shall pay

to Executive an initial annualized Base Salary of Three Hundred Fifty Thousand

($350,000) per year, payable in accordance with the normal payroll practices of

SGX, less required deductions for state and federal withholding tax, social

security and all other employment taxes and payroll deductions. In the event

Executive's employment under this Agreement is terminated by either party, for

any reason, Executive will be entitled to receive the Base Salary prorated to

the date of termination.

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4.2. Incentive Compensation. Executive will be eligible to receive

incentive compensation. If SGX, in its sole and absolute discretion, grants

executive incentive compensation, the terms, amount and payment of such, if any,

will be determined solely by SGX.

4.3. Stock Options. Executive will receive a stock option or stock

options to purchase that number of shares of SGX common stock that, together

with Executive's currently outstanding stock options, if any, is equal to 3.5%

of the Fully Diluted Capitalization (as defined below) of SGX after giving

effect to the Next Equity Financing (as defined below), at a price per share

equal to the fair market value of SGX' common stock on the date of grant of each

such stock option as shall be determined by the Board in its sole and absolute

discretion. 25% of the shares subject to such stock options shall be fully

vested as of the date of grant and the remaining shares subject to such stock

options shall vest over three years after the vesting commencement date in equal

monthly installments (subject to acceleration of vesting under certain

circumstances as set forth in subparagraphs 7.2 and 7.4(a) below). Such stock

options shall be subject to the terms and conditions of SGX' 2000 Equity

Incentive Plan (the "Incentive Plan") and SGX' form of stock option agreement.

The Board shall grant such stock options as soon as reasonably practicable after

the number of shares issuable in connection with such Next Equity Financing is

ascertainable and the vesting commencement date of all such stock options shall

be the Effective Date. The offer of such stock options is conditioned upon

Executive's acceptance of this Agreement and will be in accordance with the

terms and requirements of the Incentive Plan and SGX' form of stock option

agreement. "Fully Diluted Capitalization" as used in this subparagraph 4.3 shall

mean the fully-diluted capitalization of SGX calculated on an as-converted basis

and including all outstanding preferred stock, common stock, warrants, all

options authorized under equity incentive plans (whether or not granted or

vested), and securities issuable upon conversion of outstanding convertible

notes, if any (but excluding shares issuable upon conversion of the Millennium

convertible note). "Next Equity Financing" as used in this subparagraph 4.3

shall mean the next private equity financing of SGX primarily for capital

raising purposes that raises at least $5 million of new investment and occurs

prior to the completion of an initial public offering of SGX' securities, and

such Next Equity Financing shall include the aggregate number of shares to be

issued in connection with such financing (including, if the financing occurs in

multiple tranches, the aggregate number of shares that are issued in all

tranches for which there is a contractual commitment to fund on the part of the

investors in such Next Equity Financing as of the initial closing thereof). Any

obligation of SGX that remains outstanding under this subparagraph 4.3 to grant

any additional stock options to Executive shall terminate and be of no further

force or effect upon the earlier to occur of (i) immediately prior to the

closing of an initial public offering of SGX' securities or (ii) immediately

prior to the consummation of a Change of Control (as defined below).

4.4. Cash Bonus Program. As Executive Vice President and Chief

Business Officer, Executive is eligible to earn a cash bonus equal to 35% of

Executive's base salary, or $122,500, provided Executive meets the eligibility

requirements and performance objectives set forth in SGX' bonus program, which

are determined in SGX' sole discretion.

4.5. Performance and Salary Review. SGX will periodically review

Executive's performance. Executive's salary and/or other compensation will be

reviewed yearly and may be adjusted from time to time in SGX' sole and absolute

discretion.

5. Customary Fringe Benefits. Executive will be eligible for all customary

and usual fringe benefits generally available to executives of SGX subject to

the terms and conditions of SGX' benefit plan documents. SGX reserves the right

to modify or eliminate the fringe benefits on a prospective basis, at any time,

effective upon notice to Executive.

6. Business Expenses. Executive will be reimbursed for all out-of-pocket

business expenses reasonably incurred in the performance of Executive's duties

on behalf of SGX. To obtain reimbursement, expenses must be submitted promptly

with appropriate supporting documentation in accordance with SGX' policies.

7. Termination of Employment.

7.1. Termination for Cause by SGX. Although SGX anticipates a mutually

rewarding employment relationship with Executive, SGX may terminate Executive's

employment immediately at any time for cause. Cause includes, but is not limited

to, one or more of the following: (a) acts or omissions deemed by SGX to

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constitute gross negligence, recklessness, willful misconduct or dishonesty on

the part of Executive with respect to Executive's obligations under this

Agreement or otherwise relating to the business of SGX; (b) Executive's willful,

material breach of this Agreement; (c) Executive's conviction or entry of a plea

of guilty or nolo contendere for fraud, misappropriation or embezzlement, or of

any felony; (d) Executive's material breach of fiduciary duty toward SGX; (e)

Executive's material breach of any element of SGX' Confidential Information and

Invention Assignment Agreement, including without limitation, Executive's theft,

dilution, or other misappropriation or careless treatment of SGX' proprietary

information; (f) Executive's inability to perform all of the essential functions

and duties of Executive's position, with or without reasonable accommodation

other than for reason of temporary illness; or (g) Executive's death. In the

event Executive's employment is terminated in accordance with this subparagraph

7.1, Executive shall be entitled to receive only the Base Salary then in effect,

prorated to the date of termination, and any benefits, including any benefits

under the Bonus Plan and Incentive Plan, and expense reimbursements to which

Executive is entitled by virtue of his prior employment with SGX (collectively

referred to as "Standard Entitlements."). All other SGX obligations to Executive

pursuant to this Agreement will become automatically terminated and completely

extinguished. Executive will not be entitled to receive the Severance Payment or

any part thereof described in subparagraph 7.2 below.

7.2. Termination Without Cause By SGX/Severance. SGX may terminate

Executive's employment under this Agreement without cause at any time on thirty

(30) days' advance written notice to Executive. In the event of such

termination, Executive will receive the Standard Entitlements, plus a severance

payment equivalent to twelve months of Executive's Base Salary then in effect on

the date of termination (the "Severance Payment") payable in accordance with

SGX' regular payroll cycle, and the vesting of any outstanding stock options

will be accelerated by 12 months, provided that Executive: (a) complies with all

surviving provisions of this Agreement as specified in subparagraph 16.7 below;

(b) executes a full general release, releasing all claims, known or unknown,

that Executive may have against SGX arising out of or any way related to

Executive's employment or termination of employment with SGX; and (c) agrees to

act as a consultant for SGX for up to a maximum of sixty (60) days, without

additional compensation, if requested to do so by SGX. All other SGX obligations

to Executive pursuant to


 
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