Document:

EX-10.39

 Exhibit 10.39 

Neither this document, nor any stock option agreement connected with it, is an approved prospectus for the purposes of section 85(1) of the Financial
Services and Markets Act 2000 (“FSMA”) and no offer of transferable securities to the public (for the purposes of section 102B of FSMA) is being made in connection with the UK Sub-Plan to the Vanda Pharmaceuticals Inc. 2016 Equity
Incentive Plan (the “Sub-Plan”). The Sub-Plan is exclusively available to bona fide employees and former employees of Vanda Pharmaceuticals Inc., Vanda Pharmaceuticals Limited and any other UK Subsidiary. 

UK SUB-PLAN TO THE 

VANDA PHARMACEUTICALS INC. 

2016 EQUITY INCENTIVE PLAN 
 Additional
Terms and Conditions for Options received by Optionees resident in the UK 
  

	1.	The purpose of this Sub-Plan is to provide incentives for present and future UK tax resident employees of Vanda Pharmaceuticals Inc., Vanda Pharmaceuticals Limited and any other UK Subsidiary through the grant of
options over shares of Common Stock of Vanda Pharmaceuticals Inc (the “Company”). 

  

	2.	Capitalized terms are defined in the Company’s 2016 Equity Incentive Plan (the “US Plan”), subject to the provisions of this Sub-Plan. 

 

	3.	References to Incentive Stock Options and Nonstatutory Stock Options shall not apply to Options granted under the Sub-Plan. 

  

	4.	The Options granted under this Sub-Plan shall be designated as Unapproved Options. 

  

	5.	This Sub-Plan is governed by the US Plan and all its provisions shall be identical to those of the US Plan SAVE THAT (i) “Sub-Plan” shall be substituted for “Plan” where applicable and
(ii) the following provisions shall be as stated in this Sub-Plan in order to accommodate the specific requirements of the laws of England and Wales: 

  

	6.	ARTICLE 1. Introduction. 

 The words “Outside Directors and Consultants” shall
be deleted wherever they appear. 
 The words “Options (which may constitute ISOs or NSOs) or stock appreciation rights” shall be
deleted and replaced with “or Options”. 
 The words “the Section 431 Election and Joint Election shall be governed by
the laws of England and Wales” shall be added to the end of the second paragraph. 
  

	7.	ARTICLE 2. Administration. 

 Article 2.1(b) shall be deleted. 

In Article 2.2 the words “Outside Directors and Consultants” shall be deleted. 

In Article 2.3 the words “and Consultants who are not Outside Directors and” shall be replaced with the word “who”. 

In Article 2.3 the words “such Employees and Consultants” shall be amended to read “such Employees” 

	8.	ARTICLE 3. Shares available for grants. 

 In Article 3 the words “under the
Plan” shall be replaced with the words “under the US Plan (together with the Plan)” wherever they appear. 
 In Article 3.1
the words “All Common Shares available under the Plan may be issued upon the exercise of ISOs” shall be deleted. 
 In Article 3.2,
the word “SARs” and the words “settled in cash (in whole or in part)” shall be deleted wherever they appear. 
  

	9.	ARTICLE 4. Eligibility. 

 Article 4.1 shall be deleted in its entirety. 

In Article 4.2 the words “Outside Directors and Consultants” shall be deleted. The words “NSOs or SARs” shall be deleted
and replaced with the words “or Unapproved Options”. 
  

	10.	ARTICLE 5. Options. 

 In Article 5.1 the words “The Stock Option Agreement shall
specify whether the Option is an ISO or an NSO” shall be deleted. 
 In Article 5.3 the words “(whether or not the Option is an
ISO)” shall be deleted. 
 In Article 5.4 the final sentence, from “Options may be awarded” to “SARs are forfeited”
shall be deleted. 
 In Article 5.5 the words “However, in the case of an ISO, the acceleration of exercisability shall not occur
without the Optionee’s written consent” shall be deleted. 
  

	11.	ARTICLE 6. Payment For Option Shares. 

 In Article 6.1 the words “(together with any
Award Tax Liability and Secondary NIC Liability)” shall be inserted immediately after the words “exercise of Options”. 
 In
Article 6.1 the words “cash equivalents” shall be deleted and replaced with the word “cheque”. 
 The final sentence of
Article 6.1, from “However, if the Optionee” to “section 13(k) of the Exchange Act” shall be deleted. 
 Articles 6.2 and
6.4 shall be deleted in their entirety. 
  

	12.	ARTICLE 7. Stock Appreciation Rights. 

 Article 7 shall be deleted in its entirety. 

 

	13.	ARTICLE 8. Restricted Shares. 

 The words 

“Specific UK securities laws advice must be taken where Restricted Shares are acquired by Participants other than on
exercise of an Option.” 
 shall be inserted at the beginning of this Article. 

 In Article 8.2 the words from “cash equivalents” to “grant of Restricted
Shares” shall be deleted and replaced with the words “or cheque”. 
  

	14.	ARTICLE 9. Stock Units. 

 In Article 9.5, the words “(a) cash, (b) Common
Shares or (c) any combination of both, as determined by the Committee” shall be deleted and replaced with “Common Shares only”. The words beginning “Methods of converting Stock Units” to “or by dividend
equivalents” shall also be deleted. 
 Article 9.6 shall be deleted in its entirety and replaced with “Any Stock Units Award that
becomes payable after the recipient’s death shall be distributed to the recipient’s Personal Representative only”. 
  

	15.	ARTICLE 10. Protection Against Dilution. 

 In Article 10.1 the words “and SAR”
shall be deleted wherever they appear. 
 In Article 10.2 the word “SARs” shall be deleted. 

In Article 10.3 the words “or SARs”; “(whether or not the Options are ISOs)”; and “and SARs” shall be deleted
wherever they appear. 
  

	16.	ARTICLE 12. Payment of Director’s Fees in Securities. 

 Article 12 shall be deleted
in its entirety 
  

	17.	ARTICLE 13. Limitation on Rights. 

 In Article 13 the words “Outside Director or
Consultant” shall be deleted wherever they appear. 
 In Article 13.1 the words “with or without cause” shall be deleted. 

 

	18.	ARTICLE 14. Taxes. 

 Article 14 shall be deleted in its entirety and replaced with the
following: 
 “ In the event that the Company or any Subsidiary determines that it is required to account to HM
Revenue & Customs for any Award Tax Liability or Secondary NIC Liability (under the Stock Option Agreement or Restricted Stock Unit Award Agreement) arising from the grant, exercise, assignment, release, cancellation or any other disposal
of an Award or arising out of the acquisition, retention and disposal of the Shares acquired pursuant to this Award, the Participant, as a condition to the issue of Shares in connection with the exercise of an Award, or on the grant, assignment,
release or cancellation of an Award, shall make such arrangements satisfactory to the Company to enable it or any Subsidiary to satisfy any requirement to account for any Award Tax Liability (and, if applicable, any Secondary NIC Liability) that may
arise in connection with the Award or the award of Shares pursuant to it including, but not limited to, arrangements satisfactory to the Company for withholding Shares that would otherwise be issued pursuant to the Stock Option Agreement or
Restricted Stock Unit Award Agreement to the Participant.” 

	19.	ARTICLE 16. Future of the Plan. 

 In Article 16.1 the words “earlier of (a) the
date when the Plan is terminated under Section 16.2 or (b) the 10th anniversary of the date when the Board adopted the Plan” shall be deleted and replaced with the words “date
when the US Plan is terminated”. 
  

	20.	Definitions. 

 The following definitions shall be amended to read as follows: 

In the definition of “Award” the words “ an SAR” shall be deleted. 

In the definition of “Exercise Price” the second sentence shall be deleted. 

In the definition of “Option” the words “ISO or NSO” shall be deleted and replaced with the word “option”. 

In the definition of “Service” the words “Outside Director or Consultant” shall be deleted. 

The following definitions shall be deleted: 

“Consultant”; “ISO”; “NSO”; “Outside Director”; “SAR”; and “SAR Agreement”. 

The following definitions shall be inserted and will read as follows: 

“Award Tax Liability” means any liability or obligation of the Company and/or any related company or Subsidiary to account for income
tax (under Pay As You Earn) or any other taxation provisions and primary class 1 National Insurance Contributions in the United Kingdom to the extent arising from the grant, exercise, assignment, release, cancellation or any other disposal of an
Award or arising out of the acquisition, retention and disposal of the Shares acquired under this Plan. 
 “Data” means certain
personal information about the Participant, including, but not limited to, name, home address and telephone number, date of birth, social insurance number, salary, nationality, job title, any stock, units or directorships held in the Company,
details of all options or other entitlement to shares awarded, cancelled, exercised, vested, unvested, or outstanding in the Participant’s favour. 

“Data Recipients” means third parties assisting the Company in the implementation, administration, and management of the Plan. 

“ITEPA” means the Income Tax (Earnings and Pensions) Act 2003. 

“Joint Election” means an election (in such terms and such form as provided in paragraphs 3A and 3B of Schedule 1 to the Social
Security Contributions and Benefits Act 1992), which has been approved by HM Revenue & Customs for the transfer of the whole or any liability of the secondary contributor for any Secondary NIC Liability. 

“Personal Representative” means the personal representative(s) of an Participant (being either the executors of his will or if he
dies intestate the duly appointed administrator(s) of his estate) who have provided to the Board evidence of their appointment as such. 

“Secondary Contributor” means a person or company who has a liability to account (or pay) the Secondary NIC Liability to HM Revenue
and Customs. 
 “Secondary NIC Liability” means any liability to employer’s Class 1 National Insurance Contributions to the
extent arising from the grant, exercise, release or cancellation of an Award or arising out of the acquisition, retention and disposal of the Shares acquired pursuant to an Award. 

 “Section 431 Election” means an election made under section 431 of the Income Tax
(Earnings and Pensions) Act 2003. 
 “UK Subsidiary” means a Subsidiary of the Company which is incorporated in the UK. 

“Unapproved Option” means an option over shares in the Company that is neither an HM Revenue & Customs company share option
(under Schedule 4 ITEPA) nor an enterprise management incentive (EMI) option which meets the requirements of Schedule 5 ITEPA. 
 “US
Plan” means the Vanda Pharmaceuticals Inc. 2016 Equity Incentive Plan, as amended from time to time.EX-10.40

 Exhibit 10.40 

UK SUB-PLAN TO THE 

VANDA PHARMACEUTICALS INC. 2016 EQUITY INCENTIVE
PLAN 
 NOTICE OF STOCK OPTION GRANT 

You have been granted the following option to purchase shares of the Common Stock of Vanda Pharmaceuticals Inc. (the “Company”):

  

			
	Name of Optionee:	  	[Name]
		
	Total Number of Shares:	  	[Number of Shares]
		
	Type of Option:	  	Unapproved Option
		
	Exercise Price Per Share:	  	$[Exercise Price]
		
	Date of Grant:	  	[Date]
		
	Vesting Commencement Date:	  	[Date]
		
	Vesting Schedule:	  	This option may be exercised with respect to 25% of the Shares subject to this option when the Optionee completes one year of continuous Service after the Vesting Commencement Date and with respect to 2.08334% of the Shares
subject to this option when the Optionee completes each month of continuous Service thereafter.
		
	Expiration Date:	  	[Date]. This option expires earlier if your Service terminates earlier, as described in the Stock Option Agreement.

 You and the Company agree that this option is granted under and governed by the terms and conditions of the UK Sub-Plan to the
Vanda Pharmaceuticals Inc. 2016 Equity Incentive Plan (the “Plan”) and of the Stock Option Agreement, which is attached to and made a part of this document. 

You further agree that the Company may deliver by email all documents relating to the Plan or this option (including, without limitation, prospectuses
required by the Securities and Exchange Commission) and all other documents that the Company is required to deliver to its security holders (including, without limitation, annual reports and proxy statements). You also agree that the Company may
deliver these documents by posting them on a web site maintained by the Company or by a third party under contract with the Company. If the Company posts these documents on a web site, it will notify you by email. 

 

									
	OPTIONEE:	 		 	VANDA PHARMACEUTICALS INC.
				
	  
	 		 	By:	 	  

	[Name]	 		 		 	Title:	 	  

 UK SUB-PLAN TO THE
VANDA PHARMACEUTICALS INC. 2016 EQUITY INCENTIVE PLAN 

STOCK OPTION AGREEMENT 

 

			
	Tax Treatment	  	This option is intended to be an Unapproved Option, as provided in the Notice of Stock Option Grant.
		
	Vesting	  	 This option becomes exercisable in installments, as shown in the Notice of Stock Option Grant.

 
 This option will in no event become exercisable for additional shares after your Service
has terminated for any reason.

		
	Term	  	This option expires in any event at the close of business at Company headquarters on the day before the 10th anniversary of the Date of Grant, as shown in the Notice of Stock
Option Grant. (It will expire earlier if your Service terminates, as described below.)
		
	Regular Termination	  	If your Service terminates for any reason except death or total and permanent disability, then this option will expire at the close of business at Company headquarters on the date three months after your termination date. The
Company determines when your Service terminates for this purpose.
		
	Death	  	If you die before your Service terminates, then this option will expire at the close of business at Company headquarters on the date 12 months after the date of death.
		
	Disability	  	 If your Service terminates because of your total and permanent disability, then this option will expire at the close of business at
Company headquarters on the date 12 months after your termination date.
  
 For all
purposes under this Agreement, “total and permanent disability” means that you are unable to engage in any substantial gainful activity by reason of any medically determinable physical or mental impairment which can be expected to result
in death or which has lasted, or can be expected to last, for a continuous period of not less than one year.

  
 2 

			
	Leaves of Absence and Part-Time Work	  	 For purposes of this option, your Service does not terminate when you go on a military leave, a sick leave or another bona fide
leave of absence, if the leave was approved by the Company in writing and if continued crediting of Service is required by the terms of the leave or by applicable law. But your Service terminates when the approved leave ends, unless you immediately
return to active work.
  
 If you go on a leave of absence, then the vesting schedule
specified in the Notice of Stock Option Grant may be adjusted in accordance with the Company’s leave of absence policy or the terms of your leave. If you commence working on a part-time basis, then the vesting schedule specified in the Notice
of Stock Option Grant may be adjusted in accordance with the Company’s part-time work policy or the terms of an agreement between you and the Company pertaining to your part-time schedule.

		
	Restrictions on Exercise	  	The Company will not permit you to exercise this option if the issuance of shares at that time would violate any law or regulation.
		
	Notice of Exercise	  	 In the event of your death, this option may be exercised by your Personal Representative only.

 
 When you wish to exercise this option, you must notify the Company by filing the proper
“Notice of Exercise” form at the address given on the form. Your notice must specify how many shares you wish to purchase. Your notice must also specify how your shares should be registered. The notice will be effective when the Company
receives it, together with the signed Section 431 Election and the signed Joint Election.

		
	Form of Payment	  	 When you submit your notice of exercise, together with the signed Section 431 Election and the signed Joint Election, you must include
payment of the option exercise price for the shares that you are purchasing (together with any Award Tax Liability and Secondary NIC Liability). To the extent permitted by applicable law, payment may be made in one (or a combination of two or more)
of the following forms:
  

•       Your personal cheque, a cashier’s cheque or a money order.

 

•       Irrevocable directions to a securities broker approved by the Company
to sell all or part of your option shares and to deliver to the Company from the sale proceeds an amount sufficient to pay the option exercise price and any Award Tax Liability and Secondary NIC Liability. (The balance of the sale proceeds, if any,
will be delivered to you.) The directions must be given by signing a special “Notice of Exercise” form provided by the Company.

  
 3 

			
	Withholding Taxes and Stock Withholding	  	In the event that the Company determines that it or any Subsidiary is required to account to HM Revenue & Customs for the Award Tax Liability and any Secondary NIC Liability or to withhold any other tax as a result of the
exercise of this option you, as a condition to the exercise of this option, shall make arrangements satisfactory to the Company to enable it or any Subsidiary to satisfy all withholding liabilities. You shall also make arrangements satisfactory to
the Company to enable it to satisfy any withholding requirements that may arise in connection with the vesting or disposition of Shares purchased by exercising this option.
		
	Tax Consultation.	  	You understand that you may suffer adverse tax consequences as a result of your purchase or disposition of the Shares. You represent that you will consult with any tax advisors you deem appropriate in connection with the purchase
or disposition of the Shares and that you are not relying on the Company or any Affiliate for any tax advice.
		
	Section 431 Election	  	As a further condition of the exercise of this option, you shall have signed a Section 431 Election in the form set out in Appendix A or in such other form as may be determined by HM Revenue & Customs from time to
time.
		
	Employer’s National Insurance Charges	  	As a further condition of the exercise of this option you shall join with the Company or any other company or person who is or becomes a Secondary Contributor in making a Joint Election which has been approved by HM Revenue &
Customs, for the transfer of the whole of any Secondary NIC Liability.
		
	Your Tax Indemnity.	  	 •       To the extent permitted by law, you hereby agree
to indemnify and keep indemnified the Company, and the Company as trustee for and on behalf of any related corporation, for any Award Tax Liability and Secondary NIC Liability.
  

•       The Company shall not be obliged to allot and issue any Shares or any
interest in Shares pursuant to the exercise of this option unless and until you have paid to the Company such sum as is, in the opinion of the Company, sufficient to indemnify the Company in full against the Award Tax Liability and the Secondary NIC
Liability, or you have made such other arrangement as in the opinion of the Company will ensure that the full amount of any Award Tax Liability and any Secondary NIC Liability will be recovered from you within such period as the Company may then
determine.
  

•       In the absence of any such other arrangement being made, the Company
shall have the right to retain out of the aggregate number of shares to which you would have otherwise been entitled upon the exercise of this option, such number of Shares as, in the opinion of the Company, will enable the Company to sell as agent
for you (at the best price which can reasonably expect to be obtained at the time of the sale) and to pay over to the Company sufficient monies out of the net proceeds of sale, after deduction of all fees, commissions and expenses incurred in
relation to such sale, to satisfy your liability under such indemnity.

  
 4 

			
		
	Data Protection	  	 By entering into this Stock Option Agreement, and as a condition of the grant of this option, you consent to the collection, use, and
transfer of personal data as described in this paragraph to the full extent permitted by and in full compliance with applicable laws.
  

You understand that the Company and its Subsidiaries hold Data about you for the purpose of managing and administering the Plan.

 
 You further understand that the Company and/or its Subsidiaries will transfer Data among
themselves as necessary for the purposes of implementation, administration, and management of your participation in the Plan, and that the Company and/or its Subsidiary may each further transfer Data to any Data Recipients.

 
 You understand that these Data Recipients may be located in your country of residence or
elsewhere, such as the United States. You authorise the Data Recipients to receive, possess, use, retain, and transfer Data in electronic or other form, for the purposes of implementing, administering, and managing your participation in the Plan,
including any transfer of such Data, as may be required for the administration of the Plan and/or the subsequent holding of Shares on your behalf, to a broker or third party with whom the Shares acquired on exercise may be deposited. Where the
transfer is to be to a destination outside the European Economic Area, the Company shall take reasonable steps to ensure that your personal data continues to be adequately protected and securely held.

 
 You understand that you may, at any time, review the Data, request that any necessary
amendments be made to it, or withdraw your consent herein in writing by contacting the Company. You further understand that withdrawing consent may affect your ability to participate in the Plan.

		
	Restrictions on Resale	  	You agree not to sell any option shares at a time when applicable laws, Company policies or an agreement between the Company and its underwriters prohibit a sale. This restriction will apply as long as your Service continues and
for such period of time after the termination of your Service as the Company may specify.
		
	Transfer of Option	  	Prior to your death, only you may exercise this option. You cannot transfer or assign this option. For instance, you may not sell this option or use it as security for a loan. If you attempt to do any of these things, this option
will immediately become invalid.

  
 5 

			
	Retention Rights	  	Your option or this Agreement does not give you the right to be retained by the Company or a subsidiary of the Company in any capacity. The Company and its subsidiaries reserve the right to terminate your Service at any
time.
		
	Stockholder Rights	  	You or your Personal Representative have no rights as a stockholder of the Company until you have exercised this option by giving the required notice to the Company and paying the exercise price. No adjustments are made for
dividends or other rights if the applicable record date occurs before you exercise this option, except as described in the Plan.
		
	Adjustments	  	In the event of a stock split, a stock dividend or a similar change in Company stock, the number of shares covered by this option and the exercise price per share will be adjusted pursuant to the Plan.
		
	Additional Terms	  	 You have no right to compensation or damages for any loss in respect of this option where such loss arises (or is claimed to arise), in
whole or in part, from the termination of your employment; or notice to terminate employment given by or to you. This exclusion of liability shall apply however termination of employment, or the giving of notice, is caused other than in a case where
a competent tribunal or court, from which there can be no appeal (or which the relevant employing company has decided not to appeal), has found that the cessation of your employment amounted to unfair or constructive dismissal of you and however
compensation or damages may be claimed.
  
 You have no right to compensation or damages
for any loss in respect of this option where such loss arises (or is claimed to arise), in whole or in part, from any company ceasing to be a Subsidiary of the Company; or the transfer of any business from a Subsidiary of the Company to any person
which is not a Subsidiary of the Company. This exclusion of liability shall apply however the change of status of the relevant company, or the transfer of the relevant business, is caused, and however compensation or damages may be
claimed.

		
	Applicable Law	  	This Agreement will be interpreted and enforced under the laws of the State of Delaware (without regard to their choice-of-law provisions). The Section 431 Election and Joint Election shall be governed by the laws of England and
Wales.

  
 6 

			
	The Plan and Other Agreements	  	 The text of the Plan, the Section 431 Election and Joint Election are incorporated in this Agreement by reference.

 
 This Agreement, the Section 431 Election, the Joint Election and the Plan constitute the
entire understanding between you and the Company regarding this option. Any prior agreements, commitments or negotiations concerning this option are superseded. This Agreement may be amended only by another written agreement between the
parties.

 BY SIGNING THE COVER SHEET
OF THIS AGREEMENT, YOU AGREE TO ALL OF THE 

TERMS AND CONDITIONS DESCRIBED ABOVE AND
IN THE PLAN. 

  
 7 

 APPENDIX A 

SECTION 431 ELECTION 

  
 8

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