Document:

First Supplemental Indenture, dated September 18, 2006

 Exhibit 4.10 
 SILICON GRAPHICS, INC. 
 6.50% Senior Secured Convertible Notes Due 2009 
 FIRST SUPPLEMENTAL INDENTURE 
 Dated
September 18, 2006 
 U.S. BANK NATIONAL ASSOCIATION, 
 TRUSTEE 

 FIRST SUPPLEMENTAL INDENTURE, dated September 18, 2006, by and between SILICON GRAPHICS, INC., a
Delaware corporation (the “Company”), and U.S. BANK NATIONAL ASSOCIATION, a national banking association organized and existing under the laws of the United States of America, not in its individual capacity but solely as Trustee
(the “Trustee”) under the Indenture (as defined herein). 
 RECITALS 
 WHEREAS, the Company and the Trustee entered into an Indenture, dated as of December 24, 2003 (the “Indenture”), pursuant to which
the Company issued $224,356,000 aggregate principal amount of 6.50% Senior Secured Convertible Notes Due 2009 (the “Securities”); 
 WHEREAS, as of the Effective Date (as defined herein) of this First Supplemental Indenture $188,578,000 aggregate principal amount of the Securities were outstanding; 
 WHEREAS, Section 9.02 of the Indenture provides that the Company and the Trustee may amend the Indenture or the Securities with the written consent
of the Holders (as defined in the Indenture) of at least a majority of the aggregate principal amount of the Securities outstanding; 
 WHEREAS, the Company has sought to obtain debtor in possession financing from Quadrangle Master Funding Ltd., Watershed Technology Holdings, L.L.C., and Encore Fund, L.P. (collectively, the “DIP Lenders”) in the form of
term loans pursuant to the terms and on the conditions set forth in the $70,000,000 Post-Petition Loan and Security Agreement, dated as of May 8, 2006 (the “DIP Agreement”), by and among Silicon Graphics, Inc., Silicon Graphics
Federal, Inc., and Silicon Graphics World Trade Corporation, on the one hand, and Quadrangle Master Funding Ltd., Watershed Technology Holdings, L.L.C., and Encore Fund, L.P., on the other hand, and the proposed order approving such financing
attached hereto as Exhibit A which shall be secured by a lien senior to the lien on the Collateral granted to the Securityholders under the Security Agreement; 
 WHEREAS, holders or beneficial owners or investment managers or advisers for the beneficial owners of not less than $94,482,087 in aggregate principal amount of the Securities outstanding, constituting not less than
50.1 perscent (50.1%) of the outstanding Securities, have consented to the amendments set forth in this First Supplemental Indenture, subject to the closing of the DIP Agreement; 
 WHEREAS, all acts and things prescribed by the Indenture to make this First Supplemental Indenture a valid instrument legally binding on the Company and
the Trustee, in accordance with its terms, have been duly done and performed; and 
 WHEREAS, capitalized terms used herein but not otherwise
defined herein shall have the meanings ascribed to such terms in the Indenture. 
 NOW, THEREFORE, to comply with the provisions of the
Indenture and in consideration of the above premises, the Company and the Trustee covenant and agree for the equal and proportionate benefit of the respective Holders of the Securities as follows: 
  

 2 

 ARTICLE I 
 Section 1.01. This First Supplemental Indenture is supplemental to the Indenture and does and shall be deemed to form a part of, and shall be construed in connection with and as part of, the Indenture for
any and all purposes. 
 Section 1.02. Notwithstanding anything herein to the contrary, this First Supplemental Indenture is
deemed effective as of May 10, 2006 (the “Effective Date”). 
 ARTICLE II 
 Section 2.01. Upon the Effective Date of this First Supplemental Indenture pursuant to Section 1.02 above, the text of
Section 4.06(e) of the Indenture shall be deemed deleted in its entirety and replaced with the following: 
 “(e) (i) other
indebtedness to banks or other institutional lenders in the form of revolving credit loans or term loans or the issuance of letters of credit or bankers’ acceptances or the like, including the Secured Credit Facility as it may be extended,
refinanced, renewed or replaced, provided that the aggregate principal amount of such other indebtedness at any time outstanding does not exceed $100 million, provided further that the amount set forth in this clause (e)may be increased to
permit as necessary the term loans under the $70,000,000 Post-Petition Loan and Security Agreement, dated as of May 8, 2006, by and among Silicon Graphics, Inc., Silicon Graphics Federal, Inc., and Silicon Graphics World Trade Corporation, on
the one hand, and Quadrangle Master Funding Ltd., Watershed Technology Holdings, LLC, and Encore Fund, L.P., on the other hand; or “. 
 Section 2.02. Upon the Effective Date of this First Supplemental Indenture pursuant to Section 1.02 above, the text of the defined term “Senior Priority Lien” of Section 1.01 of the Indenture shall be
deemed deleted in its entirety and replaced with the following: 
 ““Senior Priority Lien” means any lien on the
Collateral created by the Company that is senior to the lien granted to the Securityholders under the Security Agreement and that secures debt permitted under section 4.06(e) of this Indenture, including, but not limited to the liens created under
the Secured Credit Facility and under the $70,000,000 Post-Petition Loan and Security Agreement, dated as of May 8, 2006, by and among Silicon Graphics, Inc., Silicon Graphics Federal, Inc., and Silicon Graphics World Trade Corporation, on the
one hand, and Quadrangle Master Funding Ltd., Watershed Technology Holdings, LLC, and Encore Fund, L.P., on the other hand.” 
 ARTICLE III 
 Section 3.01. Except as specifically modified herein, the Indenture and the Securities are in all
respects ratified and confirmed (mutatis mutandis) and shall remain in full force and effect in accordance with their terms. 
 Section 3.02. Except as otherwise expressly provided herein, no duties, responsibilities or liabilities are assumed, or shall be construed to be assumed, by the Trustee by reason of this First Supplemental Indenture. This First
Supplemental Indenture is executed and accepted by the Trustee subject to all of the terms and conditions set forth in the Indenture with the same force and effect as if those terms and conditions were repeated at length herein and made applicable
to the Trustee with respect hereto. 
  

 3 

 Section 3.03. THIS FIRST SUPPLEMENTAL INDENTURE SHALL BE GOVERNED BY, AND CONSTRUED IN
ACCORDANCE WITH, THE LAWS OF THE STATE OF NEW YORK BUT WITHOUT GIVING EFFECT TO APPLICABLE PRINCIPLES OF CONFLICTS OF LAW TO THE EXTENT THAT THE APPLICATION OF THE LAWS OF ANOTHER JURISDICTION WOULD BE REQUIRED THEREBY. This First Supplemental
Indenture shall be governed and construed in accordance with the applicable terms and provisions of the Indenture as supplemented hereby, which terms and provisions are incorporated herein by reference, as if this First Supplemental Indenture were
the “Indenture” referred to therein. 
 Section 3.04. The parties may sign any number of copies of this First
Supplemental Indenture. Each signed copy shall be an original, but all of such executed copies together shall represent the same agreement. 
 Section 3.05. Upon the Effective Date, this First Supplemental Indenture shall form a part of the Indenture for all purposes replacing in all respects (a) Section 4.06(e) of the Indenture with the language set forth in
Section 2.01 hereof and (b) the defined term “Senior Priority Lien” of Section 1.01 of the Indenture with the language set forth in Section 2.02 hereof. Every holder of Senior Secured Notes heretofore or hereafter
authenticated and delivered shall be bound hereby. Any and all references, whether within the Indenture or in any notice, certificate or other instrument or document, shall be deemed to include a reference to this First Supplemental Indenture
(whether or not made), unless the context shall otherwise require. 
 [THE REMAINDER OF THIS PAGE IS INTENTIONALLY LEFT BLANK.] 
  

 4 

 IN WITNESS WHEREOF, the parties hereto have caused this First Supplemental Indenture to be duly executed
as of the date first written above. 
  

			
	COMPANY
	
	SILICON GRAPHICS, INC.
		
	By:	 	 /s/ Kathy Lanterman

	Name:	 	Kathy Lanterman
	Title:	 	Senior Vice President and Chief Financial Officer
	
	TRUSTEE
	
	U.S. BANK NATIONAL ASSOCIATION
		
	By:	 	 /s/ James E. Murphy

	Name:	 	James E. Murphy
	Title:	 	Vice President

 SIGNATURE PAGE TO FIRST SUPPLEMENTAL INDENTURE 
 (6.50% SENIOR SECURED CONVERTIBLE NOTES DUE 2009)Second Supplemental Indenture, dated September 18, 2006

 Exhibit 4.11 
 SILICON GRAPHICS, INC. 
 6.50% Senior Secured Convertible Notes Due 2009 
 SECOND SUPPLEMENTAL INDENTURE 
 Dated
September 18, 2006 
 U.S. BANK NATIONAL ASSOCIATION 
 TRUSTEE 

 SECOND SUPPLEMENTAL INDENTURE, dated September 18, 2006, by and between SILICON GRAPHICS, INC., a
Delaware corporation (the “Company”), and U.S. BANK NATIONAL ASSOCIATION, a national banking association organized and existing under the laws of the United States of America, not in its individual capacity but solely as Trustee
(the “Trustee”) under the Indenture (as defined herein). 
 RECITALS 
 WHEREAS, the Company and the Trustee entered into an Indenture, dated as of December 24, 2003 (the “Indenture”), pursuant to which
the Company issued $224,356,000 aggregate principal amount of 6.50% Senior Secured Convertible Notes Due 2009 (the “Securities”); 
 WHEREAS, as of the Effective Date (as defined herein) of this Second Supplemental Indenture $188,587,000 aggregate principal amount of the Securities were outstanding; 
 WHEREAS, Section 9.02 of the Indenture provides that the Company and the Trustee may amend the Indenture or the Securities with the written consent
of the Holders (as defined in the Indenture) of at least a majority of the aggregate principal amount of the Securities outstanding; 
 WHEREAS, the Company and certain of its subsidiaries have sought to obtain debtor in possession financing from Morgan Stanley Senior Funding, Inc., Wells Fargo Foothill, Inc., Quadrangle Master Funding Ltd., Watershed Technology Holdings,
LLC, and Encore Fund, L.P. (collectively, the “DIP Lenders”) in the form of revolving and term loans pursuant to the terms and on the conditions set forth in the $130,000,000 Post-Petition Loan and Security Agreement, dated as of
June 28, 2006 (the “DIP Agreement”), by and among Silicon Graphics, Inc., Silicon Graphics Federal, Inc., and Silicon Graphics World Trade Corporation, on the one hand, and Morgan Stanley Senior Funding, Inc., Wells Fargo Foothill,
Inc., Quadrangle Master Funding Ltd., Watershed Technology Holdings, LLC, and Encore Fund, L.P., on the other hand, and the proposed order approving such financing attached hereto as Exhibit A which shall be secured by a lien senior to the
lien on the Collateral granted to the Securityholders under the Security Agreement; 
 WHEREAS, holders or beneficial owners or investment
managers or advisers for the beneficial owners of not less than $94,482,087 in aggregate principal amount of the Securities outstanding, constituting not less than 50.1 percent (50.1%) of the outstanding Securities, have consented to the
amendments set forth in this Second Supplemental Indenture, subject to the closing of the DIP Agreement; 
 WHEREAS, all acts and things
prescribed by the Indenture to make this Second Supplemental Indenture a valid instrument legally binding on the Company and the Trustee, in accordance with its terms, have been duly done and performed; and 
 WHEREAS, capitalized terms used herein but not otherwise defined herein shall have the meanings ascribed to such terms in the Indenture. 
 NOW, THEREFORE, to comply with the provisions of the Indenture and in consideration of the above premises, the Company and the Trustee covenant and agree
for the equal and proportionate benefit of the respective Holders of the Securities as follows: 
  

 2 

 ARTICLE I 
 Section 1.01. This Second Supplemental Indenture is supplemental to the Indenture and does and shall be deemed to form a part of, and shall be construed in connection with and as part of, the Indenture for
any and all purposes. 
 Section 1.02. Notwithstanding anything herein to the contrary, this Second Supplemental Indenture shall
be deemed effective as of June 26, 2006 (the “Effective Date”). 
 ARTICLE II 
 Section 2.01. Upon the Effective Date of this Second Supplemental Indenture pursuant to Section 1.02 above, the text of
Section 4.06(e) of the Indenture shall be deemed deleted in its entirety and replaced with the following: 
 “(e) (i) other
indebtedness to banks or other institutional lenders in the form of revolving credit loans or term loans or the issuance of letters of credit or bankers’ acceptances or the like, including the Secured Credit Facility as it may be extended,
refinanced, renewed or replaced, provided that the aggregate principal amount of such other indebtedness at any time outstanding does not exceed $100 million, provided further that the amount set forth in this clause (e) may be
increased to permit as necessary the term loans under the $130,000,000 Post-Petition Loan and Security Agreement, dated as of June 28, 2006, by and among Silicon Graphics, Inc., Silicon Graphics Federal, Inc., and Silicon Graphics World Trade
Corporation, on the one hand, and Morgan Stanley Senior Funding, Inc., Wells Fargo Foothill, Inc., Quadrangle Master Funding Ltd., Watershed Technology Holdings, LLC, and Encore Fund, L.P., on the other hand; or”. 
 Section 2.02. Upon the Effective Date of this Second Supplemental Indenture pursuant to Section 1.02 above, the text of the
defined term “Senior Priority Lien” of Section 1.01 of the Indenture shall be deemed deleted in its entirety and replaced with the following: 
 ““Senior Priority Lien” means any lien on the Collateral created by the Company that is senior to the lien granted to the Securityholders under the Security Agreement and that secures debt
permitted under section 4.06(e) of this Indenture, including, but not limited to the liens created under the Secured Credit Facility and under the $130,000,000 Post-Petition Loan and Security Agreement, dated as of June 28, 2006, by and among
Silicon Graphics, Inc., Silicon Graphics Federal, Inc., and Silicon Graphics World Trade Corporation, on the one hand, and Morgan Stanley Senior Funding, Inc., Wells Fargo Foothill, Inc., Quadrangle Master Funding Ltd., Watershed Technology
Holdings, LLC, and Encore Fund, L.P., on the other hand.” 
 ARTICLE III 
 Section 3.01. Except as specifically modified herein, the Indenture and the Securities are in all respects ratified and confirmed (mutatis
mutandis) and shall remain in full force and effect in accordance with their terms. 
 Section 3.02. Except as otherwise
expressly provided herein, no duties, responsibilities or liabilities are assumed, or shall be construed to be assumed, by the Trustee by reason of this Second Supplemental Indenture. This Second Supplemental Indenture is executed and accepted by
the Trustee subject to all of the terms and conditions set forth in the Indenture with the same force and effect as if those terms and conditions were repeated at length herein and made applicable to the Trustee with respect hereto. 
  

 3 

 Section 3.03. THIS SECOND SUPPLEMENTAL INDENTURE SHALL BE GOVERNED BY, AND CONSTRUED IN
ACCORDANCE WITH, THE LAWS OF THE STATE OF NEW YORK BUT WITHOUT GIVING EFFECT TO APPLICABLE PRINCIPLES OF CONFLICTS OF LAW TO THE EXTENT THAT THE APPLICATION OF THE LAWS OF ANOTHER JURISDICTION WOULD BE REQUIRED THEREBY. This Second Supplemental
Indenture shall be governed and construed in accordance with the applicable terms and provisions of the Indenture as supplemented hereby, which terms and provisions are incorporated herein by reference, as if this Second Supplemental Indenture were
the “Indenture” referred to therein. 
 Section 3.04. The parties may sign any number of copies of this Second
Supplemental Indenture. Each signed copy shall be an original, but all of such executed copies together shall represent the same agreement. 
 Section 3.05. Upon the Effective Date, this Second Supplemental Indenture shall form a part of the Indenture for all purposes replacing in all respects (a) Section 4.06(e) of the Indenture with the language set forth
in Section 2.01 hereof and (b) the defined term “Senior Priority Lien” of Section 1.01 of the Indenture with the language set forth in Section 2.02 hereof. Every holder of Securities heretofore or hereafter
authenticated and delivered shall be bound hereby. Any and all references, whether within the Indenture or in any notice, certificate or other instrument or document, shall be deemed to include a reference to this Second Supplemental Indenture
(whether or not made), unless the context shall otherwise require. 
 [THE REMAINDER OF THIS PAGE IS INTENTIONALLY LEFT BLANK.] 
  

 4 

 IN WITNESS WHEREOF, the parties hereto have caused this Second Supplemental Indenture to be duly executed
as of the date first written above. 
  

			
	COMPANY
	
	SILICON GRAPHICS, INC.
		
	By:	 	 /s/ Kathy Lanterman

	Name:	 	Kathy Lanterman
	Title:	 	Senior Vice President and Chief Financial Officer
	
	TRUSTEE
	
	U.S. BANK NATIONAL ASSOCIATION
		
	By:	 	 /s/ James E. Murphy

	Name:	 	James E. Murphy
	Title:	 	Vice President

 SIGNATURE PAGE TO SECOND SUPPLEMENTAL INDENTURE 
 (6.50% SENIOR SECURED CONVERTIBLE NOTES DUE 2009)

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