Document:

Amendment to Letter Agreement

 Exhibit 10.5(b) 
 Exhibit A 
 APL – Spectrum Acquisition 
 Acquisition Look Back Example For Employment Agreement 
  

					
	 Most recent quarterly distribution
	  	 	0.63	 
	 Multiplied by four
	  	 	4	 
		  	 	 	 
	 Annualized distribution
	  	$	2.52	 
		
	 Closing price of APL common unit on 12/31/2008
	  	$	38.00	 
		
	 Yield (distribution/Closing price)
	  	 	7.20	%
		
	 Distributed Cash Flow generated by acquisition during the 12 months ended 12/31/2008
	  	$	10,000,000	 
		
	 Imputed Value (Dist Cash Flow / Yield)
	  	$	138,888,889	 
		
	 Incentive %
	  	 	1.50	%
		
	 Incentive amount (Imputed value * Incentive %)
	  	$	2,083,333	 
		
	 # of units issued (Incentive amount / unit price)
	  	 	59,524Amendment and Joinder to Gas Gathering Agreements

 Exhibit 10.11(a) 
 AMENDMENT AND JOINDER TO GAS GATHERING AGREEMENTS 
 THIS AMENDMENT AND JOINDER TO GAS GATHERING
AGREEMENTS (this “Amendment”) is made as of December 18, 2006, among Atlas Pipeline Partners, L.P., a Delaware limited partnership, and Atlas Pipeline Operating Partnership, L.P., a Delaware limited partnership
(collectively, “Gatherer”), Atlas America, Inc., a Delaware corporation (“Atlas America”), Resource Energy, LLC, a Delaware limited liability company (formerly Resource Energy, Inc.,
“Resource Energy”), Viking Resources, LLC, a Pennsylvania limited liability company (formerly Viking Resources Corporation, “Viking Resources”), Atlas Noble, LLC, a Delaware limited liability company
(formerly Atlas Noble Corporation, “Atlas Noble”), Atlas Resources, LLC, a Pennsylvania limited liability company (formerly Atlas Resources, Inc., “Atlas Resources”), Atlas America, LLC, a Pennsylvania
limited liability company (formerly Atlas America, Inc., “Atlas PA”), Atlas Energy Resources, LLC, a Delaware limited liability company (“Atlas Energy”), and Atlas Energy Operating Company, LLC, a
Delaware limited liability company (“Energy Operating”). 
 RECITALS 
 A. Gatherer and Atlas America, Resource Energy and Viking Resources are parties to the Master Natural Gas Gathering Agreement dated February 2, 2000
(as amended as of October 25, 2005, the “2000 Gathering Agreement”) and desire to amend the same in accordance with the terms hereof. 
 B. Gatherer and Atlas America (as successor to Atlas Energy Group, Inc.), Atlas Resources, Atlas Noble, Resource Energy and Viking Resources are parties to the Natural Gas Gathering Agreement dated January 1,
2002 (as amended as of October 25, 2005, the “2002 Gathering Agreement” and with the 2000 Gathering Agreement, the “Gathering Agreements”) and desire to amend the same in accordance with the terms
hereof. 
 C. Atlas America has formed Atlas Energy and Energy Operating for the purpose of facilitating the initial public offering of Atlas
Energy and, pursuant to the Contribution and Assumption Agreement of even date herewith, is transferring all of the issued and outstanding member interests in Resource Energy, Viking Resources, Atlas Noble, Atlas Resources and Atlas PA to Energy
Operating, and the parties hereto wish to join Atlas Energy and Energy Operating to the Gathering Agreements. 
 NOW, THEREFORE, in
consideration of the premises, and the mutual covenants and agreements herein set forth, and intending to be legally bound, the parties agree as follows: 
 1. Joinder in the Gathering Agreements. Effective as of the date hereof, each of Atlas Energy and Energy Operating hereby joins each of the Gathering Agreements and accepts and agrees to be bound as a
“Shipper” thereunder with respect to all of the terms and conditions thereof, and Gatherer hereby consents to such joinder and agrees that Atlas Energy and Energy Operating are parties to the Gathering Agreements as the Shipper thereunder.

 2. Removal of Atlas America from and Joinder of Atlas PA to the 2002 Gathering Agreement.
Effective as of the date hereof, Atlas America is hereby removed as a party to the 2002 Gathering Agreement and shall have no further rights or obligations thereunder. Atlas PA hereby joins the 2002 Gathering Agreement and agrees to be bound as a
“Shipper” thereunder with respect to all of the terms and conditions thereof, and Gatherer hereby consents to such joinder and agrees that Atlas PA is party to the 2002 Gathering Agreement as the Shipper thereunder. 
 3. Definition of “Investment Program.” The definition of “Investment Program” set forth in the 2000 Gathering Agreement is
hereby amended and restated in its entirety as follows: 
 “Investment Program” means a Person
principally engaged in the drilling of natural gas and oil wells for which Shipper or direct or indirect subsidiary of Shipper acts as a general partner, managing partner or manager and the securities of which have been offered and sold to
investors. 
 4. Other Terms of Gathering Agreements. Except as otherwise expressly provided herein, the Gathering Agreements are not
amended, modified or affected by this Amendment. 
 5. Counterparts. This Amendment may be executed in any number of counterparts and
by different parties hereto in separate counterparts, each of which when so executed and delivered shall be deemed to be an original and all of which taken together shall constitute but one and the same instrument. Delivery of an executed
counterpart of this Amendment by facsimile shall be equally as effective as delivery of a manually executed counterpart of this Amendment. 
 [Signatures appear on following pages] 
  

 2 

 IN WITNESS WHEREOF, the parties have executed this Amendment to be effective as of the date first
written above. 
  

			
	Shipper:
	
	ATLAS AMERICA, INC.
		
	By:	 	  

	Name:	 	
	Its:	 	
	
	ATLAS ENERGY RESOURCES, LLC
		
	By:	 	  

	Name:	 	
	Its:	 	
	
	ATLAS ENERGY OPERATING COMPANY, LLC
	By:	 	Atlas Energy Resources, LLC, its sole member
		
	By:	 	  

	Name:	 	
	Its:	 	
	
	RESOURCE ENERGY, LLC
	By:	 	 Atlas Energy Operating Company, LLC, its sole member

		
	By:	 	Atlas Energy Resources, LLC, its sole member
		
	By:	 	  

	Name:	 	
	Its:	 	

  

 3 

			
	VIKING RESOURCES, LLC
	By:	 	 Atlas Energy Operating Company, LLC, its sole member

		
	By:	 	Atlas Energy Resources, LLC, its sole member
		
	By:	 	  

	Name:	 	
	Its:	 	
	
	ATLAS NOBLE, LLC
	By:	 	 Atlas Energy Operating Company, LLC, its sole member

		
	By:	 	Atlas Energy Resources, LLC, its sole member
		
	By:	 	  

	Name:	 	
	Its:	 	
	
	ATLAS RESOURCES, LLC
	By:	 	AIC, LLC, its sole member
		
	By:	 	 Atlas Energy Operating Company, LLC, its sole member

		
	By:	 	Atlas Energy Resources, LLC, its sole member
		
	By:	 	  

	Name:	 	
	Its:	 	
	
	ATLAS AMERICA, LLC
	By:	 	 Atlas Energy Operating Company, LLC, its sole member

		
	By:	 	 Atlas Energy Resources, LLC, its sole member

		
	By:	 	  

	Name:	 	
	Its:	 	

  

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	Gatherer:
	
	ATLAS PIPELINE OPERATING PARTNERSHIP, L.P.
		
	By:	 	 Atlas Pipeline Partners GP, LLC, its general partner

		
	By:	 	  

	Name:	 	
	Its:	 	
	
	ATLAS PIPELINE PARTNERS, L.P.
		
	By:	 	 Atlas Pipeline Partners GP, LLC, its general partner

		
	By:	 	  

	Name:	 	
	Its:	 	

  

 5Amendment and Joinder to Omnibus Agreement

 Exhibit 10.13(a) 
 AMENDMENT AND JOINDER TO OMNIBUS AGREEMENT 
 THIS AMENDMENT AND JOINDER TO OMNIBUS AGREEMENT
(this “Amendment”) is made as of December 18, 2006, among Atlas Pipeline Partners, L.P., a Delaware limited partnership, and Atlas Pipeline Operating Partnership, L.P., a Delaware limited partnership (collectively, the
“MLP”), Atlas America, Inc., a Delaware corporation (“Atlas America”), Resource Energy, LLC, a Delaware limited liability company (formerly Resource Energy, Inc., “Resource
Energy”), Viking Resources, LLC, a Pennsylvania limited liability company (formerly Viking Resources Corporation, “Viking Resources”), Atlas Energy Resources, LLC, a Delaware limited liability company
(“Atlas Energy”), and Atlas Energy Operating Company, LLC, a Delaware limited liability company (“Energy Operating”). 
 RECITALS 
 A. The MLP, Atlas America, Resource Energy and Viking Resources are parties to the Omnibus
Agreement dated February 2, 2000 (the “Omnibus Agreement”) and desire to amend the same in accordance with the terms hereof. 
 B. Atlas America has formed Atlas Energy and Energy Operating for the purpose of facilitating the initial public offering of Atlas Energy and, pursuant to the Contribution and Assumption Agreement of even date
herewith, is transferring all of the issued and outstanding member interests in Resource Energy and Viking Resources to Energy Operating, and the parties hereto wish to join Atlas Energy and Energy Operating to the Omnibus Agreement. 
 NOW, THEREFORE, in consideration of the premises, and the mutual covenants and agreements herein set forth, and intending to be legally bound, the
parties agree as follows: 
 1. Joinder in the Omnibus Agreement. Effective as of the date hereof, each of Atlas Energy and Energy
Operating hereby joins the Omnibus Agreement and accepts and agrees to be bound as a “Resource Entity” thereunder with respect to all of the terms and conditions thereof, except Section 5.2 thereof, and the MLP hereby consents to such
joinder. 
 2. Removal of Atlas America as Primary Obligor; Guaranty. Except to the extent that Atlas America purchases an asset that
is first properly presented to Atlas Energy as a Business Opportunity (as defined and as permitted by the Omnibus Agreement of even date herewith, between Atlas America and Atlas Energy, as the same may be amended from time to time), effective as of
the date hereof, Atlas America is hereby removed as a primary obligor of the Omnibus Agreement, and the MLP hereby consents to such removal. Atlas America hereby unconditionally and absolutely 

 
guarantees the performance of the Resource Entities’ obligations arising under the Omnibus Agreement (the “Guaranteed
Obligations”). If the Resource Entities fail or refuse to perform any Guaranteed Obligations, the MLP may make a demand upon Atlas America (a “Demand”). A Demand shall be in writing and shall reasonably and
briefly specify in what manner any of the Resource Entities has failed to perform under a Guaranteed Obligation, with a specific statement that the MLP is calling upon Atlas America to perform pursuant to this section. Atlas America agrees that
except as expressly set forth herein, it will remain bound under this section notwithstanding any defenses which, pursuant to the laws of suretyship, would otherwise relieve a guarantor of its obligations under a guarantee. Atlas America reserves
the right to assert defenses which any of the Resource Entities may have to performance of any Guaranteed Obligation other than defenses arising from the bankruptcy or insolvency of such Resource Entity and other defenses expressly waived hereby.

 3. Definitions. The following definitions set forth in the Omnibus Agreement are hereby amended and restated in their entirety as
follows: 
 “Investment Program” means a Person principally engaged in the drilling of natural gas and oil wells for
which a Resource Entity or a subsidiary of a Resource Entity acts as a general partner, managing partner or manager and the securities of which have been offered and sold to investors. 
 “Master Natural Gas Gathering Agreement” means the Master Natural Gas Gathering Agreement among the Resource Entities and the MLP
dated as of February 2, 2000, as amended from time to time. 
 4. Consulting Services. Section 2.5 of the Omnibus Agreement
is hereby amended and restated as follows: 
 Consulting Services in Connection with Acquisitions. The Resource Entities agree to
assist the MLP in seeking to identify for possible acquisition Third Party Gathering Systems and to provide consulting services to MLP in evaluating and acquiring any such identified gathering system. Further, the Resource Entities agree to give the
MLP prompt written notice of the identification by any of them of any Third Party Gathering System for possible acquisition by such Resource Entity or any Affiliate (each, an “Identified Third Party Gathering System”). Such
notice shall set forth all information available to the Resource Entities about the Identified Third Party Gathering System, including the identity the gathering system and its seller and the proposed sales price, and shall include all written
information about the Identified Third Party Gathering System provided to the Resource Entities by or on behalf of the seller as well as any information or analyses compiled by the Resource Entities from other sources (collectively, the
“Business Opportunity Information”). The Resource Entities shall continue to provide promptly to the MLP any and all Business Opportunity Information subsequently 

  

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received. Within a time period specified by the Resource Entity’s notice to the MLP, which shall be a reasonable time under the circumstances, the MLP
shall advise the Resource Entity in writing whether it wishes to acquire the Identified Third Party Gathering System. If the MLP advises the Resource Entity of its intent to acquire the Identified Third Party Gathering System, the Resource Entities
shall refrain from making an offer for the Identified Third Party Gathering System except as permitted hereunder. If the MLP (i) advises the Resource Entity that (with the approval of the conflicts committee of the General Partner) it does not
intend to acquire the Identified Third Party Gathering System, (ii) advises the Resource Entity of its intent to acquire the Identified Third Party Gathering System but does not complete the acquisition or investment within a reasonable time
after the MLP’s notice of its intent to the Resource Entity or (iii) fails to timely advise the Resource Entity of its intent, any of the Resource Entities shall be free to acquire the Identified Third Party Gathering System. 

5. Construction Management Services. Article 3 of the Omnibus Agreement is hereby amended and restated as follows: 
 In the event the MLP expands the Gathering System or constructs a new addition to the Gathering System, whether pursuant to Article 2 or otherwise, the
Resource Entities agree to cause a wholly-owned corporate subsidiary of Atlas Operating to provide to the MLP oversight of construction management in connection with any such expansion as requested by the MLP. The MLP shall pay all third party
construction costs related to any such expansion directly to the service provider for the construction services related thereto. 
 6.
Other Terms of the Omnibus Agreement. Except as otherwise expressly provided herein, the Omnibus Agreement is not amended, modified or affected by this Amendment. 
 7. Counterparts. This Amendment may be executed in any number of counterparts and by different parties hereto in separate counterparts, each of which when so executed and delivered shall be deemed to be an
original and all of which taken together shall constitute but one and the same instrument. Delivery of an executed counterpart of this Amendment by facsimile shall be equally as effective as delivery of a manually executed counterpart of this
Amendment. 
  

 3 

 IN WITNESS WHEREOF, the parties have executed this Amendment to be effective as of the date first
written above. 
  

			
	Shipper:
	
	ATLAS AMERICA, INC.
		
	By:	 	  

	Name:	 	
	Its:	 	

  

			
	ATLAS ENERGY RESOURCES, LLC
		
	By:	 	  

	Name:	 	
	Its:	 	

  

			
	ATLAS ENERGY OPERATING COMPANY, LLC
		
	By:	 	Atlas Energy Resources, LLC, its sole member
		
	By:	 	  

	Name:	 	
	Its:	 	

  

			
	RESOURCE ENERGY, LLC
		
	By:	 	Atlas Energy Operating Company, LLC, its sole member
		
	By:	 	Atlas Energy Resources, LLC, its sole member
		
	By:	 	  

	Name:	 	
	Its:	 	

  

 4 

			
	VIKING RESOURCES, LLC
		
	By:	 	Atlas Energy Operating Company, LLC, its sole member
		
	By:	 	Atlas Energy Resources, LLC, its sole member
		
	By:	 	  

	Name:	 	
	Its:	 	

  

			
	Gatherer:
	
	ATLAS PIPELINE OPERATING PARTNERSHIP, L.P.
		
	By:	 	Atlas Pipeline Partners GP, LLC, its general partner
		
	By:	 	  

	Name:	 	
	Its:	 	

  

			
	ATLAS PIPELINE PARTNERS, L.P.
		
	By:	 	Atlas Pipeline Partners GP, LLC, its general partner
		
	By:	 	  

	Name:	 	
	Its:	 	

  

 5

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