EXPIRED
Membrane Protein Production and Structure Determination
RFA Number: RFA-RM-04-026
Key Dates
Release Date: October 21, 2004
Letters Of Intent Receipt Date(s): December 23, 2004
Application Receipt Dates(s): January 24, 2005
Peer Review Date(s): June/July, 2005
Council Review Date(s): September, 2005
Earliest Anticipated Start Date: September, 2005
Additional Information To Be Available Date (Url Activation Date): None anticipated.
Expiration Date: January 25, 2005
Due Dates for E.O. 12372
Not Applicable
Executive Summary
This RFA solicits applications to enhance the rate of membrane protein structure determination and to facilitate the determination of membrane protein structures. Methods development for expression, oligomerization, solubilization, stabilization, purification, characterization, crystallization, isotopic labeling of membrane proteins, and for determination of their structures by electron microscopic, x-ray diffraction, nuclear magnetic resonance (NMR) and mass spectrometry, and other biophysical techniques are emphasized.
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Table of Contents
Part I Overview Information
Part II Full Text of Announcement
Section I. Funding Opportunity Description
1. Research Objectives
Section II. Award Information
1. Mechanism(s) of Support
2. Funds Available
Section III. Eligibility Information
1. Eligible Applicants
A. Eligible Institutions
B. Eligible Individuals
2.Cost Sharing
3. Other - Special Eligibility Criteria
Section IV. Application and Submission Information
1. Address to Request Application Information
2. Content and Form of Application Submission
3. Submission Dates
A. Receipt and Review and Anticipated Start Dates
1. Letter of Intent
B. Sending an Application to the NIH
C. Application Processing
4. Intergovernmental Review
5. Funding Restrictions
6. Other Submission Requirements
Section V. Application Review Information
1. Criteria
2. Review and Selection Process
3. Merit Review Criteria
A. Additional Review Criteria
B. Additional Review Considerations
C. Sharing Research Data
D. Sharing Research Resources
Section VI. Award Administration Information
1. Award Notices
2. Administrative Requirements
A. Cooperative Agreement Terms and Conditions of Award
1. Principal Investigator Rights and Responsibilities
2. NIH Responsibilities
3. Collaborative Responsibilities
4. Arbitration Process
3. Award Criteria
4. Reporting
Section VII. Agency Contact(s)
1. Scientific/Research Contact(s)
2. Peer Review Contact(s)
3. Financial/ Grants Management Contact(s)
Section VIII. Other Information - Required Federal Citations
Part II - Full Text of Announcement
Section I. Funding Opportunity Description
Purpose:
The purpose of this Request for Applications (RFA) is to solicit applications that will lead to an increased knowledge of membrane protein structures. In contrast to the remarkable advances that have been made in the understanding of soluble proteins, understanding of the structure, function, and mechanisms of integral membrane proteins has been limited by the paucity of available high resolution structures. Applications are requested for the development of innovative methods for production of membrane proteins, production of proteins in sufficient quantities for study, and structural studies of membrane proteins. Novel approaches to cloning, expression, oligomeric assembly, solubilization, stabilization and purification of membrane proteins are needed to advance the production of structurally and functionally intact membrane proteins suitable for structural studies. Innovations are also needed in methods for structure determination, including crystallization, phasing, isotopic labeling, and collection of x-ray crystallographic, nuclear magnetic resonance (NMR), and other relevant data. In addition to methods development projects, applications to obtain preliminary data in support of regular investigator-initiated research projects and to conduct structural studies of integral membrane proteins may be submitted.
Background:
Membrane proteins play a crucial role in many cellular and physiological processes. They are essential mediators of material and information transfer between cells and their environment, between compartments within cells, and between compartments comprising the organ systems. Functionally normal membrane proteins are vital to health, and specific defects are associated with many known disease states. Membrane proteins are the targets of a large number of pharmacologically and toxicologically active substances and are responsible, in part, for their uptake, metabolism, and clearance.
Considerable research is ongoing in the area of membrane protein structure and function, yet relatively few investigators have applied the techniques of x-ray crystallography, electron diffraction, or NMR spectroscopy to study directly the structures of their proteins. During the past decade, approximately 80 unique membrane protein structures have been solved, and each structure has made a major contribution in its area of science. (See http://blanco.biomol.uci.edu/Membrane_Proteins_xtal.html and/or http://www.mpibp-frankfurt.mpg.de/michel/public/memprotstruct.html.) This progress clearly demonstrates that obtaining membrane protein structures is feasible. However, during this same decade the rate of soluble protein structure determination has accelerated greatly, and there remains a gap between the understanding of membrane proteins and their soluble protein counterparts (1).
During the past ten years, NIH has stimulated work on membrane protein structures through a series of program announcements (2). This approach has been partially successful and additional NIH funding of this area has resulted. However, certain types of essential technology development and non-hypothesis-driven research have been only modestly supported. Until recently, specific funds have not been set aside for work on membrane proteins. In competition with traditional hypothesis-driven studies of biological mechanisms, applications for novel methods for production of suitable materials for structural studies and exploratory research to obtain preliminary structural data have had only modest success in peer review.
An increase in the number of known membrane protein structures will contribute to an enhanced understanding of many basic phenomena underlying cellular functions essential to human health. To address this and other difficult research problems, the NIH Director, Dr. Elias Zerhouni established the NIH Road Map process for program initiative prioritization (http://nihroadmap.nih.gov/). This process identified Structural Biology, especially the determination of membrane protein structures, as a major area for additional investment.
The Structural Biology Road Map process has been critical in creating a specific set-aside of funds dedicated to membrane protein structural studies. As a result, an RFA was issued in FY04 that solicited applications to establish Centers for Innovation in Membrane Protein Production (3). A reasonable number of applications was received, and two Centers will be funded in late FY04. This solicitation is intended to complement these Centers and to encourage novel investigator-initiated ideas through smaller scale activities such as exploratory studies for high-risk research, regular research projects, and program projects. Furthermore, although production of protein is a key limiting step in the solution of membrane protein structures, it is not the only problematic step. Therefore, this RFA has been broadened to include all activities necessary to produce high-resolution structural models of membrane proteins.
Suggested research topics include, but are not limited to:
In addition to encouraging the development of new methods, this RFA also seeks to support new efforts to accomplish the solution of membrane protein structures at atomic resolution.
Scientific Personnel and Community Development Objectives:
It is expected that many of the projects will be collaborative efforts between chemists, biochemists, molecular biologists, and biophysicists with expertise in the synthesis of probes, novel solubilizing and stabilizing reagents; in cloning and expression; in the isolation and characterization of membrane-bound proteins; and in x-ray crystallography, NMR, and other structural methods. A major aim of this RFA is to stimulate such multidisciplinary collaborations. A further aim is to encourage additional investigators, particularly new investigators, to begin work in this area.
The focus on innovation in protein production and determination of integral membrane protein structures supported by this RFA will complement other efforts underway to understand the structures of all proteins. A major activity in this regard is the Protein Structure Initiative or PSI (4). The PSI Centers are expected to solve large numbers of protein structures in a high-throughput fashion, but membrane proteins are not currently amenable to high throughput efforts. The above mentioned NIH Roadmap Centers for Innovation in Membrane Protein Production are intended to address part of this problem. Another complementary effort is the recently issued RFA that solicits applications to establish Specialized Centers for Protein Structure Initiative (5). These Centers will focus on challenging proteins that are not currently amenable to high throughput and therefore represent major bottlenecks of the structural genomics pipeline. The Specialized Centers are expected to develop methods that will lead to the production and structure determination of significant numbers of these proteins, especially in the later years of the project.
All three types of centers (the PSI centers, the Specialized Centers, and the Centers for Innovation in Membrane Protein Production) include information and material sharing activities. They also have mechanisms for providing access to unique facilities and expertise to the broader scientific community. They are intended to nucleate efforts for the entire field of protein structure. Investigators may wish to contact the center directors to see how their work could interface with the activity of the centers.
Investigators are reminded that in addition to this RFA, NIH also seeks to support research on membrane protein structure through the Structural Biology of Membrane Proteins Program Announcement PA-02-060. See: http://grants.nih.gov/grants/guide/pa-files/PA-02-060.html
Eligible small businesses, with or without academic collaborators, may also wish to consider applying for support through the Structural Biology of Membrane Proteins SBIR/STTR Announcement PA-02-108. See: http://grants.nih.gov/grants/guide/pa-files/PA-02-108.html
References:
(1) The progress of membrane protein structure determination. Stephen H. White, Protein Science (2004), 13:1948 1949.
(2) Structural Biology of Membrane Proteins Program Announcements (PA-95-035, PA-99-004, PA-02-060) and Structural Biology of Membrane Proteins SBIR/STTR Announcement (PA-02-108). See NIH Guide: http://grants.nih.gov/grants/guide/pa-files/.
(3) Centers for Innovation in Membrane Protein Production (RFA-RM-04-009). See: http://grants1.nih.gov/grants/guide/rfa-files/RFA-RM-04-009.html.
(4) Protein Structure Initiative. See: http://www.nigms.nih.gov/psi/.
(5) Specialized Centers for the Protein Structure Initiative (RFA-GM-05-002). See: http://grants2.nih.gov/grants/guide/rfa-files/RFA-GM-05-002.html.
1. Mechanism(s) of Support 1. Eligible Applicants
1.A. Eligible Institutions
You may submit (an) application(s) if your organization has any of the following characteristics:
All application mechanisms may include consortium arrangements involving foreign institutions, but the parent project must be submitted by a domestic organization. NIH components may be included in subprojects and collaborations, but grant funds cannot be awarded to NIH components or transferred to intramural investigators and laboratories.
1.B. Eligible Individuals
Any individual with the skills, knowledge, and resources necessary to carry out the proposed research is invited to work with their institution to develop an application for support. Individuals from underrepresented racial and ethnic groups as well as individuals with disabilities are always encouraged to apply for NIH programs.
2. Cost Sharing
Cost sharing is not required.
3. Other-Special Eligibility Criteria
None
Section IV. Application and Submission Information
3.A.1. Letter of Intent
Prospective applicants are asked to submit a letter of intent that includes the following information:
Although a letter of intent is not required, is not binding, and does not enter into the review of a subsequent application, the information that it contains allows IC staff to estimate the potential review workload and plan the review.
The letter of intent is to be sent by the date listed at the beginning of this document.
The letter of intent should be sent to:
John C. Norvell, Ph.D.
Division of Cell Biology and Biophysics
National Institute of General Medical Sciences
Building 45, Room 2AS.13B, MSC 6200
Bethesda, MD 20892-6200
Telephone: (301) 594-0533
FAX: (301) 480-2004
Email: norvellj@nigms.nih.gov
3.B. Sending an Application to the NIH
Applications must be prepared using the PHS 398 research grant application instructions and forms as described above. Submit a signed, typewritten original of the application, including the checklist, and three signed photocopies in one package to:
Center for Scientific Review
National Institutes of Health
6701 Rockledge Drive, Room 1040, MSC 7710
Bethesda, MD 20892-7710 (U.S. Postal Service Express or regular mail)
Bethesda, MD 20817 (for express/courier service; non-USPS service)
At the time of submission, two additional copies of the application and all copies of the appendix material must be sent to:
Dr. Helen R. Sunshine, Chief
Office of Scientific Review
National Institute of General Medical Sciences
45 Center Drive, MSC 6200
Building 45, Room Number 3AN.12F
Bethesda, MD 20892-6200
Telephone: (301) 594-2881
FAX: (301) 480-8506
Email: sunshinh@nigms.nih.gov
Using the RFA Label: The RFA label available in the PHS 398 application instructions must be affixed to the bottom of the face page of the application. Type the RFA number on the label. Failure to use this label could result in delayed processing of the application such that it may not reach the review committee in time for review. In addition, the RFA title and number must be typed on line 2 of the face page of the application form and the YES box must be marked. The RFA label is also available at: http://grants.nih.gov/grants/funding/phs398/label-bk.pdf.
3.C. Application Processing
Applications must be received on or before the application receipt date listed in the heading of this RFA. If an application is received after that date, it will be returned to the applicant without review.
The NIH will not accept any application in response to this RFA that is essentially the same as one currently pending initial review, unless the applicant withdraws the pending application. However, when a previously unfunded application, originally submitted as an investigator-initiated application, is to be submitted in response to an RFA, it is to be prepared as a NEW application. That is, the application for the RFA must not include an Introduction describing the changes and improvements made, and the text must not be marked to indicate the changes from the previous unfunded version of the application.
Although there is no immediate acknowledgement of the receipt of an application, applicants are generally notified of the review and funding assignment within eight (8) weeks.
4. Intergovernmental Review
This initiative is not subject to intergovernmental review.
5. Funding Restrictions
All awards are subject to the terms and conditions, cost principles, and other considerations described in the NIH Grants Policy Statement. The Grants Policy Statement can be found at http://grants.nih.gov/grants/policy/policy.htm (see also Section VI.3. Award Criteria).
6. Other Submission Requirements
Applications requesting up to $250,000 per year in direct costs must be submitted in a modular budget format. The modular budget format simplifies the preparation of the budget in these applications by limiting the level of budgetary detail. Applicants request direct costs in $25,000 modules. Section C of the research grant application instructions for the PHS 398 (rev. 5/2001) at http://grants.nih.gov/grants/funding/phs398/phs398.html includes step-by-step guidance for preparing modular budgets. Additional information on modular budgets is available at http://grants.nih.gov/grants/funding/modular/modular.htm.
Plan for Sharing Research Data
The precise content of the data-sharing plan will vary, depending on the data being collected and how the investigator is planning to share the data. Applicants who are planning to share data may wish to describe briefly the expected schedule for data sharing; the format of the final dataset; the documentation to be provided; whether or not any analytic tools also will be provided; whether or not a data-sharing agreement will be required and, if so, a brief description of such an agreement (including the criteria for deciding who can receive the data and whether or not any conditions will be placed on their use); and the mode of data sharing (e.g., under their own auspices by mailing a disk or posting data on their institutional or personal website, through a data archive or enclave). Investigators choosing to share under their own auspices may wish to enter into a data-sharing agreement. Applicants are encouraged to consider depositing data into databases that evolve as activities of the Centers for Innovation in Membrane Protein Production and Specialized Centers for the Protein Structure Initiative. All applicants must include a plan for sharing research data in their application. The data sharing policy is available at http://grants.nih.gov/grants/policy/data_sharing. All investigators responding to this funding opportunity should include a description of how final research data will be shared, or explain why data sharing is not possible. References to data sharing may also be appropriate in other sections of the application.
The reasonableness of the data sharing plan or the rationale for not sharing research data will be assessed by the reviewers. However, reviewers will not factor the proposed data sharing plan into the determination of scientific merit or the priority score.
Sharing Research Resources
NIH policy requires that grant awardee recipients make unique research resources readily available for research purposes to qualified individuals within the scientific community after publication (NIH Grants Policy Statement http://grants.nih.gov/grants/policy/nihgps and http://www.ott.nih.gov/policy/rt_guide_final.html). Investigators responding to this funding opportunity should include a plan for sharing research resources addressing how unique research resources will be shared or explain why sharing is not possible.
The adequacy of the data sharing plan and the resources sharing plan will be considered by Program staff of the funding organization when making recommendations about funding applications. The effectiveness of the resource sharing will be evaluated as part of the administrative review of each non-competing Grant Progress Report (PHS 2590). See Section VI.3. Award Criteria.
Participation in Annual Meetings
Applicants are encouraged to plan for participation in annual meetings of the community researchers pursuing membrane protein structures through Roadmap funded initiatives. Funds to support the required travel should be requested.Section V. Application Review Information
1. Criteria
See review and award criteria below.
2. Review and Selection Process
Upon receipt, applications will be reviewed for completeness by the CSR and responsiveness by NIGMS. Incomplete applications will not be reviewed.
As part of the initial merit review, all applications will:
3. Merit Review Criteria
The goals of NIH‑supported research are to advance our understanding of biological systems, to improve the control of disease, and to enhance health. In their written critiques, reviewers will be asked to comment on each of the following criteria in order to judge the likelihood that the proposed research will have a substantial impact on the pursuit of these goals. Each of these criteria will be addressed and considered in assigning the overall score, weighting them as appropriate for each application. Note that an application does not need to be strong in all categories to be judged likely to have major scientific impact and thus deserve a high priority score. For example, an investigator may propose to carry out important work that by its nature is not innovative but is essential to move a field forward.
1. Significance. Does this study address an important problem? If the aims of the application are achieved, how will scientific knowledge or clinical practice be advanced? What will be the effect of these studies on the concepts, methods, technologies, treatments, services, or preventative interventions that drive this field?
2. Approach. Are the conceptual or clinical framework, design, methods, and analyses adequately developed, well integrated, well reasoned, and appropriate to the aims of the project? Does the applicant acknowledge potential problem areas and consider alternative tactics?
3. Innovation. Is the project original and innovative? For example: Does the project challenge existing paradigms or clinical practice; address an innovative hypothesis or critical barrier to progress in the field? Does the project develop or employ novel concepts, approaches, methodologies, tools, or technologies for this area?
4. Investigators. Are the investigators appropriately trained and well suited to carry out this work? Is the work proposed appropriate to the experience level of the principal investigator and other researchers? Does the investigative team bring complementary and integrated expertise to the project (if applicable)?
5. Environment. Does the scientific environment in which the work will be done contribute to the probability of success? Do the proposed studies benefit from unique features of the scientific environment, or subject populations, or employ useful collaborative arrangements? Is there evidence of institutional support?
3.A. Additional Review Criteria:
In addition to the above criteria, the following items will be considered in the determination of scientific merit and the priority score:
Protection of Human Subjects from Research Risk : The involvement of human subjects and protections from research risk relating to their participation in the proposed research will be assessed (see the Research Plan, Section E on Human Subjects in the PHS Form 398).
Inclusion of Women, Minorities and Children in Research: The adequacy of plans to include subjects from both genders, all racial and ethnic groups (and subgroups), and children as appropriate for the scientific goals of the research will be assessed. Plans for the recruitment and retention of subjects will also be evaluated (see the Research Plan, Section E on Human Subjects in the PHS Form 398).
Care and Use of Vertebrate Animals in Research: If vertebrate animals are to be used in the project, the five items described under Section F of the PHS Form 398 research grant application instructions will be assessed.
3.B. Additional Review Considerations
Budget: The reasonableness of the proposed budget and the requested period of support in relation to the proposed research. The priority score should not be affected by the evaluation of the budget.
3.C. Sharing Research Data
Data Sharing Plan: The reasonableness of the data sharing plan or the rationale for not sharing research data will be assessed by the reviewers. However, reviewers will not factor the proposed data sharing plan into the determination of scientific merit or the priority score. The presence of a data sharing plan will be part of the terms and conditions of the award. The funding organization will be responsible for monitoring the data sharing policy.
3.D. Sharing Research Resources
NIH policy requires that grant awardee recipients make unique research resources readily available for research purposes to qualified individuals within the scientific community after publication. NIH Grants Policy Statement http://grants.nih.gov/grants/policy/nihgps and http://www.ott.nih.gov/policy/rt_guide_final.html. Investigators responding to this funding opportunity should include a sharing research resources plan addressing how unique research resources will be shared or explain why sharing is not possible
The adequacy of the resources sharing plan will be considered by Program staff of the funding organization when making recommendations about funding applications. Program staff may negotiate modifications of the data and resource sharing plans with the Principal Investigator before recommending funding of an application. The final version of the data and resource sharing plans negotiated by both will become a condition of the award of the grant. The effectiveness of the resource sharing will be evaluated as part of the administrative review of each non-competing Grant Progress Report (PHS 2590). See Section VI.3. Award Criteria.
Section VI. Award Administration Information
The Notice of Grant Award will be sent by Email to the organizational business official indicated on the face page of the application.
2. Administrative Requirements
All NIH grant and cooperative agreement awards include the NIH Grants Policy Statement as part of the notice of grant award. For these terms of award, see the NIH Grants Policy Statement Part II: Terms and Conditions of NIH Grant Awards, Subpart A: General (http://grants.nih.gov/grants/policy/nihgps_2003/NIHGPS_Part4.htm) and Part II Terms and Conditions of NIH Grant Awards, Subpart B: Terms and Conditions for Specific Types of Grants, Grantees, and Activities (http://grants.nih.gov/grants/policy/nihgps_2003/NIHGPS_part9.htm).
3. Award Criteria
The following will be considered in making funding decisions:
4. Reporting
Awardees will be required to submit the PHS Non-Competing Grant Progress Report, Form 2590 annually (http://grants.nih.gov/grants/funding/2590/2590.htm) and financial statements as required in the NIH Grants Policy Statement.
5. Program Evaluation
NIH plans to assess Roadmap related activities in the future and may independently of this announcement contact awardees regarding the activities conducted under awards made under this RFA.
We encourage your inquiries concerning this funding opportunity and welcome the opportunity to answer questions from potential applicants. Inquiries may fall into three areas: scientific/research, peer review, and financial or grants management issues: 1. Scientific/Research Contacts:
John C. Norvell, Ph.D.
Division of Cell Biology and Biophysics
National Institute of General Medical Sciences
Building 45, Room 2AS.13B, MSC 6200
Bethesda, MD 20892-6200
Telephone: (301) 594-0533
FAX: (301) 480-2004
Email: norvellj@nigms.nih.gov
2. Peer Review Contacts:
Dr. Helen R. Sunshine, Chief
Office of Scientific Review
National Institute of General Medical Sciences
45 Center Drive, MSC 6200
Building 45, Room Number 3AN.12F
Bethesda, MD 20892-6200
Telephone: (301) 594-2881
FAX: (301) 480-8506
Email: sunshinh@nigms.nih.gov
3. Financial or Grants Management Contacts:
Ms. Grace Olascoaga
Division of Extramural Activities
National Institute of General Medical Sciences
Building 45, Room 2AN.32E, MSC 6200
Bethesda, MD 20892-6200
Telephone: (301) 594-5520
FAX: (301) 480-2554
Email: olascoag@nigms.nih.gov
Section VIII. Other Information
Weekly TOC for this Announcement
NIH Funding Opportunities and Notices
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