Protein Science

Cover image for Vol. 24 Issue 8

Edited By: Brian W. Matthews

Impact Factor: 2.854

ISI Journal Citation Reports © Ranking: 2014: 136/289 (Biochemistry & Molecular Biology)

Online ISSN: 1469-896X

Author Guidelines


Please note : Effective with the January 2014 issue, this journal is now published in an online-only format.

Articles Published
Review of Manuscripts
Originality, Copyright, and Conflict of Interest
Manuscript Submission and Formatting
Submission of Revised and/or Accepted Manuscripts
Manuscript Elements and Order
1. Title Page
2. Abstract and keywords
3. Abbreviations and symbols
4. Introduction
5. Results
6. Discussion
7. Materials and Methods (Note: This section follows Discussion section!)
8. Supplementary Material
9. Acknowledgments
10. References
11. Tables
12. Figure Legends
13. Figures (artwork)
14. Cover Art
15. Submission of Figures: Detailed Instructions
16. Supplementary Material
17. Data Deposition Requirements: Protein and Nucleic Acid Sequences and Coordinates
Copyediting and Page Proofs
Publication Charges and Color Charges
Funded Access Option
Checklist for Manuscript Submission and Supplementary Material

Protein Science serves as an international forum for publishing original reports on proteins in the broadest sense. The journal aims to unify this field by cutting across established disciplinary lines and focusing on “protein-centered” science.

Protein Science encompasses the structure, function, and biochemical significance of proteins; their role in molecular and cell biology, genetics, and evolution; and their regulation and mechanisms of action. Representative topics include, but are not limited to, the structure of proteins and strategies of determining protein structure by chemical, biophysical, and recombinant methods; peptides; protein domains; protein folding and molecular dynamics; novel isolation procedures; enzyme action and regulation; interactions of proteins with nucleic acids, lipids, ligands, and other proteins; receptor-mediated signal transduction and other trans-membrane phenomena; the functions of proteins in replication, supramolecular assembly, immune reactions, development, and other biological processes; protein trafficking, synthesis, and sorting; and the recognition, localization, and signaling of proteins. In addition to the investigative techniques already mentioned, the journal will publish results of protein-centered work involving sequencing, modification, and mass spectrometry; cDNA, mutagenesis, and cloning; computational analysis; isolation and characterization; thermodynamics and hydrodynamics; kinetics; and equilibrium phenomena. Reports on the crystallization of proteins must provide novel information of general interest. Examples of novel information may include new approaches to expression or isolation of proteins in a form amenable to crystallization, novel conditions for crystallization that may be employed for other proteins, or new information related to the function of the protein. Research articles on computational or theoretical investigations on protein structure or function are encouraged. The article should be of general interest to the Protein Science community, and report results with a clear connection to a significant biological problem. The conclusions or predictions must be testable by a feasible experiment. Articles reporting new approaches to predict biologically relevant properties are encouraged; modifications of current algorithms without indication of significant improvements are not acceptable. Applications of molecular dynamics, homology modeling and other generally available program packages will not receive editorial support unless they provide biological insights which are clearly novel, and lead to experimentally testable hypotheses. Authors proposing predictive methods based e.g. on amino acid composition, or sequence, or 3D structure, are generally expected to make such methods available via a publicly accessible web server.

A primary consideration in judging the suitability of a manuscript is its originality and timeliness, the lack of which will be grounds for rejection, even if the work is well done from a technical perspective. Because judgments of originality and interest are inherently subjective, this policy implies that the editors and reviewers reserve the prerogative to decline publication on these grounds.

Protein Science publishes full-length original research papers as well as several other types of articles.

A.) Full-Length Articles must report new findings that lead to significant advances in our understanding of the proteins of interest. The investigation should be at a point at which the major objectives have been accomplished and the findings can be convincingly presented in a concise article. Only the definitive evidence required to support the authors’ points should be presented; lengthy supporting data, if needed, should be included as Supplementary Material. Since Protein Science has contractual limitations on the volume of content published each year, it is very important that the articles be as concise as possible. Published full-length articles should not exceed about 5,000 words of text and include no more than a total of 10 display items (figures, tables, etc.). This corresponds to a submitted double-spaced manuscript with references, tables and figures not exceeding 30 pages.
B.) Accelerated Communications are intended to provide an outlet for brief research articles of exceptional importance and timeliness. The criteria for acceptance will be considerably more stringent than for full-length articles, and there will be a limit of 2,500 words in the body of the manuscript plus a maximum of four display items (figures, tables, etc.). The work must be complete and stand on its own merits. Accelerated Communications will be reviewed by one of the Editors and a member of the Editorial Advisory Board; every effort will be made to reach a decision within three weeks. The decision will be Accept or Reject (except for minor corrections), and accepted articles will be published in the next available issue of the journal. Manuscripts that exceed the size limits will be returned without review. The format may be continuous prose or divided into the traditional sections. All other procedures will be according to the Instructions for Authors.
C.) Methods and Applications describe new methods and approaches that are expected to have broad applicability in understanding various aspects of protein structure and function. Reports could, for example, describe methods related to protein engineering or protein purification or protein characterization or protein folding, or methods for structure determination and analysis by a variety of different techniques. The main requirement is that the work be novel and of broad applicability to protein science. The utility of the new method should be illustrated by specific examples. If the work includes the use of novel computational procedures then the related software should be available from a specified website or sufficient information about the new algorithm should be provided so that the results reported could be reproduced by an expert in the field. The format of the manuscript will be the same as for a Full-Length Article.
D.) Protein Structure Reports are brief descriptions of new protein structures. The complete submitted manuscript should be limited to approximately 1,800 words and should include no more than three display items (figures, tables, etc.). As is the case for all articles published in Protein Science, Protein Structure Reports will be expected to include either novel biological or structural insights, or information that will be of interest to the readership of the journal. Because these articles will be very concise, the criteria may be relaxed somewhat relative to those that apply to Full-Length Articles. In this context, authors may choose to describe several structures in a single report, in which case the relevance of the group as a whole can be taken into consideration. In submitting multi-structure reports authors will be given discretion in including additional figures and text. Reports should contain a short abstract and keywords. Introductory and background material should be kept as brief as possible. Results and Discussion sections can be separate or combined. The Reports will typically include two figures and one table. One of the figures will be a stereo diagram showing the overall fold of the protein. Residue numbering will be included so that the path of the chain can be readily followed. For structures determined by NMR, this figure should show an ensemble of approximately 20 independently-derived backbone structures. The second, optional, figure may highlight a biologically-relevant or other interesting aspect of the structure. For structures determined by X-ray crystallography, the table will present data collection and refinement statistics, including the resolution and completeness of the data with agreement between equivalent intensity measurements. Statistics for the outer shell of data will also be given. The number of residues included in the refinement will be stated together with the number of solvent molecules, bound ions, and the like. Average B-factors for protein, solvent, and other atoms should be quoted. Values of the crystallographic R-factor and Rfree will be stated together with the discrepancy of the model from expected stereochemistry. The distribution of the Ramachandran angles among the categories defined by Laskowski et al. [Laskowski, R.A., MacArthur, M.W., Moss, D.S., and Thornton, J.M. (1993) J. Appl. Cryst. 26: 283-291] should be stated. For structures determined by NMR the number of distance or other restraints should be given together with the average departure from the value of the restraint. The discrepancies of the average structure from idealized geometry should also be summarized together with the distribution of the Ramachandran angles.
E.) For the Record articles are intended to enable the publication of an interesting and important observation that should be in the literature. Articles reporting “one experiment” that are clearly part of a larger investigation are not appropriate. Similarly, success with a procedure that is not guaranteed to produce results (e.g., crystallization of a protein) is not appropriate unless the authors have employed novel approaches that will be applicable to other systems and thus of interest to a broader audience. The information must stand on its own merits. Manuscripts submitted to “For the Record” should contain a short abstract and keywords, and introduction and discussion sections (separate or combined) and should not exceed 2,500 words in length. A single illustration conveying essential information, such as a protein sequence, is encouraged.
F.) Reviews are intended to familiarize the general reader with the current status and future trends of rapidly evolving topics of current interest. Authors interested in submitting a Review should first send a letter of inquiry stating the title, scope, and tentative outline of the proposed article. We aim for an average length for Review articles of about 5,000 words and more concise manuscripts are encouraged (i.e. the complete submitted manuscript including figures and double-space text not to exceed about 30 pages). Reviews may also be solicited by the editorial staff. Reviews should include an Abstract of no more than 250 words and four to six keywords or short phrases for indexing. Reviews will be subject to evaluation similar to that for other contributions. Publication charges are waived for invited reviews.
G.) Recollections (usually by invitation) are historical reviews that are intended to give an overview of how the understanding of an interesting topic in Protein Science developed, including protein structure, protein properties, and general or specific biological roles of proteins. A contribution may be based largely on personal participation in research or may give a perspective of how knowledge in an area developed. The anecdotal accounts are intended to give insight and background usually lacking in conventional scientific papers. They may have an autobiographical flavor. Recollections can vary in length, with no specified format other than that a title, author’s name and affiliation, and a brief biographical sketch should be included. Usually figures and tables are not necessary but if included should have titles and legends. Inclusion of a few selected references is optional. One or more photographs may add interest. If a photograph has been previously published, written permission for its use must be included.
H.) Letters to the Editor are typically used to comment on articles recently published in the journal. They are usually short, do not include an abstract, and can include a figure or table to display essential information. When Protein Science receives a Letter to the Editor that relates to a published article, the authors of the article are sent a copy of the letter and invited to provide a response. The Letter and the Response are then sent to appropriate reviewers to determine if publication is justified. When a Letter and a Response are accepted, they are published as submitted, i.e. without revision.

Every effort will be made to decide whether the paper is appropriate for review within one week. Papers considered confirmatory or lacking sufficient originality will be returned without review. Most papers considered appropriate will be reviewed by at least two independent reviewers, one of whom may be a member of the Editorial Advisory Board. The Editor and/or the Associate Editors will make a final selection of reviewers. If the reviewers disagree, or if in the judgment of the Editors the manuscript has not received adequate consideration, the manuscript and the reviewers' opinions may be submitted to a member of the Editorial Advisory Board for arbitration. Editorial decisions that result from this process are usually final. The inability to identify referees willing to review a manuscript may be considered grounds for rejection.

One condition of publication is that all manuscripts submitted to Protein Science have not been published previously nor are they under consideration for publication elsewhere. Electronic publication open to viewers by subscription or by unrestricted access to a website is considered prior publication with the exception of dissertations mounted in electronic format by the library system of the degree-granting institution. Papers involving multiple authorship are reviewed with the understanding that all authors have approved the final submitted manuscript and concur in its submission to Protein Science.
In the interests of candor and to help readers to detect potential bias, we now require authors of original research papers to declare any competing interests in relation to papers accepted for publication. Please submit one statement on behalf of all authors. Competing interests are defined as those that, through their potential influences on behavior or content or from perception of such potential influences, could undermine the objectivity, integrity or perceived value of a publication, or could embarrass the authors or the journal. They include, but are not limited to, any of the following:
Funding: Support for a research program (including salaries, equipment, supplies, reimbursement for attending symposia, and other expenses) by organizations that may gain or lose financially through publication of this paper.
Employment: Recent (i.e., while engaged in this research project), present, or anticipated employment by any organization that may gain or lose financially through publication of this paper.
Personal financial interests: Stocks or shares in companies that may gain or lose financially through publication; consultation fees or other forms of remuneration from organizations that may gain or lose financially; patents or patent applications whose value may be affected by publication.
It is difficult to specify a threshold at which a financial interest becomes significant, although we note that many US universities require faculty members to disclose interests exceeding 5% equity in a company.
We do not consider diversified mutual funds or investment trusts to constitute a competing financial interest.
We do not require authors to state the monetary value of their financial interests.

Online manuscript submission. All Protein Science manuscripts must be submitted online via at the Protein Science ScholarOne Manuscripts site: Please do not submit hard copies. To find out if you have already created an account in ScholarOne Manuscripts, enter your e-mail address in the "Password Help" field.
If you are submitting an article for the first time and/or do not have an existing account, carefully review the instructions posted under the heading "Resources" on the upper right hand side of the login page; then click "Create Account" in the top right corner of the screen. At the end of a successful submission, a confirmation screen with a manuscript number will appear and you will receive an e-mail confirming the manuscript has been received by the journal.
If you receive no confirmation, or if you experience technical difficulties during the submission process, click the "Get Help Now" link at the top-right corner of the login page.

Information with submission. Each manuscript must be accompanied by a submission letter, copies of any related papers by the authors that are either submitted or in press, and the full names and E-mail addresses of at least six qualified reviewers. These reviewers should have expertise in the subject to review and should be chosen to avoid any potential conflict of interest (e.g. they should not have been coauthors or collaborators during the past five years). Authors may disqualify up to two potential reviewers. Authors are not required to be members of The Protein Society.
At the time of submission, you will be asked to provide a 50-75 word statement outlining the importance and/or impact of the work presented in your manuscript to a broader audience. If your manuscript is accepted for publication in Protein Science, this brief summary may be used to prepare a highlight of your article to appear at the front of the issue of publication describing noteworthy papers 'In This Issue.'

Formatting. Please submit your manuscript as a Word file or LaTeX file (for text and tables) and TIFF or EPS (for figures). Other file types are not suitable for production. Please note that ScholarOne Manuscripts does not accept a single file upload from the author. Text, tables, and figures will need to be uploaded individually. Do not embed figures or tables in the document.
Manuscripts must be written in clear and concise English with double line spacing throughout (including the title page, references, tables, and figure captions) and at least 1" (25mm) margins on all sides. All pages must be numbered. A standard 12-point font should be used throughout. Please do not use any foreign language fonts (i.e., Chinese, Japanese) in the manuscript as they will not display properly. Do not use word hyphenation or text justification options.

Instructions for Submitting LaTeX Files

1. Submit a single, complete PDF file of your manuscript designated as "Supplementary Material for Review" in the File Type field on ScholarOne Manuscripts.
2. All source files must be uploaded as "Supplementary Material Not for Review."

a. Submit your source file in LaTeX format as a single file.
b. Submit figure and table files separately. Figure files must be named according to figure number.
c. Follow resolution and formatting guidelines for figures as indicated above.
d. Tables should be saved in either .DOC or .RTF format.
e. Do not embed tables in the text file.
f. Bibliography Style: Use \cite{} to cite \ bibitem{} listed in the reference list.

Correspondence: For submitted manuscripts, communication with the Editor will normally be via the online manuscript management system. Correspondence can also be sent to:

Brian Matthews, Editor
Protein Science
Institute of Molecular Biology
1229 University of Oregon
1370 Franklin Boulevard
Eugene, OR 97403-1229, USA
Telephone: (541) 346-2572
Facsimile: (541) 346-5870

To streamline the entire review and publication process, authors are urged to follow the same formatting instructions for initial submission as for revision. For math objects within final submissions, please note that before submitting your Word file, make sure to UPDATE any embedded MathType objects in the file; otherwise, italics and other font specs might be lost. Double-check your Word manuscript visually to ensure the accuracy of fonts within the Word file.
When a manuscript requires revision, the corresponding author should resubmit the revised manuscript to the Website within 30 days. Revisions returned after the requested period may be considered as new submissions.

Full-length Articles should be organized in the following way. If authors choose an alternate order, justification for doing so must be included in the cover letter. All manuscript pages must be consecutively numbered.
1. Title page. The title should be concise and informative, but should avoid the use of acronyms and abbreviations. Include (a) full article title; (b) names and affiliations of all authors (matched by superscript numbers); (c) name, mailing address, telephone number, fax number, and E-mail address of the corresponding author; (d) running title of 50 characters or less; (e) list of total number of manuscript pages, supplementary material pages, tables, and figures; and (f) a description of supplementary material including filenames.
2. Abstract and keywords. Include (a) an abstract of no more than 250 words, followed by (b) four to ten keywords or short phrases for indexing that reflect the content and major thrust of the paper, and (c) a 50-75-word statement, written for a broader audience, outlining the importance and/or impact of the work presented in the manuscript. The abstract should succinctly describe the objectives of the research, the experimental approach, and the major results and their significance. It must be self-explanatory and suitable for abstracting services such as Chemical Abstracts, Biosis, etc. Reference citations in the abstract should be avoided whenever possible and, if necessary, given in full. Avoid the use of abbreviations and acronyms in the abstract unless they are defined therein.
3. Abbreviations and symbols. Use standard abbreviations and acronyms and clearly define uncommon ones parenthetically within the text upon first appearance. The journal will accept standard Journal of Biological Chemistry abbreviations. If abbreviations are particularly complex or numerous, they may be collected into an abbreviations footnote, which will appear on the first or second page of the article. Greek symbols should be inserted directly from Word's "symbol insert" pulldown menu; equations/schemes should be inserted using MathType or Word's Equation Editor.
4. Introduction. The text of the paper begins on a new page. The Introduction should state the purpose of the investigation, the hypotheses tested, and the relationship to other work in the field. Avoid lengthy reviews of the literature.
5. Results. The results should be presented in a clear and concise manner, mentioning figures and tables that summarize or illustrate important findings.
6. Discussion. Briefly interpret the results and relate them to existing knowledge in the field, but do not merely restate the results or present reviews of the literature.
7. Materials and methods. Describe materials and methods briefly but in sufficient detail to allow others to repeat the experiments. Novel procedures should be described in detail, but published procedures should be referenced by a literature citation. If hazardous materials or dangerous procedures are employed, necessary precautions must be stated.
8. Supplementary material. Describe briefly the supplementary material that is intended to be available with the article. The names of all files should be given so that hyperlinks to them can be established.
9. Acknowledgments. Research grants or other funding (including grant or project numbers as appropriate) may be acknowledged, as may significant contributions of individuals providing scholarly, technical, or clerical assistance.
10. References. Authors are asked to avoid extensive references. Protein Science uses the CBE reference style, numbered consecutively in order of appearance, and should be as complete as possible. All references cited in the text must be included in the References section and vice versa. Titles of journal articles and book chapters must be included; journal titles are abbreviated according to Chemical Abstracts Service Source Index, 1985. Page numbers must be inclusive. If a pre-existing coordinate set is used either in the research or to produce a figure, its databank file code should be given either in the caption or the Materials and Methods section, in addition to whatever literature references may be appropriate.
Please prepare the References list according to the following examples.
1. King VM, Armstrong DM, Apps R, Trott JR (1998) Numerical aspects of pontine, lateral reticular, and inferior olivary projections to two paravermal cortical zones of the cat cerebellum. J Comp Neurol 390:537-551.
2. Voet D, Voet JG (1990) Biochemistry, John Wiley & Sons, New York.
Book Chapter:
3. Gilmor ML, Rouse ST, Heilman CJ, Nash NR, Levey AI, Receptor fusion proteins and analysis. In: Ariano MA, Ed. (1998) Receptor localization. Wiley-Liss, New York, pp 75-90.
Electronic Media:
4. Bio-Xplor, Version 1.0. New York: Biostructure Inc.; 1991.
Unpublished data and personal communications must be cited as such parenthetically in the text and must not appear in the References section. All citations of personal communications must be certified by letter from the communicating author.
Linking publish-ahead-of-print references. Authors can now have Medline links in their HTML references for citations that have only been published in EarlyView. Since EarlyView articles have PubMed records and a PubMed ID (PMID) is listed at the bottom of every PubMed record as the citation identifier, an author can include the PMID within their manuscript references as follows:
5. Wood CE, Appt SE, Clarkson TB, Franke AA, Lees CJ, Doerge DR, Cline JM. Effects of high-dose soy isoflavones and equol on reproductive tissues in female cynomolgus monkeys. PMID: 16723506 [Medline]
11. Tables. All tables must be cited in the text in numerical order and the approximate position of each indicated in the margin. Each table should be typed double-spaced on a separate page. Tables should be numbered consecutively with Roman numerals and grouped together after the References section. A short explanatory title, column headings, and (if necessary) footnotes should make the table intelligible without reference to the text. Vertical and diagonal rules should not be used in tables; instead, indentation and vertical or horizontal space should be used to group data. Large tables of an appendix nature may be considered as Supplementary Material. If tables are reprinted from another source or if data included are from another source, permission to reprint is required. We cannot use tables produced in Excel at this time. Please produce all tables in your word processing program and save your manuscript whenever possible.
12. Figure legends. Type all figure legends double-spaced. Figure legends should be brief and should not contain methods. Each figure legend must begin with a short statement of the general content of the figure. Symbols indicated in the figure must be identified in the legend text. If figures are reprinted from another source, permission to reprint is required. Explain all symbols and abbreviations.
13. Figures (artwork). Please also read the Submission of Figures section for detailed figure preparation instructions and for acceptable file types. For the best reproduction, halftones should be high contrast. Line drawings, graphs, charts, and chemical formulae should be professionally prepared and labeled. Indicate magnification with a bar scale. Multipart figures should be submitted as one composite.
Figures should be kept to the minimum necessary to document results or methods that cannot be described in the text. Linear plots, particularly reciprocal velocity plots, should be avoided and replaced in the text in terms of slopes, intercepts, and standard deviations. All figures must be cited in the text in numerical order and the approximate position of each indicated in the margin. Most figures will be published in a single column of the journal; use lettering of sufficient size to be legible after reduction (i.e., labels should be no smaller than 1.5–2 mm high in the reduced figure). Lettering of all figures within the article should be of uniform style (preferably a sans serif typeface). Use uppercase letters A, B, C, etc. to identify individual parts of multipart figures. Poor-quality figures or illegible labeling may result in delayed acceptance and publication. NOTE: Make sure the weight of all rules used in artwork is 1/2 point or heavier. Lighter-weight lines will not be picked up.
Stereo pairs must be mounted side by side. Corresponding points of the two images should be 6.3 cm apart.
The use of color is encouraged, especially when it enhances communication and the understanding of the scientific data reported in the original manuscript. All color figures will be reproduced in full color at no cost to authors. For best reproduction, bright, clear colors should be used; muted, "muddy" colors produce less satisfactory results. Dark colors against a dark background do not reproduce well. Lemon yellow (especially against a white background) tends to disappear; use slightly greenish or golden yellows instead.
14. Cover artwork . Authors are encouraged to submit a figure, related to their manuscript, which can be considered for use on the cover of the journal. This figure can be included as part of the initial submission, or included when the revised manuscript is being sent back to the Editor following receipt of comments from the referees.
15. Submission of Figures : Detailed Instructions
1. Figures and artwork can only be accepted as .EPS or .TIFF files. The following figure formats are unacceptable: .JPG, .GIF, .PSD, .CRD, .PCT, .PPT, .PDF, .XLS, .DOC, .BMP, .123 (or other Lotus formats).
2. DO NOT EMBED FIGURES WITHIN THE MANUSCRIPT TEXT FILES or embed legends with the figures. If there are color keys to the figures, these should be included in the body of the figure rather than in the legend, as it can be difficult to match legend and figure colors.
3. Use Helvetica (or similar) typeface in point sizes no smaller than 8 pt and no larger than 10 pt, except for the main callouts (e.g. A, B, C), which should be 12 pt. It is best to avoid heavy letters, which often close up when reduced.
4. We cannot make any art corrections to .TIFF or .EPS files. All figures should be proofread carefully before they are sent to us.
5. Line Art: Line art (without halftone dots) should be scanned or produced at a minimum of 1200 DPI in bitmap mode and saved as .EPS files.
6. Halftone or Grayscale Art: Art to be reproduced as halftones should be scanned or produced at 300 DPI in grayscale mode and saved as .TIFF files. This is for halftone/grayscale art only (art that doesn't also have line art within it). If within the halftone artwork there also exists line art, please follow the dpi specifications for Combo Art instead. When in doubt with halftone art, always default to the Combo Art specifications to ensure that halftone digital art will be used.
7. Combo Art: Combo art, which means both halftone art and line art within the same piece of art, must be 600 DPI in grayscale mode and saved as .TIFF files.
8. Color Art: Note that color artwork is processed in RGB format to optimize online presentation. To avoid delays at the page proof stage, authors are expected to have reviewed their artwork in RGB format prior to final submission. The resolution of your file must be a minimum of 300 DPI. Digital artwork must be created either in Photoshop or Illustrator and saved as either .EPS or .TIFF format (see more detailed guidelines below for digital artwork submissions). Color art to be reproduced as halftones should be scanned or produced at 300 DPI in RGB mode and saved as .TIFF files. Always save your color scans into the RGB color space. Colors of similar shades should be avoided because, depending on final art sizing to conform to journal style, similar shades may be difficult to differentiate. Also, avoid using very light colors, since these typically don't reproduce well.
For further guidance on preparing digital figure files, authors are encouraged to visit
16. Supplementary Material. Authors are encouraged to request that lengthy tables and other data appear as Supplementary Material. In such cases, authors should include a short paragraph after the Materials and Methods section entitled "Supplementary Material" with a brief description of the content. Supply supplementary material with the manuscript and describe it briefly (including filenames) at the bottom of the article title page. Publication of supplementary material is strictly at the Editor’s discretion. File size should be limited to 500 MB per file.
Tables for Supplementary Material should be constructed, if possible, in a manner that will permit them to be read by common computer programs and standard word processor or spreadsheet software using IBM or Macintosh compatible computers. Data that are best viewed in a graphical form should be submitted suitable for viewing by means of standard spreadsheet software. Any other means of publication of graphical material should be cleared in advance by the Editor.
Publication of such material is subject to availability of space and to the Editor’s discretion.
Preparation and submission of files for Supplementary Material are the responsibility of the author.
17. Data Deposition Requirements . Structure Coordinates. For papers describing structures of biological macromolecules, the atomic coordinates and the related experimental data (structure factor amplitudes/intensities and/or NMR restraints) must be deposited at a member site of the Worldwide Protein Data Bank ( RCSB PDB (, PDBe (, PDBj (, or BMRB ( The PDB ID should be included in the manuscript. Authors must agree to release the atomic coordinates and experimental data when the associated article is published. Questions relating to depositions should be sent to
Protein and Nucleic Acid Sequences. Protein sequence data must be deposited, prior to manuscript submission, with the Protein Identification Resource (PIR) (National Biomedical Research Foundation, Georgetown University Medical Center, Washington, DC 20007, USA). Authors must certify in writing that this sequence has been scanned against this (or other comparable) database(s) and that all identities or significant similarities, including species variation, with other entries have been reported in the manuscript. Nucleotide sequence data must be included as part of manuscript submission and also, prior to manuscript acceptance, must be sent by the author to GenBank Submissions (M.S. K-710, Los Alamos National Laboratory, Los Alamos, NM 87545, USA).

The Publisher reserves the right to copyedit manuscripts to conform to Protein Science journal style. Wiley will send all page proofs electronically to corresponding authors. Digital page proofs (which include instructions and query sheet), together with an Author Packet of forms to be signed, will be distributed to corresponding authors online in PDF format. Each PDF proof will be accessible via a unique password that our compositor will send to the corresponding author in e-mail. Authors must review and return their PDF page proofs within 48 hours. Authors can opt to return these forms via e-mail, fax, or overnight mail. No rewriting of the final accepted manuscript is permitted at the proof stage. Excessive author alterations in proof may cause delays in publication and will be charged to the author.

Publication fees are assessed as follows:
Original Articles & Uninvited Reviews: $750 for non-members; $500 for Protein Society members
For The Record & Protein Structure Reports: $550 for non-members; $300 for Protein Society members
The publication of Invited Reviews is provided free of charge.
There are no charges for color figures.

All papers are freely available online 12 months after publication.

If your paper is accepted, the author identified as the formal corresponding author for the paper will receive an email prompting them to login into Author Services (; where via the Wiley Author Licensing Service (WALS) they will be able to complete the license agreement on behalf of all authors on the paper.

For authors signing the non-standard Copyright Transfer Agreement

If the OnlineOpen option is not selected the corresponding author will be presented with the Protein Science non-standard CTA to sign. The terms and conditions of the non-standard CTA can be previewed below:

Terms and Conditions. Please do not complete this PDF until you are prompted to login into Author Services as described above.

Note to Corresponding Authors on Deposit of Accepted Version

Funder arrangements. Certain funders, including the NIH, members of the Research Councils UK (RCUK) and Wellcome Trust require deposit of the Accepted Version in a repository after an embargo period. Details of funding arrangements are set out at the following website: Please contact the journal production editor if you have additional funding requirements.

Institutions. Wiley has arrangements with certain academic institutions to permit the deposit of the Accepted Version in the institutional repository after an embargo period. Details of such arrangements are set out at the following website:

For authors choosing OnlineOpen. If the OnlineOpen option is selected the corresponding author will have a choice of the following Creative Commons License Open Access Agreements (OAA):

Creative Commons Attribution License OAA

Creative Commons Attribution Non-Commercial License OAA

Creative Commons Attribution Non-Commercial -NoDerivs License OAA

To preview the terms and conditions of these open access agreements please visit the Copyright FAQs hosted on Wiley Author Services and visit

If you select the OnlineOpen option and your research is funded by The Wellcome Trust and members of the Research Councils UK (RCUK) you will be given the opportunity to publish your article under a CC-BY license supporting you in complying with Wellcome Trust and Research Councils UK requirements. For more information on this policy and the journal’s compliant self-archiving policy please visit:

Free access to the final PDF offprint of your article will be available via Author Services only. Please sign up for Author Services if you would like to access your article PDF offprint and enjoy the many other benefits the service offers at

Reprints may be purchased at

___Full article title, authors, affiliations, and corresponding author’s mailing and e-mail addresses should be on a separate page.
___Eliminate nonstandard abbreviations in titles.
___Include with abstract brief statement outlining significance of the paper’s findings.
___Indicate institutional affiliation and complete mailing address for all authors.
___Identify corresponding author and supply telephone number, fax number, and e-mail address.
___Supply the names and contact information of at least six possible reviewers. (Reviewers should have expertise in the subject to review, should not be members of the Editorial Advisory Board, and should be chosen to avoid any potential conflict of interest.)
___Supply copies of any related articles submitted or in press.
___(Optional) Include a figure for consideration for use on the cover.
___Abstract and keywords should be on a separate page.
___Do not cite references, tables, or figures in the Abstract.
___Include written permission for any borrowed or modified figures or tables from the copyright holder.
___Supply full manufacturer names and addresses (city and state or country) for all brand name products cited in text.
___List figure legends as a group on a separate page.
___Make sure figures are of good quality.
___Do not cite materials submitted but not yet accepted for publication as References. Instead, cite in text as unpublished work
___Tables should not be saved in a graphic program; tables created using Word's table format are preferred.
___Supply tables on separate pages.
___Cite tables and figures in the text in numerical order.
___Check that references are in the style of the journal, accurate, and cited in the text.
___Ensure that Conflict of Interest Statement is included at the end of the manuscript file.
Supplementary Material (optional)
___Is the supplementary material indicated on the title page of the manuscript?.
___Is there a section after Materials and Methods entitled Supplementary Material?.
___Does the supplementary material section briefly and adequately describe the supplementary material?