User contributions
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- 17:27, 3 November 2011 (diff | hist) . . (0) . . File:Equation31.GIF (uploaded a new version of "File:Equation31.GIF") (current)
- 17:27, 3 November 2011 (diff | hist) . . (0) . . File:Equationist.GIF (uploaded a new version of "File:Equationist.GIF") (current)
- 17:25, 3 November 2011 (diff | hist) . . (0) . . File:Equation30.GIF (uploaded a new version of "File:Equation30.GIF") (current)
- 17:25, 3 November 2011 (diff | hist) . . (0) . . File:Equation29.GIF (uploaded a new version of "File:Equation29.GIF") (current)
- 17:25, 3 November 2011 (diff | hist) . . (0) . . File:Equation28.GIF (uploaded a new version of "File:Equation28.GIF") (current)
- 17:24, 3 November 2011 (diff | hist) . . (0) . . File:Equation27.GIF (uploaded a new version of "File:Equation27.GIF") (current)
- 17:23, 3 November 2011 (diff | hist) . . (0) . . File:Equation20.GIF (uploaded a new version of "File:Equation20.GIF") (current)
- 17:23, 3 November 2011 (diff | hist) . . (0) . . File:Equation19.GIF (uploaded a new version of "File:Equation19.GIF") (current)
- 17:22, 3 November 2011 (diff | hist) . . (0) . . File:Equation3l.GIF (uploaded a new version of "File:Equation3l.GIF") (current)
- 17:21, 3 November 2011 (diff | hist) . . (0) . . File:Equation3l.GIF (uploaded a new version of "File:Equation3l.GIF")
- 17:21, 3 November 2011 (diff | hist) . . (0) . . File:Molarequation.GIF (uploaded a new version of "File:Molarequation.GIF") (current)
- 17:20, 3 November 2011 (diff | hist) . . (0) . . File:Equation24.GIF (uploaded a new version of "File:Equation24.GIF") (current)
- 17:07, 3 November 2011 (diff | hist) . . (0) . . File:Equation5.GIF (uploaded a new version of "File:Equation5.GIF") (current)
- 17:06, 3 November 2011 (diff | hist) . . (0) . . N File:Equation2.GIF (current)
- 17:06, 3 November 2011 (diff | hist) . . (0) . . File:Equation1.GIF (uploaded a new version of "File:Equation1.GIF") (current)
- 16:41, 3 November 2011 (diff | hist) . . (0) . . File:Equation18.GIF (uploaded a new version of "File:Equation18.GIF") (current)
- 16:41, 3 November 2011 (diff | hist) . . (0) . . File:Equation17.GIF (uploaded a new version of "File:Equation17.GIF") (current)
- 16:41, 3 November 2011 (diff | hist) . . (0) . . File:Equation16.GIF (uploaded a new version of "File:Equation16.GIF") (current)
- 16:40, 3 November 2011 (diff | hist) . . (0) . . File:Equation6-b.GIF (uploaded a new version of "File:Equation6-b.GIF") (current)
- 16:40, 3 November 2011 (diff | hist) . . (0) . . File:Equation6.GIF (uploaded a new version of "File:Equation6.GIF") (current)
- 16:40, 3 November 2011 (diff | hist) . . (0) . . File:Equation26.GIF (uploaded a new version of "File:Equation26.GIF") (current)
- 16:39, 3 November 2011 (diff | hist) . . (0) . . File:Equation 11.GIF (uploaded a new version of "File:Equation 11.GIF") (current)
- 16:39, 3 November 2011 (diff | hist) . . (0) . . File:Equation 13.GIF (uploaded a new version of "File:Equation 13.GIF") (current)
- 16:38, 3 November 2011 (diff | hist) . . (0) . . File:Equation 12.GIF (uploaded a new version of "File:Equation 12.GIF") (current)
- 16:38, 3 November 2011 (diff | hist) . . (0) . . File:Equation14.GIF (uploaded a new version of "File:Equation14.GIF") (current)
- 16:38, 3 November 2011 (diff | hist) . . (0) . . File:Equation8.GIF (uploaded a new version of "File:Equation8.GIF") (current)
- 16:37, 3 November 2011 (diff | hist) . . (0) . . File:Equation7.GIF (uploaded a new version of "File:Equation7.GIF") (current)
- 16:36, 3 November 2011 (diff | hist) . . (0) . . File:Equation4-a.GIF (uploaded a new version of "File:Equation4-a.GIF") (current)
- 16:35, 3 November 2011 (diff | hist) . . (0) . . N File:Equation4-b.GIF (current)
- 16:31, 3 November 2011 (diff | hist) . . (0) . . File:Equation36.GIF (uploaded a new version of "File:Equation36.GIF") (current)
- 16:24, 3 November 2011 (diff | hist) . . (0) . . File:Part 3.GIF (uploaded a new version of "File:Part 3.GIF") (current)
- 16:16, 3 November 2011 (diff | hist) . . (0) . . File:Part2.GIF (uploaded a new version of "File:Part2.GIF") (current)
- 16:16, 3 November 2011 (diff | hist) . . (0) . . File:Part 3.GIF (uploaded a new version of "File:Part 3.GIF")
- 16:16, 3 November 2011 (diff | hist) . . (0) . . N File:Tabler.GIF (current)
- 16:15, 3 November 2011 (diff | hist) . . (0) . . File:Equation35.GIF (uploaded a new version of "File:Equation35.GIF") (current)
- 19:29, 2 November 2011 (diff | hist) . . (0) . . N File:T.GIF (current)
- 18:36, 2 November 2011 (diff | hist) . . (0) . . N File:Data Included in Fit.gif (current)
- 19:55, 15 August 2011 (diff | hist) . . (-22) . . Calculating Density Increments
- 19:55, 15 August 2011 (diff | hist) . . (-41) . . Calculating Density Increments
- 19:55, 15 August 2011 (diff | hist) . . (+63) . . Calculating Density Increments
- 19:48, 15 August 2011 (diff | hist) . . (-64) . . m Calculating Density Increments
- 19:48, 15 August 2011 (diff | hist) . . (+12) . . m Calculating Density Increments
- 19:48, 15 August 2011 (diff | hist) . . (+53) . . Calculating Density Increments
- 19:35, 15 August 2011 (diff | hist) . . (-6) . . Calculating Density Increments
- 19:35, 15 August 2011 (diff | hist) . . (+5) . . Calculating Density Increments
- 19:33, 15 August 2011 (diff | hist) . . (-92) . . Molecular Weight
- 19:33, 15 August 2011 (diff | hist) . . (+90) . . Molecular Weight
- 19:32, 15 August 2011 (diff | hist) . . (-157) . . Molecular Weight
- 19:32, 15 August 2011 (diff | hist) . . (+158) . . Molecular Weight
- 19:32, 15 August 2011 (diff | hist) . . (-53) . . Molecular Weight
- 19:32, 15 August 2011 (diff | hist) . . (+1) . . Molecular Weight
- 19:31, 15 August 2011 (diff | hist) . . (+53) . . Molecular Weight
- 18:06, 15 August 2011 (diff | hist) . . (+969) . . N Estimates of Hydration and Asymmetry (Created page with "Comparing the minimal frictional coefficient with results from a Sedimentation Velocity experiment will yield estimates of maximum hydration and maximum asymmetry. Please no...")
- 19:08, 11 August 2011 (diff | hist) . . (+3,540) . . N Estimating Database (Created page with "This menu allows the user to access the phyconst.mdb data base to modify or add to the calculation/interpolation data used by Sednterp. The two things most likely to be modified...")
- 18:58, 11 August 2011 (diff | hist) . . (+1,750) . . N Interpolating a Density or Viscosity (Created page with "To interpolate a density or viscosity press the compute button on either the buffer density or buffer viscosity frames. The buffer components form will appear. The same form wi...")
- 18:55, 11 August 2011 (diff | hist) . . (0) . . N File:Equation36.GIF
- 18:55, 11 August 2011 (diff | hist) . . (0) . . N File:Equation3l.GIF
- 18:55, 11 August 2011 (diff | hist) . . (0) . . N File:Molarequation.GIF
- 18:54, 11 August 2011 (diff | hist) . . (+1,080) . . N Calculating Cylindrical Asymmetry (Created page with "The proper hydrodynamic model for molecules that exhibit an elongated shape with a uniform thickness is the cylinder. The frictional coefficient for a cylinder is: Equation 36: ...")
- 18:49, 11 August 2011 (diff | hist) . . (+4,202) . . N Teller's empirical estimates (Created page with "This section deals with calculating the equivalent radius and all directly resulting values including the minimal frictional coefficient , the maximum diffusion coefficient, and ...")
- 18:47, 11 August 2011 (diff | hist) . . (+74) . . Calculating Ellipsoid Asymmetry
- 18:47, 11 August 2011 (diff | hist) . . (0) . . N File:Equation31.GIF
- 18:46, 11 August 2011 (diff | hist) . . (0) . . N File:Equation32.GIF
- 18:46, 11 August 2011 (diff | hist) . . (0) . . N File:Equation35.GIF
- 18:46, 11 August 2011 (diff | hist) . . (0) . . N File:Equationer.GIF
- 18:46, 11 August 2011 (diff | hist) . . (+1,366) . . N Calculating Ellipsoid Asymmetry (Created page with "The maximum axial ratio of the prolate ellipsoid of revolution (a/b)p,max and the oblate ellipsoid of revolution (a/b)o,max can be determined using a power series approximation o...")
- 18:37, 11 August 2011 (diff | hist) . . (0) . . Stokes radius
- 18:37, 11 August 2011 (diff | hist) . . (+644) . . N Stokes radius (Created page with "The Stokes radius (also often called the hydrodynamic radius) is the radius of a spherical particle that has the same frictional coefficient, f, as that of the current sample (an...")
- 18:32, 11 August 2011 (diff | hist) . . (0) . . N File:Equationist.GIF
- 18:32, 11 August 2011 (diff | hist) . . (+350) . . N Calculating the Stokes Radius (Created page with "The Stokes radius can be calculated from several relationships, such as File: Equationist.GIF Note that this calculation does not depend on whether you choose the vbar ...")
- 18:28, 11 August 2011 (diff | hist) . . (+1) . . Sednterp Uses Default Values
- 18:28, 11 August 2011 (diff | hist) . . (+1,514) . . N Sednterp Uses Default Values (Created page with "Sednterp uses default values for many parameters that may be entered by the user. The use of these defaults limit the accuracy of the calculations performed by Sednterp. Defaul...")
- 18:27, 11 August 2011 (diff | hist) . . (+455) . . N The User Controls Program Information and Flow (Created page with "The Sednterp program allows the user to control the information and the order of computation used by the program. Choices for program flow are indicated by the green boxes under...")
- 18:27, 11 August 2011 (diff | hist) . . (+194) . . N A Sparse Main Form Leads to Other Program Elements (Created page with "One strategy of Sednterp is to have one main form with a minimum number of elements. Optional information is entered on separate forms. The following help topics describe the ...")
- 18:16, 11 August 2011 (diff | hist) . . (+2,308) . . N Programming Strategy (Created page with "The overall strategy of the Sednterp program is to allow the user to enter information quickly and easily. The program will default to guessed values for all parameters that ad...")
- 18:16, 11 August 2011 (diff | hist) . . (+1,128) . . N Results form (Created page with "The results form lists results of Sednterp calculations. To understand the results, read the theory section of this help file (and the references listed there for more in de...")
- 18:15, 11 August 2011 (diff | hist) . . (+165) . . N The Results Menu (Created page with "Choosing this menu choice instantly brings up the Results form. Results are available only if enough information to compute a molecular weight has been entered.")
- 18:15, 11 August 2011 (diff | hist) . . (+3,539) . . N The Estimating Databases Menu (Created page with "This menu allows the user to access the phyconst.mdb data base to modify or add to the calculation/interpolation data used by Sednterp. The two things most likely to be modified...")
- 18:11, 11 August 2011 (diff | hist) . . (+2,001) . . N The Experiment Section (Created page with "This section of the main form is organized to contain information that is particular to particular experiments. Since samples and buffers may be common to many experiments, they...")
- 18:09, 11 August 2011 (diff | hist) . . (-620) . . Buffer Components form
- 18:09, 11 August 2011 (diff | hist) . . (+4,551) . . N Buffer Components form (Created page with "The purpose of the Buffer Components form is to allow the user to enter components of a buffer and then to have Sednterp interpolate a buffer density and/or viscosity for the buf...")
- 18:08, 11 August 2011 (diff | hist) . . (+1,361) . . N The Buffer Section (Created page with "The buffer section of the main form displays information particular to a buffer. The section on the main form displays the density and viscosity of the buffer. Other information...")
- 18:07, 11 August 2011 (diff | hist) . . (+1,127) . . N The Results Form (Created page with "The results form lists results of Sednterp calculations. To understand the results, read the theory section of this help file (and the references listed there for more in dep...")
- 18:07, 11 August 2011 (diff | hist) . . (+4,792) . . N The Sample Composition Form (Created page with "The sample composition form allows the user to enter the composition of a protein and also allows access to computed values from the composition. The amino acid composition is li...")
- 18:07, 11 August 2011 (diff | hist) . . (+1) . . Sample Composition Form
- 18:06, 11 August 2011 (diff | hist) . . (+166) . . N Forms (Created page with "A form is a window that contains any number of Microsoft Windows or Visual Basic controls such as text boxes, buttons, and menus. It is the basic unit of the program.")
- 18:05, 11 August 2011 (diff | hist) . . (+1,114) . . N Overview of Sednterp Screens (Created page with "The purpose of the Sednterp program is to automate the calculation of molecular parameters from experimental information. The purpose of most of the forms in Sednterp is to ...")
- 18:04, 11 August 2011 (diff | hist) . . (+46) . . References
- 18:03, 11 August 2011 (diff | hist) . . (+7,096) . . N References (Created page with "1. R.J. Goldberg, J. Phys. Chem., 1953, 57, 194. 2. J.W. Williams, K.E. Van Holde, R.L. Baldwin, and H. Fujita, Chem. Rev., 1958, 58, 715. 3. E.F. Cassasa and H. Eisenberg Adv. i...")
- 18:02, 11 August 2011 (diff | hist) . . (+4,202) . . N As before (Created page with "This section deals with calculating the equivalent radius and all directly resulting values including the minimal frictional coefficient , the maximum diffusion coefficient, and ...")
- 18:01, 11 August 2011 (diff | hist) . . (+967) . . N Calculating Hydration from Asymmetry Estimates (Created page with "Calculating Hydration from Asymmetry Estimates Should the user supply an axial ratio (as major-axis/minor-axis), the corresponding values of the degree of hydration for both the...")
- 18:00, 11 August 2011 (diff | hist) . . (0) . . N File:Equation27.GIF
- 18:00, 11 August 2011 (diff | hist) . . (0) . . File:Equation30.GIF (uploaded a new version of "File:Equation30.GIF")
- 18:00, 11 August 2011 (diff | hist) . . (0) . . N File:Equation29.GIF
- 17:59, 11 August 2011 (diff | hist) . . (0) . . N File:Equation28.GIF
- 17:59, 11 August 2011 (diff | hist) . . (0) . . N File:Equation30.GIF
- 17:49, 11 August 2011 (diff | hist) . . (+143) . . N 52 (Created page with "M. Luscher-Mattli, 'Thermodynamic Data for Biochemistry and Biotechnology', H.-J. Hinz, ed., Springer-Verlag, Berlin, 1986, Chapter 11, p. 276.")
- 17:47, 11 August 2011 (diff | hist) . . (+144) . . N 39 (Created page with "D.W> Kupke, 'Physical Principles and Techniques of Protein Chemistry, part C', S.J. Leach, ed., Academic Press, New York, 1973, Chapter 1, p. 1.")
- 17:46, 11 August 2011 (diff | hist) . . (+25) . . Calculating Maximum Hydration
- 17:46, 11 August 2011 (diff | hist) . . (0) . . N File:Equation25.GIF
- 17:44, 11 August 2011 (diff | hist) . . (+2,378) . . N Calculating Maximum Hydration (Created page with "Water of hydration is considered to be water that differs from the bulk phase due to its interaction with the protein. Our knowledge of the degree of hydration for proteins is p...")
- 17:41, 11 August 2011 (diff | hist) . . (+2,084) . . N Calculating Viscosity (Created page with "Viscosity is a measure of the energy dissipated in a fluid in order to maintain flow. In sedimentation, the flow of interest is the movement of the protein through the solvent. F...")
- 17:39, 11 August 2011 (diff | hist) . . (+4) . . Density of the buffer at 20 C
- 17:39, 11 August 2011 (diff | hist) . . (+4,461) . . N Density of the buffer at 20 C (Created page with "The first step Sednterp uses to calculate the density of a buffer is to calculate the density of the buffer at 20 degrees C. Then, the density is corrected for temperature assum...")
- 17:39, 11 August 2011 (diff | hist) . . (+1) . . Calculating the Density Temperature Correction
- 17:38, 11 August 2011 (diff | hist) . . (+2,111) . . N Calculating the Density Temperature Correction (Created page with "The first step Sednterp uses to calculate the density of a buffer is to calculate the density of the buffer at 20 degrees C. Then, the density is corrected for temperature assum...")
- 17:35, 11 August 2011 (diff | hist) . . (0) . . N File:Equation15.GIF
- 17:35, 11 August 2011 (diff | hist) . . (0) . . N File:Equation14.GIF
- 17:29, 11 August 2011 (diff | hist) . . (+4) . . Calculating Density Increments
- 17:29, 11 August 2011 (diff | hist) . . (+4,457) . . N Calculating Density Increments (Created page with "The first step Sednterp uses to calculate the density of a buffer is to calculate the density of the buffer at 20 degrees C. Then, the density is corrected for temperature assum...")
- 17:17, 11 August 2011 (diff | hist) . . (+158) . . N 43 (Created page with "J.C. Lee and S.N. Timasheff, 'Methods in Enzymolgy Volume 61', C.H.W. Hirs and S.N. Timasheff, eds., Academic Press, Orlando, Florida, 1979, Chapter 4, p. 49.")
- 17:14, 11 August 2011 (diff | hist) . . (+162) . . N 38 (Created page with "T. Arakawa and S.N. Timasheff, 'Methods in Enzymology Volume 117', C.H.W. Hirs and S.N. Timasheff, eds., Academic Press, Orlando, Florida, 1985, Chapter 5, p. 60.")
- 17:12, 11 August 2011 (diff | hist) . . (+162) . . N 37 (Created page with "V. Prakask and S.N. Timasheff, 'Methods in Enzymology Volume 117', C.H.W. Hirs and S.N. Timasheff, eds., Academic Press, Orlando, Florida, 1985, Chapter 4, p. 53.")
- 17:11, 11 August 2011 (diff | hist) . . (+3,595) . . N Calculating Denatured v-bar Estimates (Created page with "It is often useful or necessary to measure the molecular weight of proteins in denaturants. In this case, preferential binding of the denaturant to the protein will affect the pa...")
- 17:01, 11 August 2011 (diff | hist) . . (0) . . N File:Equation9.GIF
- 17:01, 11 August 2011 (diff | hist) . . (0) . . N File:Equation10.GIF
- 15:48, 11 August 2011 (diff | hist) . . (+3,165) . . N Calculating v-bar estimates (Created page with "The partial specific volume is a measure of the change in the volume (in ml) of the solution per gram of solute. For typical proteins, any errors in are magnified 3-fold in the...")
- 15:47, 11 August 2011 (diff | hist) . . (+628) . . N Buoyant Molecular Weight (Created page with "Sednterp will calculate the buoyant molecular weight of the sample according to the method chosen for calculating the molecular weight. The buoyant molecular weight is defined in...")
- 15:46, 11 August 2011 (diff | hist) . . (+3,542) . . N Molecular Weight (Created page with "Sednterp can use various methods to calculate molecular weight. First, the program may not calculate the molecular weight at all, but simply use the weight entered by the user....")
- 15:45, 11 August 2011 (diff | hist) . . (+167) . . N 58 (Created page with "J.G. de la Torre, Analytical Ultracentrifugation in Biochemistry and Polymer Science, Royal Society of Chemistry (Edited by S. Harding and A. Rowe), 1992, pp. 333-345.")
- 15:44, 11 August 2011 (diff | hist) . . (+64) . . N 57 (Created page with "M.W. Kirschner and H.K. Schachman, Biochemistry, 1971, 10, 1900.")
- 15:43, 11 August 2011 (diff | hist) . . (+70) . . N 56 (Created page with "E.G. Richards and H.K. Schachman, J. Amer. Chem. Soc., 1957, 79, 5324.")
- 15:42, 11 August 2011 (diff | hist) . . (+418) . . N Contact (Created page with "For general questions regarding interpretation of sedimentation data and the theory behind this program, contact Dr. Thomas Laue, Department of Biochemistry, University of New Ha...")
- 15:42, 11 August 2011 (diff | hist) . . (+4,457) . . N Equation 13 (Created page with "The first step Sednterp uses to calculate the density of a buffer is to calculate the density of the buffer at 20 degrees C. Then, the density is corrected for temperature assum...")
- 15:36, 11 August 2011 (diff | hist) . . (+4) . . Limitations
- 15:36, 11 August 2011 (diff | hist) . . (+3,721) . . N Limitations (Created page with "There are three categories of limitations in the calculations implemented in Sednterp. The first category is limitations implied in choosing a method of interpretation. Sednter...")
- 15:33, 11 August 2011 (diff | hist) . . (+1,905) . . N Equation 3 (Created page with "The apparent sedimentation coefficient is determined directly from the data: Rearrangement of equation 2 reveals that the sedimentation coefficient can be determined from the...")
- 15:33, 11 August 2011 (diff | hist) . . (+32) . . Buffer and Solute Solution Parameters
- 15:31, 11 August 2011 (diff | hist) . . (+1,176) . . N Buffer and Solute Solution Parameters (Created page with "vbar ρ and η are needed for further interpretation of s* and σ: s* and σ are directly accessible from sedimentation data. However, more often than not, it is the anhydrous mo...")
- 15:31, 11 August 2011 (diff | hist) . . (0) . . N File:Equation5.GIF
- 15:28, 11 August 2011 (diff | hist) . . (+787) . . N Reduced Apparent Molecular Weight (Created page with "The reduced apparent molecular weight, σ, is directly available from sedimentation equilibrium: Equating equation 1 and equation 2, one obtains the fundamental equation ...")
- 15:28, 11 August 2011 (diff | hist) . . (+1,905) . . N Sedimentation Coefficient (Created page with "The apparent sedimentation coefficient is determined directly from the data: Rearrangement of equation 2 reveals that the sedimentation coefficient can be determined from the...")
- 15:27, 11 August 2011 (diff | hist) . . (+1,483) . . N Overview of Information Needed (Created page with "'''Overview of Information needed:''' Regardless of whether velocity or equilibrium experiments are conducted, the values obtained by direct analysis of the data must be adjuste...")
- 15:25, 11 August 2011 (diff | hist) . . (+8) . . Primary Reference
- 15:25, 11 August 2011 (diff | hist) . . (+904) . . N Primary Reference (Created page with "Sednterp was originally developed as a template for a spreadsheet by Thomas M. Laue, Bhairavi D. Shah, Theresa M. Ridgeway and Sandra L. Pelletier. A previous version of a sedim...")
- 15:25, 11 August 2011 (diff | hist) . . (+876) . . N Acknowledgments (Created page with "Work on the original project was supported in part by a Grant-in-Aid #850-781 and #870-1092 from the American Heart Association and Grants BBS 86-15815 and DIR 90-02027 from the ...")
- 15:25, 11 August 2011 (diff | hist) . . (+170) . . N Bugs (Created page with "Bugs are, by definition, either 1. an error one of the other collaborators put into the program or 2. things in the program we haven't yet realized are really features.")
- 15:24, 11 August 2011 (diff | hist) . . (+418) . . N Who to Contact for Information and Feedback (Created page with "For general questions regarding interpretation of sedimentation data and the theory behind this program, contact Dr. Thomas Laue, Department of Biochemistry, University of New Ha...")
- 15:23, 11 August 2011 (diff | hist) . . (+3) . . Development and Distribution of Sednterp
- 15:23, 11 August 2011 (diff | hist) . . (+499) . . N Development and Distribution of Sednterp (Created page with "The specifications for Sednterp were originally designed by Thomas M. Laue, Bhairavi D. Shah, Theresa M. Ridgeway and Sandra L. Pelletier. Their work is described in Ref. 59. Dr...")
- 15:22, 11 August 2011 (diff | hist) . . (+3,964) . . N *.buf (Created page with "The purpose of the Buffer Components form is to allow the user to enter components of a buffer and then to have Sednterp interpolate a buffer density and/or viscosity for the buf...")
- 15:21, 11 August 2011 (diff | hist) . . (+4,791) . . N *.smp (Created page with "The sample composition form allows the user to enter the composition of a protein and also allows access to computed values from the composition. The amino acid composition is li...")
- 15:21, 11 August 2011 (diff | hist) . . (+4,791) . . N *.seq (Created page with "The sample composition form allows the user to enter the composition of a protein and also allows access to computed values from the composition. The amino acid composition is li...")
- 15:20, 11 August 2011 (diff | hist) . . (-12) . . List of Standard File Endings
- 15:19, 11 August 2011 (diff | hist) . . (+4,891) . . N *.ini (Created page with "The file menu on the main form contains the following options. 1. '''New data entry form'''. This choice re-initializes the main form. Choose this option to start over on a ...")
- 15:19, 11 August 2011 (diff | hist) . . (+1,254) . . N List of Standard File Endings (Created page with "Sednterp uses conventions for the three letter file ending for the various files important to the program. *.ini Initialization file. Sednterp saves initialization data in...")
- 15:18, 11 August 2011 (diff | hist) . . (+1,128) . . N Results Form (Created page with "The results form lists results of Sednterp calculations. To understand the results, read the theory section of this help file (and the references listed there for more in de...")
- 15:17, 11 August 2011 (diff | hist) . . (+1,184) . . N XLGraph (Created page with "XLGraph is a Windows program for graphing and manipulation of data from the XL-A or XL-I. If you are still using the DOS-based Beckman software for controlling your XL-A, XLGrap...")
- 15:12, 11 August 2011 (diff | hist) . . (+375) . . N Svedberg (Created page with "Svedberg is a Windows program for analysis of sedimnetation velocity data form the XL-A. It is particularly intended for anaylsis of low molecular weight samples whose boundaries...")
- 15:09, 11 August 2011 (diff | hist) . . (+2,402) . . N Graphs Available (Created page with "Various graphs are available from the results and composition forms in Sednterp. All of these graphs use a standard form with many options for formatting and printing based on J...")
- 15:09, 11 August 2011 (diff | hist) . . (+323) . . N List of Graphs (Created page with "Sednterp will draw the following graphs: 1. Plots of asymmetry ratio as a function of hydration. 2. Diagrams of molecular shape where both a side axis and top axis view is show...")
- 15:08, 11 August 2011 (diff | hist) . . (+1,661) . . N Saving Data in Databases Form (Created page with "In this form, example, sample, buffer, or results information is saved as separate records in tables in a database file. This form not only saves information, but also serves as...")
- 15:08, 11 August 2011 (diff | hist) . . (+1,128) . . N Results (Created page with "The results form lists results of Sednterp calculations. To understand the results, read the theory section of this help file (and the references listed there for more in de...")
- 15:07, 11 August 2011 (diff | hist) . . (+1,510) . . N Limitations on Estimation of Hydration and Asymmetry (Created page with "One cannot determine accurate, unambiguous values for both the degree of hydration (δ1) and the ellipsoid axial ratios (a/b) from sedimentation experiments alone (Ref. 27 [[...")
- 15:05, 11 August 2011 (diff | hist) . . (0) . . N File:Equation24.GIF
- 15:02, 11 August 2011 (diff | hist) . . (+97) . . N Hydration (Created page with "Hydration is the ratio of the weight of bound water to the weight of the sample (grams per gram).")
- 15:01, 11 August 2011 (diff | hist) . . (+285) . . N Viscosity (Created page with "Viscosity is the measurement of resistance to bulk fluid flow. High viscosity indicates a thick substance like motor oil. Low viscosity indicates a very fluid substance. Viscosit...")
- 14:59, 11 August 2011 (diff | hist) . . (+95) . . N Density of Buffer (Created page with "Density is the measure of grams per milliliter of a substance. It is a basic physical property.")
- 14:59, 11 August 2011 (diff | hist) . . (+549) . . N Partial specific volume (Created page with "The partial specific volume has units of milliliters per gram (ml/g). In this sense it is simply the inverse of the density. however, partial specific volume is more strictly def...")
- 14:56, 11 August 2011 (diff | hist) . . (+3,542) . . N Calculating Molecular Weight (Created page with "Sednterp can use various methods to calculate molecular weight. First, the program may not calculate the molecular weight at all, but simply use the weight entered by the user....")
- 14:52, 11 August 2011 (diff | hist) . . (+3,860) . . N Converting s to s-20-w (Created page with "The sedimentation coefficient provides a rigorous hydrodynamic descriptor of a molecule. However, to be most useful in this regard, and prior to further interpretation, s* must ...")
- 14:50, 11 August 2011 (diff | hist) . . (0) . . N File:Equation3.GIF
- 14:50, 11 August 2011 (diff | hist) . . (+1,905) . . N Equations for s (Created page with "The apparent sedimentation coefficient is determined directly from the data: Rearrangement of equation 2 reveals that the sedimentation coefficient can be determined from the...")
- 14:48, 11 August 2011 (diff | hist) . . (+3,964) . . N Buffer Components Form (Created page with "The purpose of the Buffer Components form is to allow the user to enter components of a buffer and then to have Sednterp interpolate a buffer density and/or viscosity for the buf...")
- 14:47, 11 August 2011 (diff | hist) . . (+3,197) . . N Corrected (Created page with "The partial specific volume vbar is a measure of the change in the volume (in ml) of the solution per gram of solute. For typical proteins, any errors in vbar are magnified 3-fol...")
- 14:42, 11 August 2011 (diff | hist) . . (+1,361) . . N The Sample Section (Created page with "The sample section of the main form displays information particular to a sample (usually a biological macromolecule) that is the subject of experiment in the ultracentrifuge. Th...")
- 14:41, 11 August 2011 (diff | hist) . . (+18) . . List of Parameters for Input
- 14:41, 11 August 2011 (diff | hist) . . (+50) . . List of Parameters for Input
- 14:37, 11 August 2011 (diff | hist) . . (+12) . . Sedimentation coefficient corrected
- 14:37, 11 August 2011 (diff | hist) . . (+48) . . Sedimentation coefficient corrected
- 14:36, 11 August 2011 (diff | hist) . . (0) . . N File:Equation19.GIF
- 14:36, 11 August 2011 (diff | hist) . . (0) . . N File:Equation20.GIF
- 14:33, 11 August 2011 (diff | hist) . . (+20) . . Sedimentation coefficient corrected
- 14:32, 11 August 2011 (diff | hist) . . (+3,780) . . N Sedimentation coefficient corrected (Created page with "The sedimentation coefficient provides a rigorous hydrodynamic descriptor of a molecule. However, to be most useful in this regard, and prior to further interpretation, s* must ...")
- 14:26, 11 August 2011 (diff | hist) . . (+3,542) . . N Calculating the Molecular Weight (Created page with "Sednterp can use various methods to calculate molecular weight. First, the program may not calculate the molecular weight at all, but simply use the weight entered by the user....")
- 14:25, 11 August 2011 (diff | hist) . . (+628) . . N Buoyant molecular weight (Created page with "Sednterp will calculate the buoyant molecular weight of the sample according to the method chosen for calculating the molecular weight. The buoyant molecular weight is defined in...")
- 14:24, 11 August 2011 (diff | hist) . . (0) . . N File:Equation6-b.GIF
- 14:24, 11 August 2011 (diff | hist) . . (0) . . N File:Equation6.GIF
- 14:20, 11 August 2011 (diff | hist) . . (-1) . . Computed minimum radius
- 14:19, 11 August 2011 (diff | hist) . . (+134) . . N 34 (Created page with "H. Hoiland, 'Thermodynamic Data for Biochemistry and Biotechnology', H.-J. Hinz, ed., Springer-Verlag, Berlin, 1986, Chapter 2, p. 17.")
- 14:18, 11 August 2011 (diff | hist) . . (+146) . . N 32 (Created page with "S.E. Harding, 'Dynamic Properties of Biomolecular Assemblies', S.E. Harding and A.J. Rowe, eds., Royal Society of London, 1989, Chapter 2, p. xxx.")
- 14:17, 11 August 2011 (diff | hist) . . (+65) . . N 31 (Created page with "H.A. Scheraga an L. Mandelkern, J. Am. Chem. Soc., 1953, 75, 179.")
- 14:17, 11 August 2011 (diff | hist) . . (+163) . . N 30 (Created page with "D.C. Teller, E. Swanson and C. De Haen, 'Methods in Enzymology Volume 61', C.H.W. Hirs and S.N. Timasheff, eds., Academic Press, New York, 1979, Chapter 8, p. 103.")
- 14:15, 11 August 2011 (diff | hist) . . (+48) . . N 29 (Created page with "J.L. Oncley, Ann. N.Y. Acad. Sci. 1941, 41, 121.")
- 14:15, 11 August 2011 (diff | hist) . . (+140) . . N 27 (Created page with "Teller, D.C. 'Methods in Enzymology Volume XXVII', C.H.W. Hirs and S.N. Timasheff, eds., Academic Press, New York, 1973, Chapter 14, p. 346.")
- 14:13, 11 August 2011 (diff | hist) . . (+4,203) . . N Computed minimum radius (Created page with "This section deals with calculating the equivalent radius and all directly resulting values including the minimal frictional coefficient , the maximum diffusion coefficient, and ...")
- 14:10, 11 August 2011 (diff | hist) . . (0) . . N File:Equation21.GIF
- 14:10, 11 August 2011 (diff | hist) . . (0) . . N File:Equation22.GIF
- 14:10, 11 August 2011 (diff | hist) . . (0) . . N File:Equation23.GIF
- 14:04, 11 August 2011 (diff | hist) . . (+164) . . N 60 (Created page with "W.F. Stafford, Analytical Ultracentrifugation in Biochemistry and Polymer Science, Royal Society of Chemistry (Edited by S. Harding and A. Rowe), 1992, pp. 359-393.")
- 14:02, 11 August 2011 (diff | hist) . . (+24) . . Sedimentation coefficient
- 14:02, 11 August 2011 (diff | hist) . . (0) . . File:Equation26.GIF (uploaded a new version of "File:Equation26.GIF")
- 19:19, 9 August 2011 (diff | hist) . . (+57) . . N 42 (Created page with "J.C. Lee and S.N. Timasheff, Biochemistry, 1974, 13, 257.")
- 19:18, 9 August 2011 (diff | hist) . . (+61) . . N 54 (Created page with "I.D. Kuntz and W. Kauzman, Adv. Protein Chem., 1974, 28, 239.")
- 19:18, 9 August 2011 (diff | hist) . . (+44) . . N 51 (Created page with "I.D. Kuntz J. Am. Chem. Soc., 1971, 93, 514.")
- 19:15, 9 August 2011 (diff | hist) . . (-4) . . Estimating Hydration
- 19:14, 9 August 2011 (diff | hist) . . (+142) . . N 53 (Created page with "G.M. Mrevlishvili, 'Thermodynamic Data for Biochemistry and Biotechnology', H.-J. Hinz, ed., Springer-Verlag, Berlin, 1986, Chapter 5, p. 148.")
- 19:13, 9 August 2011 (diff | hist) . . (+155) . . N 55 (Created page with "H. Pessen and T.F. Kumosinski, 'Methods in Enzymology Volume 117', C.H.W. Hirs and S.N Timasheff, eds., Academic Press, New York, 1985, Chapter 14, p. 219.")
- 19:11, 9 August 2011 (diff | hist) . . (+46) . . Estimating Hydration
- 17:56, 9 August 2011 (diff | hist) . . (+1,972) . . N Estimating Hydration (Created page with "It has become common practice to specify a value of 0.25 or 0.3 for , with little justification. For unconjugated proteins, typical values of "hydrodynamic hydration" range betwe...")
- 17:56, 9 August 2011 (diff | hist) . . (0) . . N File:Equation26.GIF
- 17:43, 9 August 2011 (diff | hist) . . (+116) . . N 8 (Created page with "T. Svedberg 'The Ultracentrifuge', T. Svedberg and K.O. Pederson, eds., Johnson Reprint Corporation, New York, 1940.")
- 17:42, 9 August 2011 (diff | hist) . . (+162) . . N 48 (Created page with "J.F. Johnson, J.R. Martin and R.S. Porter, 'Physical methods of Chemistry', A. Weissberger and B.W. Rossiter, eds., Vol. 1, Part VI, Wiley, New York, 1977, p. 63.")
- 17:40, 9 August 2011 (diff | hist) . . (+160) . . N 47 (Created page with "J.T. Yang, 'Recent Advances in Protein Chemistry Volume 16', C.B. Anfinsen, M.L. Anson, K. Bailey, and J.T. Edsall, eds., Academic Press, New York, 1961, p.323.")
- 17:39, 9 August 2011 (diff | hist) . . (+89) . . Nm 17 (Created page with "H. Fujita, 'Foundations of Ultracentrigugal Analysis', J. Wiley and Sons, New York, 1975.")
- 17:38, 9 August 2011 (diff | hist) . . (+24) . . Calulating Viscosity
- 17:37, 9 August 2011 (diff | hist) . . (-54) . . Calulating Viscosity
- 17:37, 9 August 2011 (diff | hist) . . (+2,114) . . N Calulating Viscosity (Created page with "Viscosity is a measure of the energy dissipated in a fluid in order to maintain flow. In sedimentation, the flow of interest is the movement of the protein through the solvent. F...")
- 17:35, 9 August 2011 (diff | hist) . . (0) . . N File:Equation16.GIF
- 17:35, 9 August 2011 (diff | hist) . . (0) . . N File:Equation17.GIF
- 17:35, 9 August 2011 (diff | hist) . . (0) . . N File:Equation18.GIF
- 17:25, 9 August 2011 (diff | hist) . . (+62) . . N 45 (Created page with "F. Steckel and S. Szapiro, Trans. Faraday Soc., 1963, 59, 331.")
- 17:24, 9 August 2011 (diff | hist) . . (+127) . . N 44 (Created page with "R.C. Weast (editor), 'CRC Handbook of Chemistry and Physics, 67th Edition', CRC Press, Inc., Boca Raton, Florida, 1968, p. F-5.")
- 17:23, 9 August 2011 (diff | hist) . . (+165) . . N 46 (Created page with "M.L. Johnson and S.G. Frazsier, 'Methods in Enzymology Volume 117', C.H.W. Hirs and S.N. Timasheff, eds., Academic Press, Orlando, Florida, 1985, Chapter 16, p. 301.")
- 17:21, 9 August 2011 (diff | hist) . . (+41) . . Calculating Density
- 17:19, 9 August 2011 (diff | hist) . . (+4,416) . . N Calculating Density (Created page with "The first step Sednterp uses to calculate the density of a buffer is to calculate the density of the buffer at 20 degrees C. Then, the density is corrected for temperature assum...")
- 17:16, 9 August 2011 (diff | hist) . . (+3,964) . . N Buffer (Created page with "The purpose of the Buffer Components form is to allow the user to enter components of a buffer and then to have Sednterp interpolate a buffer density and/or viscosity for the buf...")
- 17:15, 9 August 2011 (diff | hist) . . (+4,791) . . N Sample (Created page with "The sample composition form allows the user to enter the composition of a protein and also allows access to computed values from the composition. The amino acid composition is li...")
- 17:13, 9 August 2011 (diff | hist) . . (+175) . . N 35 (Created page with "J.H.C. Steele, C. Tanford and J.A. Reynolds, 'Methods in Enzymology Volume 48', C.H.W. Hirs and S.N. Timasheff, eds., Academic Press, Orlando, Florida, 1978, Chapter 2, p. 18.")
- 17:12, 9 August 2011 (diff | hist) . . (+205) . . Nm 59 (Created page with "T.M. Laue, B.D. Shah, T.M. Ridgeway and S.L. Pelletier, Analyticall Ultracentrifugation in Biochemistry and Polymer Science, Royal Society of Chemistry (Edited by S. Harding and ...")
- 17:10, 9 August 2011 (diff | hist) . . (+73) . . Calculating vbar Estimates
- 17:08, 9 August 2011 (diff | hist) . . (+3,092) . . N Calculating vbar Estimates (Created page with "he partial specific volume is a measure of the change in the volume (in ml) of the solution per gram of solute. For typical proteins, any errors in are magnified 3-fold in the ...")
- 17:06, 9 August 2011 (diff | hist) . . (+1) . . List of Interpolations Available
- 17:06, 9 August 2011 (diff | hist) . . (+677) . . N List of Interpolations Available (Created page with "Sednterp will interpolate values for the following properties. {| !Property !Input !Theory !Form |- |Vbar |Amino Acids and conjugates, temp. |Calculating vbar Estimates |[[S...")
- 14:57, 9 August 2011 (diff | hist) . . (+422) . . N Interpolation (Created page with "In the program Sednterp, interpolation refers to the estimation of physical parameters from standard tables and user entered information. In most cases, Sednterp uses a power se...")
- 14:57, 9 August 2011 (diff | hist) . . (+1,126) . . List of Results
- 14:49, 9 August 2011 (diff | hist) . . (+553) . . N List of Results (Created page with "Results are molecular parameters computed by Sednterp from the equations described in the theory section. To understand the results, the theory section ought to be read at lengt...")
- 14:47, 9 August 2011 (diff | hist) . . (+589) . . N Sigma (Created page with "In equilibrium sedimentation experiments, the reduced apparent molecular weight. This is the term which is directly measured by experiment; often it is fit by nonlinear least sq...")
- 14:47, 9 August 2011 (diff | hist) . . (+212) . . N Interpretation (Created page with "In the program Sednterp, interpretation refers to the computation of molecular structural properties from (σ) sigma, s and the experimental conditions. See also: [[Li...")
- 14:45, 9 August 2011 (diff | hist) . . (-1) . . m Theory of Computer Aided Interpretation of Sedimentation Data
- 14:45, 9 August 2011 (diff | hist) . . (+2,046) . . N Theory of Computer Aided Interpretation of Sedimentation Data (Created page with "The theory described here focuses on the interpretation of sedimentation data for purified proteins, glycoproteins or lipoproteins exhibiting relatively simple behavior in aq...")
- 14:00, 9 August 2011 (diff | hist) . . (+1,750) . . N Interpolate a viscosity (Created page with "To interpolate a density or viscosity press the compute button on either the buffer density or buffer viscosity frames. The buffer components form will appear. The same form wi...")
- 14:00, 9 August 2011 (diff | hist) . . (+968) . . N Calculating Estimates of Hydration and Asymmetry (Created page with "Comparing the minimal frictional coefficient with results from a Sedimentation Velocity experiment will yield estimates of maximum hydration and maximum asymmetry. Please not...")
- 13:59, 9 August 2011 (diff | hist) . . (+45) . . N 33 (Created page with "D.C. Teller, Nature (London), 1976, 260, 729.")
- 13:58, 9 August 2011 (diff | hist) . . (+156) . . N 28 (Created page with "T.F. Kumosinski and H. Pessen, 'Methods in Enzymology Volume 117', C.H.W. Hirs and S.N. Timasheff, eds., Academic Press, New York, 1985, Chapter 11, p. 154.")
- 13:57, 9 August 2011 (diff | hist) . . (+1,710) . . N Minimal frictional coefficient (Created page with "The equivalent radius is the radius of an anhydrous sphere of equivalent volume to a given protein. Given Mr and vbar, a vbar-dependent equivalent radius can be computed. An emp...")
- 13:54, 9 August 2011 (diff | hist) . . (+972) . . N Calculating the Equivalent Radius (Created page with "Comparing the minimal frictional coefficient with results from a Sedimentation Velocity experiment will yield estimates of maximum hydration and maximum asymmetry. Please no...")
- 13:52, 9 August 2011 (diff | hist) . . (+307) . . N Enter a molecular weight (Created page with "For those cases when the molecular weight of a sample is known, Sednterp allows the user to enter a molecular weight directly. Click on the Exact M button (alt-m shortcut keystr...")
- 13:52, 9 August 2011 (diff | hist) . . (+1,750) . . N An interpolated ρ (Created page with "To interpolate a density or viscosity press the compute button on either the buffer density or buffer viscosity frames. The buffer components form will appear. The same form wi...")
- 13:52, 9 August 2011 (diff | hist) . . (0) . . Data from a sedimentation equilibrium experiment
- 13:51, 9 August 2011 (diff | hist) . . (+1,254) . . N An interpolated (Created page with "Sednterp will interpolate the partial specific volume of proteins from the composition of the protein and its ligands. Optionally, Sednterp will also compute the molecular weigh...")
- 13:42, 9 August 2011 (diff | hist) . . (+91) . . N 26 (Created page with "M.L. Johnson, J.C. Correia, D.A. Yphantis and H.R. Halvorson Biophysical J., 1981, 36, 575.")
- 13:41, 9 August 2011 (diff | hist) . . (+84) . . N 2 (Created page with "J.W. Williams, K.E. Van Holde, R.L. Baldwin, and H. Fujita, Chem. Rev., 1958,58,715.")
- 13:40, 9 August 2011 (diff | hist) . . (+1,869) . . Table of symbols
- 21:01, 8 August 2011 (diff | hist) . . (+349) . . Table of symbols
- 20:57, 8 August 2011 (diff | hist) . . (+3) . . Table of symbols
- 20:56, 8 August 2011 (diff | hist) . . (+30) . . Table of symbols
- 20:56, 8 August 2011 (diff | hist) . . (-1) . . Table of symbols
- 20:55, 8 August 2011 (diff | hist) . . (+75) . . N Table of symbols (Created page with "{| |+!List of Symbols Used|- ! align="left"|Symbol ! Description ! Units |}")
- 20:49, 8 August 2011 (diff | hist) . . (+59) . . N 25 (Created page with "D.A Yphantis and D.F. Waugh, J. Phys. Chem., 1956, 60, 623.")
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