CITATIONS
Research reported in the following peer-reviewed journal articles relied on the Biophysics Instrumentation Facility.
Please add your publication to this list by providing a reprint (paper or electronic) to Dr. Darrell McCaslin.
Suggested Acknowledgment:
"(Instrument) data were obtained at the University of Wisconsin -
Madison Biophysics Instrumentation Facility, which was established with
support from the University of Wisconsin - Madison and grants
BIR-9512577 (NSF) and S10 RR13790 (NIH)."
2006
Drees,
J. C., Chitteni-Pattu, S., McCaslin, D. R., Inman, R. B., and Cox, M.
M. (2006) Inhibition of RecA protein function by the RdgC protein from Escherichia coli. J. Biol. Chem. 281, 4708-4717. 
Hodges, J. A., and Raines, R. T. (2006) Energetics of an n->p* interaction that impacts protein structure. Org. Lett. 8, 4695-4697.
Horng,
J. C., Hawk, A. J., Zhao, Q., Benedict, E. S., Burke, S. D., and Raines
R. T. (2006) Macrocyclic scaffold for the collagen triple helix. Org. Lett. 8, 4735-4738.
Horng, J. C., and Raines, R. T. (2006) Stereoelectronic effects on polyproline conformation. Protein Sci. 15, 74-83.
Kotch, F. W., and Raines, R. T. (2006) Self-assembly of synthetic collagen triple helices. Proc. Natl. Acad. Sci. USA 103, 3028-3033.
Johnson,
R. J., Lin, S. R., and Raines, R. T. (2006) A ribonuclease zymogen
activated by the NS3 protease of the hepatitis C virus. FEBS J. 273, 5457-5465.
Shoulders,
M. D., Hodges, J. A., and Raines, R. T. (2006) Reciprocity of steric
and stereoelectronic effects in the collagen triple helix. J. Am. Chem. Soc. 128, 8112-8113.
Smith, B. D., and Raines, R. T. (2006) Genetic selection for critical residues in ribonucleases. J. Mol. Biol. 362, 459-478.
2005
Dye,
B. T., Miller, D. J., and Ahlquist, P. (2005) In vivo self-interaction
of nodavirus RNA replicase protein A revealed by fluorescence resonance
energy transfer. J. Virol. 79, 8909-8919.
Hodges,
J. A., and Raines, R. T. (2005) Stereoelectronic and steric effects in
the collagen triple helix: Toward a code for strand association. J. Am. Chem. Soc. 127, 15923-15932.
Kersteen,
E. A., Barrows, S. R., and Raines, R. T. (2005) Catalysis of protein
disulfide bond isomerization in a homogeneous substrate. Biochemistry 44, 12168-12178.
Miller,
B. G., and Raines, R. T. (2005) Reconstitution of a defunct glycolytic
pathway via recruitment of ambiguous sugar kinases. Biochemistry 44, 10776-10783.
Rutkoski,
T. J., Kurten, E. L., Mitchell, J. C., and Raines, R. T. (2005)
Disruption of shape-complementarity markers to create cytotoxic
variants of ribonuclease A. J. Mol. Biol. 354, 41-54.
Selwood,
T., Smolensky, H., McCaslin, D. R., and Schechter, N. M. (2005) The
interaction of human tryptase-beta with small molecule inhibitors
provides new insights into the unusual functional instability and
quaternary structure of the protease. Biochemistry 44, 3580-3590.
2004
Eggington, J. M., Haruta, N., Wood, E. A., and Cox, M. M. (2004) The single-stranded DNA-binding protein of Deinococcus radiodruans. BMC Microbiol. 4, 1-12.
Miller,
B. G., and Raines, R. T. (2004) Identifying latent enzyme activities:
Substrate ambiguity within modern bacterial sugar kinases. Biochemistry 43, 6387-6392.
Rubio,
L. M., Singer, S. W., and Ludden, P. W. (2004) Purification and
characterization of NafY (apodinitrogenase gamma subunit) from Azotobacter vinelandii. J. Biol. Chem. 279, 19739-19746.
Subramanian,
L., Crabb, J. W., Cox, J., Durussel, I., Walker, T. M., van Ginkel, P.
R., Bhattacharya, S., Dellaria, J. M., Palczewski, K., and Polans, A.
S. (2004) Ca2+ binding to EF Hands 1 and 3 is essential for the interaction of apoptosis-linked gene-2 with Alix/AIP1 in ocular melanoma. Biochemistry 43, 11175-11186.
2003
Felitsky, D. J., and Record, M. T., Jr. (2003) Thermal and urea-induced unfolding of the marginally stable lac repressor DNA-binding domain: A model system for analysis of solute effects on protein processes. Biochemistry 42, 2202-2217.
Hannah,
B. L., Misenheimer, T. M., Annis, D. S., and Mosher, D. F. (2003) A
polymorphism in thrombospondin-1 associated with familial premature
coronary heart disease causes a local change in conformation of the Ca2+-binding repeats. J. Biol. Chem. 278, 8929-8934.
Hinderaker, M. P., and Raines, R. T. (2003) An electronic effect on protein structure. Protein Sci. 12, 1188-1194.
Hodges,
J. A., and Raines, R. T. (2003) Stereoelectronic effects on collagen
stability: The dichotomy of 4-fluoroproline diastereomers. J. Am. Chem. Soc. 125, 9262-9263.
Jenkins,
C. L., Bretscher, L. E., Guzei, I. A., and Raines, R. T. (2003) Effect
of 3-hydroxyproline residues on collagen stability. J. Am. Chem. Soc. 125, 6422-6427.
Lai,
J. R., and Gellman, S. H. (2003) Reinvestigation of the proposed
folding and self-association of the neuropeptide head activator. Protein Sci. 12, 560-566.
Lee,
J. E., and Raines, R. T. (2003) Contribution of active-site residues to
the function of onconase, a ribonuclease with antitumoral activity. Biochemistry 42, 11443-11450.
Misenheimer,
T. M., Hannah, B. L., Annis, D. S., and Mosher, D. F. (2003)
Interactions among the three structural motifs of the C-terminal region
of human thrombospondin-2. Biochemistry 42, 5125-5132.
Park,
J. S., Lee, H. S., Lai, J. R., Kim, B. M., and Gellman, S. H. (2003)
Accommodation of alpha-substituted residues in the beta-peptide
12-helix: Expanding the range of substitution patterns available to a
foldamer scaffold. J. Am. Chem. Soc. 125, 8539-8545.
Raguse,
T. L., Lai, J. R., and Gellman, S. H. (2003) Environment-independent
14-helix formation in short beta-peptides: Striking a balance between
shape control and functional diversity. J. Am. Chem. Soc. 125, 5592-5593.
Schinnerl,
M., Murray, J., Langenhan, J. M., and Gellman, S. H. (2003) Asymmetric
synthesis of a new helix-forming beta-amino acid: trans-4-Aminopiperidine-3-carboxylic acid. Eur. J. Org. Chem., 721-726.
Sheehan,
J. P., Kobbervig, C. E., and Kirkpatrick, H. M. (2003) Heparin inhibits
the intrinsic tenase complex by interacting with an exosite on factor
IXa. Biochemistry 42, 11316-11325.
Syud,
F. A., Stanger, H. E., Mortell, H. S., Espinosa, J. F., Fisk, J. D.,
Fry, C. G., and Gellman, S. H. (2003) Influence of strand number on
antiparallel beta-sheet stability in designed three- and four-stranded
beta-sheets. J. Mol. Biol. 326, 553-568.
2002
Cairo, C. W., Strzelec, A., Murphy, R. M., and Kiessling, L. L. (2002) Affinity-based inhibition of beta-amyloid toxicity. Biochemistry 41, 8620-8629.
Espinosa,
J. F., Syud, F. A., and Gellman, S. H. (2002) Analysis of the factors
that stabilize a designed two-stranded antiparallel beta-sheet. Protein Sci. 11, 1492-1505.
Gestwicki,
J. E., Cairo, C. W., Mann, D. A., Owen, R. M., and Kiessling, L. L.
(2002) Selective immobilization of multivalent ligands for surface
plasmon resonance and fluorescence microscopy. Anal. Biochem. 305, 149-155.
Hegeman,
A. D., Gross, J. W., and Frey, P. A. (2002) Concerted and stepwise
dehydration mechanisms observed in wild-type and mutated Escherichia coli dTDP-glucose 4,6-dehydratase. Biochemistry 41, 2797-2804.
Herdendorf, T. J., McCaslin, D. R., and Forest, K. T. (2002) Aquifex aeolicus PilT, homologue of a surface motility protein, is a thermostable oligomeric NTPase. J. Bacteriol. 184, 6465-6471.
Huwiler,
K. G., Vestling, M. M., Annis, D. S., and Mosher, D. F. (2002)
Biophysical characterization, including disulfide bond assignments, of
the anti-angiogenic type 1 domains of human thrombospondin-1. Biochemistry 41, 14329-14339.
Kuloglu,
E. S., McCaslin, D. R., Markley, J. L., and Volkman, B. F. (2002)
Structural rearrangement of human lymphotactin, a C chemokine, under
physiological solution conditions. J. Biol. Chem. 277, 17863-17870.
Lai,
J. R., Huck, B. R., Weisblum, B., and Gellman, S. H. (2002) Design of
non-cysteine-containing antimicrobial beta-hairpins: Structure?activity
relationship studies with linear protegrin-1 analogues. Biochemistry 41, 12835-12842.
LePlae,
P. R., Fisk, J. D., Porter, E. A., Weisblum, B., and Gellman, S. H.
(2002) Tolerance of acyclic residues in the beta-peptide 12-helix:
Access to diverse side-chain arrays for biological applications. J. Am. Chem. Soc. 124, 6820-6821.
Porter,
E. A., Wang, X., Schmitt, M. A., and Gellman, S. H. (2002) Synthesis
and 12-helical secondary structure of beta-peptides containing (2R,3R)-aminoproline. Org. Lett. 4, 3317-3319.
Porter,
E. A., Weisblum, B., and Gellman, S. H. (2002) Mimicry of host-defense
peptides by unnatural oligomers: Antimicrobial beta-peptides. J. Am. Chem. Soc. 124, 7324-7330.
Raguse, T. R., Lai, J. R., and Gellman, S. H. (2002a) Evidence that the beta-peptide 14-helix is stabilized by beta3-residues with sidechain branching adjacent to the beta-carbon. Helv. Chim. Acta 85, 4154-4164.
Raguse,
T. L., Porter, E. A., Weisblum, B., and Gellman, S. H. (2002b)
Structure?activity studies of 14-helical antimicrobial beta-peptides:
Probing the relationship between conformational stability and
antimicrobial potency. J. Am. Chem. Soc. 124, 12774-12785.
Selwood,
T., Wang, Z. M., McCaslin, D. R., and Schechter, N. M. (2002) Diverse
stability and catalytic properties of human tryptase alpha and beta
isoforms are mediated by residue differences at the S1 pocket. Biochemistry 41, 3329-3340.
Woll,
M. G., Fisk, J. D., LePlae, P. R., and Gellman, S. H. (2002)
Stereoselective synthesis of 3-substituted
2-aminocyclopentanecarboxylic acid derivatives and their incorporation
into short 12-helical beta-peptides that fold in water. J. Am. Chem. Soc. 124, 12447-12452.
2001
Bretscher,
L. E., Jenkins, C. L., Taylor, K. M., DeRider, M. L., and Raines, R. T.
(2001) Conformational stability of collagen relies on a
stereoelectronic effect. J. Am. Chem. Soc. 123, 777-778.
Espinosa,
J. F., Munoz, V., and Gellman, S. H. (2001) Interplay between
hydrophobic cluster and loop propensity in beta-hairpin formation. J. Mol. Biol. 306, 397-402.
Fisk, J. D., and Gellman, S. H. (2001) A parallel beta-sheet model system that folds in water. J. Am. Chem. Soc. 123, 343-344.
Gross,
J. W., Hegeman, A. D., Gerratana, B., and Frey, P. A. (2001)
Dehydration is catalyzed by glutamate-136 and aspartic acid-135 active
site residues in Escherichia coli dTDP-glucose 4,6-dehydratase. Biochemistry 40, 12497-12504.
Hegeman, A. D., Gross, J. W., and Frey, P. A. (2001) Probing catalysis by Escherichia coli
dTDP-glucose-4,6-dehydratase: Identification and preliminary
characterization of functional amino acid residues at the active site. Biochemistry 40, 6598-6610.
Isenbarger,
T. A., and Krebs, M. P. (2001) Thermodynamic stability of the
bacteriorhodopsin lattice as measured by lipid dilution. Biochemistry 40, 11923-11931.
Kersteen,
E. A., and Raines, R. T. (2001) Contribution of tertiary amides to the
conformational stability of collagen triple helices. Biopolymers 59, 24-28.
Klink,
T. A., Vicentini, A. M., Hofsteenge, J., and Raines, R. T. (2001)
High-level soluble production and characterization of porcine
ribonuclease inhibitor. Protein Expr. Purif. 22, 174-179.
Kuloglu,
E. S., McCaslin, D. R., Kitabwalla, M., Pauza, C. D., Markley, J. L.,
and Volkman, B. F. (2001) Monomeric solution structure of the
prototypical 'C' chemokine lymphotactin. Biochemistry 40, 12486-12496.
Lee,
H. S., Syud, F. A., Wang, X., and Gellman, S. H. (2001) Diversity in
short beta-peptide 12-helices: High-resolution structural analysis in
aqueous solution of a hexamer containing sulfonylated pyrrolidine
residues. J. Am. Chem. Soc. 123, 7721-7722.
Misenheimer,
T. M., Hahr, A. J., Harms, A. C., Annis, D. S., and Mosher, D. F.
(2001) Disulfide connectivity of recombinant C-terminal region of human
thrombospondin 2. J. Biol. Chem. 276, 45882-45887.
Park,
C., Schultz, L. W., and Raines, R. T. (2001) Contribution of the active
site histidine residues of ribonuclease A to nucleic acid binding. Biochemistry 40, 4949-4956.
Raguse,
T. L., Lai, J. R., LePlae, P. R., and Gellman, S. H. (2001) Toward
beta-peptide tertiary structure: Self-association of an amphiphilic
14-helix in aqueous solution. Org. Lett. 3, 3963-3966.
Stanger,
H. E., Syud, F. A., Espinosa, J. F., Giriat, I., Muir, T., and Gellman,
S. H. (2001) Length-dependent stability and strand length limits in
antiparallel beta-sheet secondary structure. Proc. Natl. Acad. Sci. USA 98, 12015-12020.
Syud,
F. A., Stanger, H. E., and Gellman, S. H. (2001) Interstrand side
chain?side chain interactions in a designed beta-hairpin: Significance
of both lateral and diagonal pairings. J. Am. Chem. Soc. 123, 8667-8677.
2000
Espinosa, J. F., and Gellman, S. H. (2000) A designed beta-hairpin containing a natural hydrophobic cluster. Angew. Chem. Int. Ed. Eng. 39, 2330-2333.
Klink, T. A., and Raines, R. T. (2000) Conformational stability is a determinant of ribonuclease A cytotoxicity. J. Biol. Chem. 275, 17463-17467.
Klink,
T. A., Woycechowsky, K. J., Taylor, K. M., and Raines, R. T. (2000)
Contribution of disulfide bonds to the conformational stability and
catalytic activity of ribonuclease A. Eur. J. Biochem. 267, 566-572.
Lee,
L. V., Poyner, R. R., Vu, M. V., and Cleland, W. W. (2000) Role of
metal ions in the reaction catalyzed by L-ribulose-5-phosphate
4-epimerase. Biochemistry 39, 4821-4830.
Lee, L. V., Vu, M. V., and Cleland, W. W. (2000) 13C and deuterium isotope effects suggest an aldol cleavage mechanism for L-ribulose-5-phosphate 4-epimerase. Biochemistry 39, 4808-4820.
Leland,
P. A., Staniszewski, K. E., Kim, B., and Raines, R. T. (2000) A
synapomorphic disulfide bond is critical for the conformational
stability and cytotoxicity of an amphibian ribonuclease. FEBS Lett. 477, 203-207.
McQuade,
D. T., Quinn, M. A., Yu, S. M., Polans, A. S., Krebs, M. P., and
Gellman, S. H. (2000) Rigid amphiphiles for membrane protein
manipulation. Angew. Chem. Int. Ed. Eng. 39, 758-761.
Messmore, J. M., and Raines, R. T. (2000) Decavanadate inhibits catalysis by ribonuclease A. Arch. Biochem. Biophys. 381, 25-30.
Messmore,
J. M., and Raines, R. T. (2000) Pentavalent organo-vanadates as
transition state analogues for phosphoryl transfer reactions. J. Am. Chem. Soc. 122, 9911-9916.
Misenheimer,
T. M., Huwiler, K. G., Annis, D. S., and Mosher, D. F. (2000) Physical
characterization of the procollagen module of human thrombospondin 1
expressed in insect cells. J. Biol. Chem. 275, 40938-40945.
Wang,
X., Espinosa, J. F., and Gellman, S. H. (2000) 12-Helix formation in
aqueous solution with short beta-peptides containing pyrrolidine-based
residues. J. Am. Chem. Soc. 122, 4821-4822.
Yu,
S. M., McQuade, D. T., Quinn, M. A., Hackenberger, C. P., Krebs, M. P.,
Polans, A. S., and Gellman, S. H. (2000) An improved tripod amphiphile
for membrane protein solubilization. Protein Sci. 9, 2518-2527.
Amann, K. J., Guo, A. W., and Ervasti, J. M. (1999) Utrophin lacks the rod domain actin binding activity of dystrophin. J. Biol. Chem. 274, 35375-35380.
Appella,
D. H., Christianson, L. A., Karle, I. L., Powell, D. R., and Gellman,
S. H. (1999) Synthesis and characterization of
trans-2-aminocyclohexanecarboxylic acid oligomers: An unnatural
secondary structure and implications for beta-peptide tertiary
structure. J. Am. Chem. Soc. 121, 6206-6212.
Appella,
D. H., Christianson, L. A., Klein, D. A., Richards, M. R., Powell, D.
R., and Gellman, S. H. (1999) Synthesis and characterization of
helix-forming beta-peptides: trans-2-Aminocyclopentanecarboxylic acid oligomers. J. Am. Chem. Soc. 121, 7574-7581.
Daugherty,
D. L., and Gellman, S. H. (1999) A fluorescence assay of leucine zipper
dimerization: Avoiding unintended consequences of fluorophore
attachment. J. Am. Chem. Soc. 121, 4325-4333.
Geeganage,
S., and Frey, P. A. (1999) Significance of metal ions in
galactose-1-phosphate uridylyltransferase: an essential structural zinc
and a nonessential structural iron. Biochemistry 38, 13398-13406.
Holmgren, S. K., Bretscher, L. E., Taylor, K. M., and Raines, R. T. (1999) A hyperstable collagen mimic. Chem. Biol. 6, 63-70.
Huck,
B. R., Langenhan, J. M., and Gellman, S. H. (1999) Non-hydrogen-bonded
secondary structure in beta-peptides: Evidence from circular dichroism
of (S)-pyrrolidine-3-carboxylic acid oligomers and (S)-nipecotic acid oligomers. Org. Lett. 1, 1717-1720.
Isenbarger, T. A., and Krebs, M. P. (1999) Role of helix?helix interactions in assembly of the bacteriorhodopsin lattice. Biochemistry 38, 9023-9030.
Mannino, S. J., Jenkins, C. L., and Raines, R. T. (1999) Chemical mechanism of DNA cleavage by the homing endonuclease I-PpoI. Biochemistry 38, 16178-16186.
Ralph, J., Peng, J., Lu, F., Hatfield, R. D., and Helm, R. F. (1999) Are lignins optically active? J. Agric. Food Chem. 47, 2991-2996.
Strugnell,
S. A., Hill, J. J., McCaslin, D. R., Wiefling, B. A., Royer, C. A., and
DeLuca, H. F. (1999) Bacterial expression and characterization of the
ligand-binding domain of the vitamin D receptor. Arch. Biochem. Biophys. 364, 42-52.
Sukharev,
S. I., Schroeder, M. J., and McCaslin, D. R. (1999) Stoichiometry of
the large conductance bacterial mechanosensitive channel of E. coli. A biochemical study. J. Membr. Biol. 171, 183-193.
Syud,
F. A., Espinosa, J. F., and Gellman, S. H. (1999) NMR-Based
quantification of beta-sheet populations in aqueous solution through
use of reference peptides for the folded and unfolded states. J. Am. Chem. Soc. 121, 11577-11578.
Amann,
K. J., Renley, B. A., and Ervasti, J. M. (1998) A cluster of basic
repeats in the dystrophin rod domain binds F-actin through an
electrostatic interaction. J. Biol. Chem. 273, 28419-28423.
Fisher,
B. M., Schultz, L. W., and Raines, R. T. (1998) Coulombic effects of
remote subsites on the active site of ribonuclease A. Biochemistry 37, 17386-17401.
Geeganage,
S., and Frey, P. A. (1998) Transient kinetics of formation and reaction
of the uridylyl-enzyme form of galactose-1-P uridylyltransferase and
its Q168R-variant: insight into the molecular basis of galactosemia. Biochemistry 37, 14500-14507.
Holmgren, S. K., Taylor, K. M., Bretscher, L. E., and Raines, R. T. (1998) Code for collagen's stability deciphered. Nature 392, 666-667.
Leland, P. A., Schultz, L. W., Kim, B. M., and Raines, R. T. (1998) Ribonuclease A variants with potent cytotoxic activity. Proc. Natl. Acad. Sci. USA 95, 10407-10412.
Mahnke Braam, L. A., and Reznikoff, W. S. (1998) Functional characterization of the Tn5 transposase by limited proteolysis. J. Biol. Chem. 273, 10908-10913.
Mann,
D. A., Kanai, M., Maly, D. J., and Kiessling, L. L. (1998) Probing low
affinity and multivalent interactions with surface plasmon resonance:
Ligands for concanavalin A. J. Am. Chem. Soc. 120, 10575-10582.
Schenck,
H. L., and Gellman, S. H. (1998) Use of a designed triple-stranded
antiparallel beta-sheet to probe beta-sheet cooperativity in aqueous
solution. J. Am. Chem. Soc. 120, 4869-4870.
Schultz,
L. W., Hargraves, S. R., Klink, T. A., and Raines, R. T. (1998)
Structure and stability of the P93G variant of ribonuclease A. Protein Sci. 7, 1620-1625.
Selwood,
T., McCaslin, D. R., and Schechter, N. M. (1998) Spontaneous
inactivation of human tryptase involves conformational changes
consistent with conversion of the active site to a zymogen-like
structure. Biochemistry 37, 13174-13183.
Stanger,
H. E., and Gellman, S. H. (1998) Rules for antiparallel beta-sheet
design: D-Pro?Gly is superior to L-Asn?Gly for beta-hairpin nucleation.
J. Am. Chem. Soc. 120, 4236-4237.
Blehert,
D. S., Knoke, K. L., Fox, B. G., and Chambliss, G. H. (1997)
Regioselectivity of nitroglycerin denitration by flavoprotein
nitroester reductases purified from two Pseudomonas species. J. Bacteriol. 179, 6912-6920.
Haque,
T. S., and Gellman, S. H. (1997) Insights on beta-hairpin stability in
aqueous solution from peptides with enforced type 1' and type II'
beta-turns. J. Am. Chem. Soc. 119, 2302-2304.
Selzer,
R. R., and Elfarra, A. A. (1997) Chemical modification of deoxycytidine
at different sites yields adducts of different stabilities:
characterization of N3- and O2-deoxycytidine and N3-deoxyuridine
adducts of butadiene monoxide. Arch. Biochem. Biophys. 343, 63-72.
1996
Schenck,
H. L., Dado, G. P., and Gellman, S. H. (1996) Redox-triggered secondary
structure changes in the aggregated states of a designed
methionine-rich peptide. J. Am. Chem. Soc. 118, 12487-12494.
Truckses, D. M., Somoza, J. R., Prehoda, K. E., Miller, S. C., and Markley, J. L. (1996) Coupling between trans/cis proline isomerization and protein stability in staphylococcal nuclease. Protein Sci. 5, 1907-1916.