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1

A Model Binding Site for Testing Scoring Functions in Molecular Docking

Binqing Q. Wei, Walter A. Baase, Larry H. Weaver, Brian W. Matthews, Brian K. Shoichet

Journal:

Journal of Molecular Biology

Year:

2002

Language:

english

File:

PDF, 2.17 MB

english, 2002

2

Lessons from the lysozyme of phage T4

Walter A. Baase, Lijun Liu, Dale E. Tronrud, Brian W. Matthews

Journal:

Protein Science

Year:

2010

Language:

english

File:

PDF, 626 KB

english, 2010

3

Circular dichroism and DNA secondary structure

Baase, Walter A., Johnson, W.Curtis

Journal:

Nucleic Acids Research

Year:

1979

Language:

english

File:

PDF, 638 KB

english, 1979

4

Docking molecules by families to increase the diversity of hits in database screens: Computational strategy and experimental evaluation

Andrew I. Su, David M. Lorber, G. Scott Weston, Walter A. Baase, Brian W. Matthews, Brian K. Shoichet

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2001

Language:

english

File:

PDF, 314 KB

english, 2001

5

Conformation and circular dichroism of DNA

Cindy A. Sprecher, Walter A. Baase, W. Curtis Johnson Jr.

Journal:

Year:

1979

Language:

english

File:

PDF, 496 KB

english, 1979

6

Precollapse of T7 DNA by spermidine at low ionic strength: A linear dichroism and intrinsic viscosity study

Walter A. Baase, Paul W. Staskus, Stuart A. Allison

Journal:

Year:

1984

Language:

english

File:

PDF, 932 KB

english, 1984

7

Thermal denaturation of bacteriophage T4 lysozyme at neutral pH

Wayne J. Becktel, Walter A. Baase

Journal:

Year:

1987

Language:

english

File:

PDF, 304 KB

english, 1987

8

A lysoplate assay for Escherichia coli cell wall-active enzymes

Wayne J. Becktel, Walter A. Baase

Journal:

Analytical Biochemistry

Year:

1985

Language:

english

File:

PDF, 1.43 MB

english, 1985

9

A helix initiation signal in T4 lysozyme identified by polyalanine mutagenesis

Xue-jun Zhang, Walter A Baase, Brian W Matthews

Journal:

Biophysical Chemistry

Year:

2002

Language:

english

File:

PDF, 285 KB

english, 2002

10

Multiple methionine substitutions are tolerated in T4 lysozyme and have coupled effects on folding and stability

Nadine C. Gassner, Walter A. Baase, Blaine H.M. Mooers, Robert D. Busam, Larry H. Weaver, Joel D. Lindstrom, Michael L. Quillin, Brian W. Matthews

Journal:

Biophysical Chemistry

Year:

2003

Language:

english

File:

PDF, 397 KB

english, 2003

11

Hydrophobic core repacking and aromatic–aromatic interaction in the thermostable mutant of T4 lysozyme ser 117 → phe

D. Eric Anderson, James H. Hurley, Hale Nicholson, Walter A. Baase, Brian W. Matthews

Journal:

Protein Science

Year:

1993

Language:

english

File:

PDF, 617 KB

english, 1993

12

Development of an in vivo method to identify mutants of phage T4 lysozyme of enhanced thermostability

Philip Pjura, Masazumi Matsumura, Walter A. Baase, Brian W. Matthews

Journal:

Protein Science

Year:

1993

Language:

english

File:

PDF, 1.69 MB

english, 1993

13

Protein structural plasticity exemplified by insertion and deletion mutants in T4 lysozyme

Ingrid R. Vetter, Walter A. Baase, Dirk W. Heinz, Jian-Ping Xiong, Sheila Snow, Brian W. Matthews

Journal:

Protein Science

Year:

1996

Language:

english

File:

PDF, 10.31 MB

english, 1996

14

The response of T4 lysozyme to large-to-small substitutions within the core and its relation to the hydrophobic effect

Jian Xu, Walter A. Baase, Enoch Baldwin, Brian W. Matthews

Journal:

Protein Science

Year:

1998

Language:

english

File:

PDF, 7.39 MB

english, 1998

15

Context-dependent protein stabilization by methionine-to-leucine substitution shown in T4 lysozyme

Leigh Ann Lipscomb, Nadine C. Gassner, Sheila D. Snow, Aimee M. Eldridge, Walter A. Baase, Devin L. Drew, Brain W. Matthews

Journal:

Protein Science

Year:

1998

Language:

english

File:

PDF, 737 KB

english, 1998

16

Context-dependent protein stabilization by methionine-to-leucine substitution shown in T4 lysozyme

Leigh Ann Lipscomb, Nadine C. Gassner, Sheila D. Snow, Aimee M. Eldridge, Walter A. Baase, L. Drew, Brian W. Matthews

Journal:

Protein Science

Year:

1998

Language:

english

File:

PDF, 64 KB

english, 1998

17

Contributions of all 20 amino acids at site 96 to the stability and structure of T4 lysozyme

Blaine H. M. Mooers, Walter A. Baase, Jonathan W. Wray, Brian W. Matthews

Journal:

Protein Science

Year:

2009

Language:

english

File:

PDF, 867 KB

english, 2009

18

How amino-acid insertions are allowed in an α-helix of T4 lysozyme

Heinz, Dirk W., Baase, Walter A., Dahlquist, Frederick W., Matthews, Brian W.

Journal:

Year:

1993

File:

PDF, 456 KB

1993

19

Alanine-scanning mutagenesis of the β-sheet region of phage T4 lysozyme suggests that tertiary context has a dominant effect on β-sheet formation

Molly M. He, Zachary A. Wood, Walter A. Baase, Hong Xiao, Brian W. Matthews

Journal:

Protein Science

Year:

2004

Language:

english

File:

PDF, 254 KB

english, 2004

20

Guanidinium derivatives bind preferentially and trigger long-distance conformational changes in an engineered T4 lysozyme

Mohammad S. Yousef, Nicole Bischoff, Collin M. Dyer, Walter A. Baase, Brian W. Matthews

Journal:

Protein Science

Year:

2006

Language:

english

File:

PDF, 407 KB

english, 2006

21

Sequential reorganization of β-sheet topology by insertion of a single strand

Martin Sagermann, Walter A. Baase, Brian W. Matthews

Journal:

Protein Science

Year:

2006

Language:

english

File:

PDF, 568 KB

english, 2006

22

A test of proposed rules for helix capping: Implications for protein design

Martin Sagermann, Lars-Göran Mårtensson, Walter A. Baase, Brian W. Matthews

Journal:

Protein Science

Year:

2002

Language:

english

File:

PDF, 191 KB

english, 2002

23

Alanine Scanning Mutagenesis of the α-Helix 115-123 of Phage T4 Lysozyme: Effects on Structure, Stability and the Binding of Solvent

Michael Blaber, Walter A. Baase, Nadine Gassner, Brian W. Matthews

Journal:

Journal of Molecular Biology

Year:

1995

Language:

english

File:

PDF, 1.17 MB

english, 1995

24

Determination of α-Helix Propensity within the Context of a Folded Protein: Sites 44 and 131 in Bacteriophage T4 Lysozyme

Michael Blaber, Xue-jun Zhang, Joel D. Lindstrom, Sheila D. Pepiot, Walter A. Baase, Brian W. Matthews

Journal:

Journal of Molecular Biology

Year:

1994

File:

PDF, 1.24 MB

1994

25

Accommodation of Amino Acid Insertions in an α-Helix of T4 Lysozyme: Structural and Thermodynamic Analysis

Dirk W. Heinz, Walter A. Baase, Xue-Jun Zhang, Michael Blaber, Frederick W. Dahlquist, Brian W. Matthews

Journal:

Journal of Molecular Biology

Year:

1994

File:

PDF, 970 KB

1994

26

Thermodynamic and Structural Compensation in “Size-switch” Core Repacking Variants of Bacteriophage T4 Lysozyme

Enoch Baldwin, Jian Xu, Omid Hajiseyedjavadi, Walter A. Baase, Brian W. Matthews

Journal:

Journal of Molecular Biology

Year:

1996

Language:

english

File:

PDF, 722 KB

english, 1996

27

Generation of ligand binding sites in T4 lysozyme by deficiency-creating substitutions

Enoch Baldwin, Walter A Baase, Xue-jun Zhang, Victoria Feher, Brian W Matthews

Journal:

Journal of Molecular Biology

Year:

1998

Language:

english

File:

PDF, 681 KB

english, 1998

28

Structural analysis of a non-contiguous second-site revertant in T4 lysozyme shows that increasing the rigidity of a protein can enhance its stability

Jonathan W Wray, Walter A Baase, Joel D Lindstrom, Larry H Weaver, Anthony R Poteete, Brian W Matthews

Journal:

Journal of Molecular Biology

Year:

1999

Language:

english

File:

PDF, 323 KB

english, 1999

29

The introduction of strain and its effects on the structure and stability of T4 lysozyme

Rangjiao Liu, Walter A Baase, Brian W Matthews

Journal:

Journal of Molecular Biology

Year:

2000

Language:

english

File:

PDF, 724 KB

english, 2000

30

Substitution with selenomethionine can enhance the stability of methionine-rich proteins

Nadine C Gassner, Walter A Baase, Andrew C Hausrath, Brian W Matthews

Journal:

Journal of Molecular Biology

Year:

1999

Language:

english

File:

PDF, 122 KB

english, 1999

31

Design and structural analysis of alternative hydrophobic core packing arrangements in bacteriophage T4 lysozyme

James H. Hurley, Walter A. Baase, Brian W. Matthews

Journal:

Journal of Molecular Biology

Year:

1992

Language:

english

File:

PDF, 1.76 MB

english, 1992

32

Structure of the Nucleocapsid-Binding Domain from the Mumps Virus Polymerase; an Example of Protein Folding Induced by Crystallization

Richard L. Kingston, Leslie S. Gay, Walter S. Baase, Brian W. Matthews

Journal:

Journal of Molecular Biology

Year:

2008

Language:

english

File:

PDF, 1.30 MB

english, 2008

33

Halogenated Benzenes Bound within a Non-polar Cavity in T4 Lysozyme Provide Examples of I⋯S and I⋯Se Halogen-bonding

Lijun Liu, Walter A. Baase, Brian W. Matthews

Journal:

Journal of Molecular Biology

Year:

2009

Language:

english

File:

PDF, 1.51 MB

english, 2009

34

Repacking the Core of T4 Lysozyme by Automated Design

Blaine H.M. Mooers, Deepshikha Datta, Walter A. Baase, Eric S. Zollars, Stephen L. Mayo, Brian W. Matthews

Journal:

Journal of Molecular Biology

Year:

2003

Language:

english

File:

PDF, 2.24 MB

english, 2003

35

Structural and thermodynamic analysis of the binding of solvent at internal sites in T4 lysozyme

Jian Xu, Walter A. Baase, Michael L. Quillin, Enoch P. Baldwin, Brian W. Matthews

Journal:

Protein Science

Year:

2001

Language:

english

File:

PDF, 720 KB

english, 2001

36

Spectrophotometric and visual titrations of milligram amounts of strontium with EDTA

Salomon, Jean., Vance, John E., Baase, Walter A.

Journal:

Analytical Chemistry

Year:

1969

Language:

english

File:

PDF, 393 KB

english, 1969

37

Comparing the Thermodynamic Stabilities of a Related Thermophilic and Mesophilic Enzyme †

Beadle, Beth M., Baase, Walter A., Wilson, David B., Gilkes, Neil R., Shoichet, Brian K.

Journal:

Year:

1999

Language:

english

File:

PDF, 145 KB

english, 1999

38

Energetic origins of specificity of ligand binding in an interior nonpolar cavity of T4 lysozyme

Morton, Andrew, Baase, Walter A., Matthews, Brian W.

Journal:

Year:

1995

Language:

english

File:

PDF, 2.10 MB

english, 1995

39

Mechanistic Studies of DNA-Protein Interactions in Bacteriophage T4 DNA Replication Complexes at Single-Base Resolution

Jose, Davis, Weitzel, Steven E., Baase, Walter A., von Hippel, Peter H.

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 41 KB

english, 2014

40

Structural and Thermodynamic Characterization of T4 Lysozyme Mutants and the Contribution of Internal Cavities to Pressure Denaturation

Ando, Nozomi, Barstow, Buz, Baase, Walter A., Fields, Andrew, Matthews, Brian A., Gruner, Sol M.

Journal:

Biophysical Journal

Year:

2009

Language:

english

File:

PDF, 52 KB

english, 2009

41

Disulfide Bonds and Thermal Stability in T4 Lysozyme

Ronald Wetzel, L. Jeanne Perry, Walter A. Baase and Wayne J. Becktel

Journal:

Proceedings of the National Academy of Sciences

Year:

1988

Language:

english

File:

PDF, 1.13 MB

english, 1988

42

Hydrophobic Packing in T4 Lysozyme Probed by Cavity-Filling Mutants

Mihail Karpusas, Walter A. Baase, Masazumi Matsumura and Brian W. Matthews

Journal:

Proceedings of the National Academy of Sciences

Year:

1989

Language:

english

File:

PDF, 1020 KB

english, 1989

43

A Test of the ``Jigsaw Puzzle" Model for Protein Folding by Multiple Methionine Substitutions within the Core of T4 Lysozyme

Nadine C. Gassner, Walter A. Baase and Brian W. Matthews

Journal:

Proceedings of the National Academy of Sciences

Year:

1996

Language:

english

File:

PDF, 1.22 MB

english, 1996

44

Structural Characterization of an Engineered Tandem Repeat Contrasts the Importance of Context and Sequence in Protein Folding

Martin Sagermann, Walter A. Baase and Brian W. Matthews

Journal:

Proceedings of the National Academy of Sciences

Year:

1999

Language:

english

File:

PDF, 1.83 MB

english, 1999

45

Dissection of helix capping in T4 lysozyme by structural and thermodynamic analysis of six amino acid substitutions at Thr 59

Bell, Jeffrey A., Becktel, Wayne J., Sauer, Uwe, Baase, Walter A., Matthews, Brian W.

Journal:

Year:

1992

Language:

english

File:

PDF, 2.53 MB

english, 1992

46

Relocation or Duplication of the Helix A Sequence of T4 Lysozyme Causes Only Modest Changes in Structure but Can Increase or Decrease the Rate of Folding †

Sagermann, Martin, Baase, Walter A., Mooers, Blaine H. M., Gay, Leslie, Matthews, Brian W.

Journal:

Year:

2004

Language:

english

File:

PDF, 380 KB

english, 2004

47

ι Protein from Drosophila melanogaster

Baase, Walter A., Wang, James C.

Journal:

Year:

1974

Language:

english

File:

PDF, 627 KB

english, 1974

48

Structural and Thermodynamic Characterization of T4 Lysozyme Mutants and the Contribution of Internal Cavities to Pressure Denaturation †

Ando, Nozomi, Barstow, Buz, Baase, Walter A., Fields, Andrew, Matthews, Brian W., Gruner, Sol M.

Journal:

Year:

2008

Language:

english

File:

PDF, 2.30 MB

english, 2008

49

Protein folding: assignment of the energetic changes of reversible chemical modifications to the folded or unfolded states

Lu, Jirong, Baase, Walter A., Muchmore, David C., Dahlquist, Frederick W.

Journal:

Year:

1992

Language:

english

File:

PDF, 1009 KB

english, 1992

50

Folding kinetics of T4 lysozyme and nine mutants at 12 .degree.C

Chen, Bao Lu, Baase, Walter A., Nicholson, Hale, Schellman, John A.

Journal:

Year:

1992

Language:

english

File:

PDF, 1.64 MB

english, 1992