Bystroff, Christopher: search on Z-Library

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1

Complementation and Reconstitution of Fluorescence from Circularly Permuted and Truncated Green Fluorescent Protein †

Huang, Yao-ming, Bystroff, Christopher

Journal:

Year:

2009

Language:

english

File:

PDF, 1.79 MB

english, 2009

2

InteractiveROSETTA: a graphical user interface for the PyRosetta protein modeling suite: Fig. 1.

Schenkelberg, Christian D., Bystroff, Christopher

Journal:

Year:

2015

Language:

english

File:

PDF, 191 KB

english, 2015

3

HMMSTR: a hidden Markov model for local sequence-structure correlations in proteins

Christopher Bystroff, Vesteinn Thorsson, David Baker

Journal:

Journal of Molecular Biology

Year:

2000

Language:

english

File:

PDF, 731 KB

english, 2000

4

Local sequence-structure correlations in proteins

Christopher Bystroff, Kim T Simons, Karen F Han, David Baker

Journal:

Current Opinion in Biotechnology

Year:

1996

Language:

english

File:

PDF, 519 KB

english, 1996

5

Protein Structure Prediction Volume 65 || Hidden Markov Models for Prediction of Protein Features

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 793 KB

english, 2008

6

Three-dimensional structures and contexts associated with recurrent amino acid sequence patterns

Karen E Han, Christopher Bystroff, David Baker

Journal:

Protein Science

Year:

1997

Language:

english

File:

PDF, 2.36 MB

english, 1997

7

Protein Structure Prediction Volume 44 || Roadmap Methods for Protein Folding

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 576 KB

english, 2008

8

Green-lighting green fluorescent protein: Faster and more efficient folding by eliminating a cis-trans peptide isomerization event

Rosenman, David J., Huang, Yao-ming, Xia, Ke, Fraser, Keith, Jones, Victoria E., Lamberson, Colleen M., Van Roey, Patrick, Colón, Wilfredo, Bystroff, Christopher

Journal:

Protein Science

Year:

2014

Language:

english

File:

PDF, 518 KB

english, 2014

9

Protein Structure Prediction Volume 44 || Scoring Functions for De Novo Protein Structure Prediction Revisited

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 1.26 MB

english, 2008

10

Prediction of local structure in proteins using a library of sequence-structure motifs

Christopher Bystroff, David Baker

Journal:

Journal of Molecular Biology

Year:

1998

Language:

english

File:

PDF, 1.76 MB

english, 1998

11

Computationally Guided Rational Design of LOO-GFP Biosensors and Biosensor Materials

Banerjee, Shounak, Jordan, Thomas B., Fraser, Keith, Reimertz, Justin, Crone, Emily E., Bunn, Adrianne L., Mincer, Joshua, Booth, Rebecca M., Crone, Donna E., Bondos, Sarah E., Bystroff, Christopher

Journal:

Biophysical Journal

Year:

2019

Language:

english

File:

PDF, 44 KB

english, 2019

12

A Rewired Green Fluorescent Protein: Folding and Function in a Nonsequential, Noncircular GFP Permutant

Reeder, Philippa J., Huang, Yao-Ming, Dordick, Jonathan S., Bystroff, Christopher

Journal:

Year:

2010

Language:

english

File:

PDF, 2.69 MB

english, 2010

13

Protein Structure Prediction Volume 44 || Protein–Protein Docking: Overview and Performance Analysis

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 834 KB

english, 2008

14

The Designability of Protein Switches by Chemical Rescue of Structure: Mechanisms of Inactivation and Reactivation

Xia, Yan, DiPrimio, Nina, Keppel, Theodore R., Vo, Binh, Fraser, Keith, Battaile, Kevin P., Egan, Chet, Bystroff, Christopher, Lovell, Scott, Weis, David D., Anderson, J. Christopher, Karanicolas, Joh

Journal:

Journal of the American Chemical Society

Year:

2013

Language:

english

File:

PDF, 2.77 MB

english, 2013

15

Toward rational thermostabilization of Aspergillus oryzae cutinase: Insights into catalytic and structural stability

Shirke, Abhijit N., Basore, Danielle, Butterfoss, Glenn L., Bonneau, Richard, Bystroff, Christopher, Gross, Richard A.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2016

Language:

english

File:

PDF, 606 KB

english, 2016

16

Comparative void-volume analysis of psychrophilic and mesophilic enzymes: Structural bioinformatics of psychrophilic enzymes reveals sources of core flexibility

Diana I Paredes, Kyle Watters, Derek J Pitman, Christopher Bystroff, Jonathan S Dordick

Journal:

BMC Structural Biology

Year:

2011

Language:

english

File:

PDF, 187 KB

english, 2011

17

Geofold: Topology-based protein unfolding pathways capture the effects of engineered disulfides on kinetic stability

Vibin Ramakrishnan, Sai Praveen Srinivasan, Saeed M. Salem, Suzanne J. Matthews, Wilfredo Colón, Mohammed Zaki, Christopher Bystroff

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2012

Language:

english

File:

PDF, 1.72 MB

english, 2012

18

Protein Structure Prediction Volume 44 || Molecular Dynamics Simulations of Protein Folding

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 622 KB

english, 2008

19

Toward Computationally Designed Self-Reporting Biosensors Using Leave-One-Out Green Fluorescent Protein

Huang, Yao-ming, Banerjee, Shounak, Crone, Donna E., Schenkelberg, Christian D., Pitman, Derek J., Buck, Patrick M., Bystroff, Christopher

Journal:

Year:

2015

Language:

english

File:

PDF, 2.48 MB

english, 2015

20

Fast design of arbitrary length loops in proteins using InteractiveRosetta

Hooper, William F., Walcott, Benjamin D., Wang, Xing, Bystroff, Christopher

Journal:

BMC Bioinformatics

Year:

2018

Language:

english

File:

PDF, 1.72 MB

english, 2018

21

Constraining local structure can speed up folding by promoting structural polarization of the folding pathway

Patrick M. Buck, Christopher Bystroff

Journal:

Protein Science

Year:

2011

Language:

english

File:

PDF, 1.59 MB

english, 2011

22

Exploring the folding pathway of green fluorescent protein through disulfide engineering

Pitman, Derek J., Banerjee, Shounak, Macari, Stephen J., Castaldi, Christopher A., Crone, Donna E., Bystroff, Christopher

Journal:

Protein Science

Year:

2015

Language:

english

File:

PDF, 1.55 MB

english, 2015

23

The complex between a multi-crossover DNA nanostructure, PX-DNA, and T7 endonuclease I

Kizer, Megan, Huntress, Ian D, Walcott, Benjamin, Fraser, Keith, Bystroff, Christopher, Wang, Xing

Journal:

Year:

2019

File:

PDF, 1.28 MB

2019

24

The complex between a multi-crossover DNA nanostructure, PX-DNA, and T7 endonuclease I

Kizer, Megan, Huntress, Ian D, Walcott, Benjamin, Fraser, Keith, Bystroff, Christopher, Wang, Xing

Journal:

Year:

2019

Language:

english

File:

PDF, 1.28 MB

english, 2019

25

Ab initio protein structure prediction using pathway models

Xin Yuan, Yu Shao, Christopher Bystroff

Journal:

Comparative and Functional Genomics

Year:

2003

Language:

english

File:

PDF, 416 KB

english, 2003

26

Helix propensities of short peptides: Molecular dynamics versus bioinformatics

Christopher Bystroff, Shekhar Garde

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 827 KB

english, 2003

27

Blind predictions of local protein structure in CASP2 targets using the I-sites library

Bystroff, Christopher, Baker, David

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1997

Language:

english

File:

PDF, 232 KB

english, 1997

28

Quantitative in vivo solubility and reconstitution of truncated circular permutants of green fluorescent protein

Yao-Ming Huang, Sasmita Nayak, Christopher Bystroff

Journal:

Protein Science

Year:

2011

Language:

english

File:

PDF, 474 KB

english, 2011

29

Bioinformatics: Methods and Protocolsby Stephen Misener; Stephen A. Krawetz

Review by: Christopher Bystroff

Journal:

Quarterly Review of Biology

Year:

2000

Language:

english

File:

PDF, 230 KB

english, 2000

30

Directed Evolution of the Quorum-Sensing Regulator EsaR for Increased Signal Sensitivity

Shong, Jasmine, Huang, Yao-Ming, Bystroff, Christopher, Collins, Cynthia H.

Journal:

ACS Chemical Biology

Year:

2013

Language:

english

File:

PDF, 1.42 MB

english, 2013

31

Bioinformatics: Methods and Protocols . Stephen Misener , Stephen A. Krawetz

Bystroff, Christopher

Journal:

Quarterly Review of Biology

Year:

2000

Language:

english

File:

PDF, 175 KB

english, 2000

32

Simulating protein folding initiation sites using an alpha-carbon-only knowledge-based force field

Patrick M. Buck, Christopher Bystroff

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2009

Language:

english

File:

PDF, 329 KB

english, 2009

33

Crystal structure of unliganded Escherichia coli dihydrofolate reductase. Ligand-induced conformational changes and cooperativity in binding

Bystroff, Christopher, Kraut, Joseph

Journal:

Year:

1991

Language:

english

File:

PDF, 1.52 MB

english, 1991

34

Intramembranal disulfide cross-linking elucidates the super-quaternary structure of mammalian CatSpers

Bystroff, Christopher

Journal:

Reproductive Biology

Year:

2018

Language:

english

File:

PDF, 826 KB

english, 2018

35

Expanded Explorations into the Optimization of an Energy Function for Protein Design

Huang, Yao-ming, Bystroff, Christopher

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2013

Language:

english

File:

PDF, 1022 KB

english, 2013

36

Remote homolog detection using local sequence–structure correlations

Yuna Hou, Wynne Hsu, Mong Li Lee, Christopher Bystroff

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2004

Language:

english

File:

PDF, 341 KB

english, 2004

37

Influence of surface charge, binding site residues and glycosylation onThielavia terrestriscutinase biochemical characteristics

Shirke, Abhijit N., Basore, Danielle, Holton, Samantha, Su, An, Baugh, Evan, Butterfoss, Glenn L., Makhatadze, George, Bystroff, Christopher, Gross, Richard A.

Journal:

Applied Microbiology and Biotechnology

Year:

2016

Language:

english

File:

PDF, 1.01 MB

english, 2016

38

ITERATIVE NON-SEQUENTIAL PROTEIN STRUCTURAL ALIGNMENT

SALEM, SAEED, ZAKI, MOHAMMED J., BYSTROFF, CHRISTOPHER

Journal:

Journal of Bioinformatics and Computational Biology

Year:

2009

Language:

english

File:

PDF, 819 KB

english, 2009

39

Developing Leave One Out GFP Based Biosensors

Fraser, Keith, Schenkelberg, Christian, Banerjee, Shounak, Thornton, Casey, Lamberson, Colleen, Jones, Victoria, Choi, Angela, Altshuler, Rachel, Dordick, Jonathan S., Bystroff, Christopher

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 46 KB

english, 2015

40

Predicting interresidue contacts using templates and pathways

Yu Shao, Christopher Bystroff

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 199 KB

english, 2003

41

Context shapes: Efficient complementary shape matching for protein–protein docking

Zujun Shentu, Mohammad Al Hasan, Christopher Bystroff, Mohammed J. Zaki

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2008

Language:

english

File:

PDF, 670 KB

english, 2008

42

Protein Structure Prediction ||

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 5.21 MB

english, 2008

43

Protein Structure Prediction Volume 65 || A Historical Perspective of Template-Based Protein Structure Prediction

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 950 KB

english, 2008

44

Protein Structure Prediction Volume 65 || The Assessment of Methods for Protein Structure Prediction

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 404 KB

english, 2008

45

Protein Structure Prediction Volume 65 || Aligning Sequences to Structures

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 1.09 MB

english, 2008

46

Protein Structure Prediction Volume 65 || Protein Structure Prediction Using Threading

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 741 KB

english, 2008

47

Pairwise covariance adds little to secondary structure prediction but improves the prediction of non-canonical local structure

Christopher Bystroff, Bobbie-Jo Webb-Robertson

Journal:

BMC Bioinformatics

Year:

2008

Language:

english

File:

PDF, 944 KB

english, 2008

48

Crystal structures of Escherichia coli dihydrofolate reductase: the NADP+ holoenzyme and the folate .cntdot. NADP+ ternary complex. substrate binding and a model for the transition state

Bystroff, Christopher, Oatley, Stuart J., Kraut, Joseph

Journal:

Year:

1990

Language:

english

File:

PDF, 1.79 MB

english, 1990

49

Protein Structure Prediction Volume 65 || Algorithms for Multiple Protein Structure Alignment and Structure-Derived Multiple Sequence Alignment

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 779 KB

english, 2008

50

Protein Structure Prediction Volume 65 || Indexing Protein Structures Using Suffix Trees

Zaki, Mohammed J., Bystroff, Christopher

Year:

2008

Language:

english

File:

PDF, 890 KB

english, 2008

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