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Volume 15(4);  April 2006
Articles
Cofactor effects on the protein folding reaction: Acceleration of α-lactalbumin refolding by metal ions
Natalia A. Bushmarina, Clément E. Blanchet, Grégory Vernier, and Vincent Forge
Protein Sci. 2006 April; 15(4): 659–671. doi: 10.1110/ps.051904206.
PMCID: PMC2242491
How does activation loop phosphorylation modulate catalytic activity in the cAMP-dependent protein kinase: A theoretical study
Yuhui Cheng, Yingkai Zhang, and J. Andrew McCammon
Protein Sci. 2006 April; 15(4): 672–683. doi: 10.1110/ps.051852306.
PMCID: PMC2242471
NMR study of the tetrameric KcsA potassium channel in detergent micelles
Jordan H. Chill, John M. Louis, Christopher Miller, and Ad Bax
Protein Sci. 2006 April; 15(4): 684–698. doi: 10.1110/ps.051954706.
PMCID: PMC2242490
Rapid peptide-based screening on the substrate specificity of severe acute respiratory syndrome (SARS) coronavirus 3C-like protease by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry
Ling-Hon Matthew Chu, Wai-Yan Choy, Sau-Na Tsai, Zihe Rao, and Sai-Ming Ngai
Protein Sci. 2006 April; 15(4): 699–709. doi: 10.1110/ps.052007306.
PMCID: PMC2242481
Directed evolution of human T cell receptor CDR2 residues by phage display dramatically enhances affinity for cognate peptide-MHC without increasing apparent cross-reactivity
Steven M. Dunn, Pierre J. Rizkallah, Emma Baston, Tara Mahon, Brian Cameron, Ruth Moysey, Feng Gao, Malkit Sami, Jonathan Boulter, Yi Li, and Bent K. Jakobsen
Protein Sci. 2006 April; 15(4): 710–721. doi: 10.1110/ps.051936406.
PMCID: PMC2242494
Conformational changes of the glucocorticoid receptor ligand binding domain induced by ligand and cofactor binding, and the location of cofactor binding sites determined by hydrogen/deuterium exchange mass spectrometry
Lee Frego and Walter Davidson
Protein Sci. 2006 April; 15(4): 722–730. doi: 10.1110/ps.051781406.
PMCID: PMC2242475
Dynamic motions of free and bound Ø29 scaffolding protein identified by hydrogen deuterium exchange mass spectrometry
Chi-Yu Fu and Peter E. Prevelige, Jr.
Protein Sci. 2006 April; 15(4): 731–743. doi: 10.1110/ps.051921606.
PMCID: PMC2242489
Exploring protein interfaces with a general photochemical reagent
Gabriela E. Gómez, Ana Cauerhff, Patricio O. Craig, Fernando A. Goldbaum, and José M. Delfino
Protein Sci. 2006 April; 15(4): 744–752. doi: 10.1110/ps.051960406.
PMCID: PMC2242476
Repeat protein architectures predicted by a continuum representation of fold space
Andrew C. Hausrath and Alain Goriely
Protein Sci. 2006 April; 15(4): 753–760. doi: 10.1110/ps.051971106.
PMCID: PMC2242468
Crystal structure of 3-hydroxyanthranilic acid 3,4-dioxygenase from Saccharomyces cerevisiae: A special subgroup of the type III extradiol dioxygenases
Xiaowu Li, Min Guo, Jun Fan, Wenying Tang, Deqiang Wang, Honghua Ge, Hui Rong, Maikun Teng, Liwen Niu, Qun Liu, and Quan Hao
Protein Sci. 2006 April; 15(4): 761–773. doi: 10.1110/ps.051967906.
PMCID: PMC2242480
Structures of S. aureus thymidylate kinase reveal an atypical active site configuration and an intermediate conformational state upon substrate binding
Masayo Kotaka, Balvinder Dhaliwal, Jingshan Ren, Charles E. Nichols, Richard Angell, Michael Lockyer, Alastair R. Hawkins, and David K. Stammers
Protein Sci. 2006 April; 15(4): 774–784. doi: 10.1110/ps.052002406.
PMCID: PMC2242479
Identification of phosphorylation sites in glycine N-methyltransferase from rat liver
Zigmund Luka, Amy-Joan L. Ham, Jeremy L. Norris, Eui-Ju Yeo, Valery Yermalitsky, Byron Glenn, Richard M. Caprioli, Daniel C. Liebler, and Conrad Wagner
Protein Sci. 2006 April; 15(4): 785–794. doi: 10.1110/ps.051906706.
PMCID: PMC2242492
New approaches to high-throughput structure characterization of SH3 complexes: The example of Myosin-3 and Myosin-5 SH3 domains from S. cerevisiae
Valeria Musi, Berry Birdsall, Gregorio Fernandez-Ballester, Remo Guerrini, Severo Salvatori, Luis Serrano, and Annalisa Pastore
Protein Sci. 2006 April; 15(4): 795–807. doi: 10.1110/ps.051785506.
PMCID: PMC2242487
A comparative study of available software for high-accuracy homology modeling: From sequence alignments to structural models
Akbar Nayeem, Doree Sitkoff, and Stanley Krystek, Jr.
Protein Sci. 2006 April; 15(4): 808–824. doi: 10.1110/ps.051892906.
PMCID: PMC2242473
Bacterial display using circularly permuted outer membrane protein OmpX yields high affinity peptide ligands
Jeffrey J. Rice, Aaron Schohn, Paul H. Bessette, Kevin T. Boulware, and Patrick S. Daugherty
Protein Sci. 2006 April; 15(4): 825–836. doi: 10.1110/ps.051897806.
PMCID: PMC2242469
Functional contribution of a conserved, mobile loop histidine of phosphoribulokinase
Jennifer A. Runquist and Henry M. Miziorko
Protein Sci. 2006 April; 15(4): 837–842. doi: 10.1110/ps.052015606.
PMCID: PMC2242472
Solvation of the folding-transition state in Pseudomonas aeruginosa azurin is modulated by metal: Solvation of azurin's folding nucleus
Corey J. Wilson, David Apiyo, and Pernilla Wittung-Stafshede
Protein Sci. 2006 April; 15(4): 843–852. doi: 10.1110/ps.051838206.
PMCID: PMC2242485
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, and Brian W. Matthews
Protein Sci. 2006 April; 15(4): 853–861. doi: 10.1110/ps.052020606.
PMCID: PMC2242493
Assessing the role of aromatic residues in the amyloid aggregation of human muscle acylphosphatase
Francesco Bemporad, Niccolò Taddei, Massimo Stefani, and Fabrizio Chiti
Protein Sci. 2006 April; 15(4): 862–870. doi: 10.1110/ps.051915806.
PMCID: PMC2242477
Computer-aided NMR assay for detecting natively folded structural domains
Takayuki Hondoh, Atsushi Kato, Shigeyuki Yokoyama, and Yutaka Kuroda
Protein Sci. 2006 April; 15(4): 871–883. doi: 10.1110/ps.051880406.
PMCID: PMC2242495
New Escherichia coli outer membrane proteins identified through prediction and experimental verification
Paola Marani, Samuel Wagner, Louise Baars, Pierre Genevaux, Jan-Willem De Gier, Ingmarie Nilsson, Rita Casadio, and Gunnar Von Heijne
Protein Sci. 2006 April; 15(4): 884–889. doi: 10.1110/ps.051889506.
PMCID: PMC2242486
Thermodynamics of unfolding of an integral membrane protein in mixed micelles
Pankaj Sehgal and Daniel E. Otzen
Protein Sci. 2006 April; 15(4): 890–899. doi: 10.1110/ps.052031306.
PMCID: PMC2242483
Identification of correct regions in protein models using structural, alignment, and consensus information
Björn Wallner and Arne Elofsson
Protein Sci. 2006 April; 15(4): 900–913. doi: 10.1110/ps.051799606.
PMCID: PMC2242478
Protein Structure Reports
Crystal structure of Homo sapiens PTD012 reveals a zinc-containing hydrolase fold
Babu A. Manjasetty, Konrad Büssow, Martin Fieber-Erdmann, Yvette Roske, Johan Gobom, Christoph Scheich, Frank Götz, Frank H. Niesen, and Udo Heinemann
Protein Sci. 2006 April; 15(4): 914–920. doi: 10.1110/ps.052037006.
PMCID: PMC2242484
Crystal structure of the DUF16 domain of MPN010 from Mycoplasma pneumoniae
Dong Hae Shin, Jeong-Sun Kim, Hisao Yokota, Rosalind Kim, and Sung-Hou kim
Protein Sci. 2006 April; 15(4): 921–928. doi: 10.1110/ps.051993506.
PMCID: PMC2242467
The crystal structure of YycH involved in the regulation of the essential YycFG two-component system in Bacillus subtilis reveals a novel tertiary structure
Hendrik Szurmant, Haiyan Zhao, Michael A. Mohan, James A. Hoch, and Kottayil I. Varughese
Protein Sci. 2006 April; 15(4): 929–934. doi: 10.1110/ps.052064406.
PMCID: PMC2242482
For the Record
Evolutionary links between FliH/YscL-like proteins from bacterial type III secretion systems and second-stalk components of the FoF1 and vacuolar ATPases
Mark J. Pallen, Christopher M. Bailey, and Scott A. Beatson
Protein Sci. 2006 April; 15(4): 935–941. doi: 10.1110/ps.051958806.
PMCID: PMC2242474
Obituary
Bruno H. Zimm (1920–2005)
Russell F. Doolittle
Protein Sci. 2006 April; 15(4): 942–944.
PMCID: PMC2242470
Correction
Novel surfactant mixtures for NMR spectroscopy of encapsulated proteins dissolved
Ronald W. Peterson, Maxim S. Pometun, Zhengshuang Shi, and A. Joshua Wand
Protein Sci. 2006 April; 15(4): 941.
PMCID: PMC2242488
Corrects: Ronald W. Peterson, et al. Novel surfactant mixtures for NMR spectroscopy of encapsulated proteins dissolved in low-viscosity fluids. Protein Sci. 2005 November; 14(11): 2919–2921.
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