Folding by Numbers: Primary Sequence Statistics and Their Use in Studying Protein Folding (2009)
The exponential growth over the past several decades in the quantity of both primary sequence data available and the number of protein structures determined has provided a wealth of information...
Marsh, Joseph A., Singh, Vinay K., Jia, Zongchao, Forman-Kay, Julie D.
The synucleins are a family of intrinsically disordered proteins involved in various human diseases. -Synuclein has been extensively characterized due to its role in Parkinson's disease where it...
Marsh, Joseph A., Singh, Vinay K., Jia, Zongchao, Forman-Kay, Julie D.
The synucleins are a family of intrinsically disordered proteins involved in various human diseases. α-Synuclein has been extensively characterized due to its role in Parkinson's disease where it...
Marsh, Joseph A., Singh, Vinay K., Jia, Zongchao, Forman-Kay, Julie D.
The synucleins are a family of intrinsically disordered proteins involved in various human diseases. -Synuclein has been extensively characterized due to its role in Parkinson's disease where it...
A novel PCR strategy for high-efficiency, automated site-directed mutagenesis (2005)
Wu, Wu, Jia, Zongchao, Liu, Ping, Xie, Zhigang, Wei, Qun
We have developed a novel three-primer, one-step PCR-based method for site-directed mutagenesis. This method takes advantage of the fact that template plasmid DNA cannot be efficiently denatured at...
Ye, Qilu, Rahman, Mona N., Koschinsky, Marlys L., Jia, Zongchao
Apolipoprotein(a) [apo(a)] consists of a series of tandemly repeated modules known as kringles that are commonly found in many proteins involved in the fibrinolytic and coagulation cascades, such as...
Study of B72.3 combining sites by molecular modeling and site-directed mutagenesis (2000)
Xiang, Jim, Srivamadan, Maheswaran, Rajala, Raju, Jia, Zongchao
A B72.3 Fab/sTn2 complex was modeled from the known structure of B72.3 Fab and the dimeric Tn-serine cluster (sTn2). In the complex model, the side chains of 15 heavy- and light-chain...
Ice-binding surface of fish type III antifreeze (1999)
ABSTRACT We employed computational techniques, including molecular docking, energy minimization, and molecular dynamics simulation, to investigate the ice-binding surface of fish type III antifreeze...
Xiang, Jim, Prasad, Lata, Delbaere, Louis T.J., Jia, Zongchao
The crystallographic study of chimeric B72.3 antibody illustrated that there are three FR side-chain interactions with either CDR residue's side chain or main chain. For example, hydrogen bonds are...
Shiraha, Hidenori, Glading, Angela, Chou, Jeffrey, Jia, Zongchao, Wells, Alan
We have shown previously that the ELR-negative CXC chemokines interferon-inducible protein 10, monokine induced by gamma interferon, and platelet factor 4 inhibit epidermal growth factor...
Contribution of Structural Genomics to Understanding the Biology of Escherichia coli
Matte, Allan, Sivaraman, J., Ekiel, Irena, Gehring, Kalle, Jia, Zongchao, Cygler, Miroslaw
A novel PCR strategy for high-efficiency, automated site-directed mutagenesis
Wu, Wu, Jia, Zongchao, Liu, Ping, Xie, Zhigang, Wei, Qun
We have developed a novel three-primer, one-step PCR-based method for site-directed mutagenesis. This method takes advantage of the fact that template plasmid DNA cannot be efficiently denatured at...
Origins of the difference in Ca2+ requirement for activation of mu- and m-calpain.
Dutt, Previn, Spriggs, Cherie N, Davies, Peter L, Jia, Zongchao, Elce, John S
The mu- and m-calpains are closely related Ca(2+)-dependent cysteine proteases having different in vitro Ca(2+) requirements ( K (d)), of approx. 25 and 325 microM respectively. The two isoforms are...
Analysis of ice-binding sites in fish type II antifreeze protein by quantum mechanics.
Cheng, Yuhua, Yang, Zuoyin, Tan, Hongwei, Liu, Ruozhuang, Chen, Guangju, Jia, Zongchao
Many organisms living in cold environments can survive subzero temperatures by producing antifreeze proteins (AFPs) or antifreeze glycoproteins. In this paper we investigate the ice-binding surface...
Yang, Zuoyin, Zhou, Yanxia, Liu, Kai, Cheng, Yuhua, Liu, Ruozhuang, Chen, Guangju, ...
Antifreeze proteins (AFPs) help many organisms protect themselves from freezing in subzero temperatures. The most active AFPs found to date are those from insects, which possess exceptionally regular...
Systematic Size Study of an Insect Antifreeze Protein and Its Interaction with Ice
Liu, Kai, Jia, Zongchao, Chen, Guangju, Tung, Chenho, Liu, Ruozhuang
Because of their remarkable ability to depress the freezing point of aqueous solutions, antifreeze proteins (AFPs) play a critical role in helping many organisms survive subzero temperatures. The...
Shen, Jiang-Sheng, Geoffroy, Valérie, Neshat, Shadi, Jia, Zongchao, Meldrum, Allison, Meyer, Jean-Marie, ...
A number of aromatic residues were seen to cluster in the upper portion of the three-dimensional structure of the FpvA ferric pyoverdine receptor of Pseudomonas aeruginosa, reminiscent of the...
Identification of an Escherichia coli O157:H7 heme oxygenase with tandem functional repeats
Suits, Michael D. L., Pal, Gour P., Nakatsu, Kanji, Matte, Allan, Cygler, Miroslaw, Jia, Zongchao
Heme oxygenases (HOs) catalyze the oxidation of heme to biliverdin, carbon monoxide (CO), and free iron. Iron acquisition is critical for invading microorganisms to enable survival and growth. Here...
Adams, Jarrett J., Pal, Gour, Jia, Zongchao, Smith, Steven P.
Bacterial cell-surface attachment of macromolecular complexes maintains the microorganism in close proximity to extracellular substrates and allows for optimal uptake of hydrolytic byproducts. The...
Why Does Insect Antifreeze Protein from Tenebrio molitor Produce Pyramidal Ice Crystallites?
Strom, Christina S., Liu, Xiang Yang, Jia, Zongchao
The antifreeze protein (AFP) reduces the growth rates of the ice crystal facets. In that process the ice morphology undergoes a modification. An AFP-induced surface pinning mechanism, through...
Shiraha, Hidenori, Glading, Angela, Chou, Jeffrey, Jia, Zongchao, Wells, Alan
We have shown previously that the ELR-negative CXC chemokines interferon-inducible protein 10, monokine induced by gamma interferon, and platelet factor 4 inhibit epidermal growth factor...
Contribution of Structural Genomics to Understanding the Biology of Escherichia coli
Matte, Allan, Sivaraman, J., Ekiel, Irena, Gehring, Kalle, Jia, Zongchao, Cygler, Miroslaw
A novel PCR strategy for high-efficiency, automated site-directed mutagenesis
Wu, Wu, Jia, Zongchao, Liu, Ping, Xie, Zhigang, Wei, Qun
We have developed a novel three-primer, one-step PCR-based method for site-directed mutagenesis. This method takes advantage of the fact that template plasmid DNA cannot be efficiently denatured at...
Origins of the difference in Ca2+ requirement for activation of mu- and m-calpain.
Dutt, Previn, Spriggs, Cherie N, Davies, Peter L, Jia, Zongchao, Elce, John S
The mu- and m-calpains are closely related Ca(2+)-dependent cysteine proteases having different in vitro Ca(2+) requirements ( K (d)), of approx. 25 and 325 microM respectively. The two isoforms are...
Identification of an Escherichia coli O157:H7 heme oxygenase with tandem functional repeats
Suits, Michael D. L., Pal, Gour P., Nakatsu, Kanji, Matte, Allan, Cygler, Miroslaw, Jia, Zongchao
Heme oxygenases (HOs) catalyze the oxidation of heme to biliverdin, carbon monoxide (CO), and free iron. Iron acquisition is critical for invading microorganisms to enable survival and growth. Here...
Analysis of ice-binding sites in fish type II antifreeze protein by quantum mechanics.
Cheng, Yuhua, Yang, Zuoyin, Tan, Hongwei, Liu, Ruozhuang, Chen, Guangju, Jia, Zongchao
Many organisms living in cold environments can survive subzero temperatures by producing antifreeze proteins (AFPs) or antifreeze glycoproteins. In this paper we investigate the ice-binding surface...
Yang, Zuoyin, Zhou, Yanxia, Liu, Kai, Cheng, Yuhua, Liu, Ruozhuang, Chen, Guangju, ...
Antifreeze proteins (AFPs) help many organisms protect themselves from freezing in subzero temperatures. The most active AFPs found to date are those from insects, which possess exceptionally regular...
Systematic Size Study of an Insect Antifreeze Protein and Its Interaction with Ice
Liu, Kai, Jia, Zongchao, Chen, Guangju, Tung, Chenho, Liu, Ruozhuang
Because of their remarkable ability to depress the freezing point of aqueous solutions, antifreeze proteins (AFPs) play a critical role in helping many organisms survive subzero temperatures. The...
Shen, Jiang-Sheng, Geoffroy, Valérie, Neshat, Shadi, Jia, Zongchao, Meldrum, Allison, Meyer, Jean-Marie, ...
A number of aromatic residues were seen to cluster in the upper portion of the three-dimensional structure of the FpvA ferric pyoverdine receptor of Pseudomonas aeruginosa, reminiscent of the...
Adams, Jarrett J., Pal, Gour, Jia, Zongchao, Smith, Steven P.
Bacterial cell-surface attachment of macromolecular complexes maintains the microorganism in close proximity to extracellular substrates and allows for optimal uptake of hydrolytic byproducts. The...
Why Does Insect Antifreeze Protein from Tenebrio molitor Produce Pyramidal Ice Crystallites?
Strom, Christina S., Liu, Xiang Yang, Jia, Zongchao
The antifreeze protein (AFP) reduces the growth rates of the ice crystal facets. In that process the ice morphology undergoes a modification. An AFP-induced surface pinning mechanism, through...
MdaB from Escherichia coli: cloning, purification, crystallization and preliminary X-ray analysis
Adams, Melanie A., Iannuzzi, Pietro, Jia, Zongchao
The crystallization of the enzyme ‘modulator of drug activity B’ (MdaB) from E. coli, which has activity similar to that of mammalian DT-diaphorase, is presented.
Crystallization and preliminary X-ray analysis of the GST-fused human Bri3 N-terminal domain
Ye, Qilu, Singh, Vinay Kumar, Blonde, James Daniel, Jia, Zongchao
The crystallization of the polyproline-rich polypeptide from human Bri3 overexpressed as a GST-fusion protein in Escherichia coli is presented.
Adams, Jarrett J., Pal, Gour, Yam, Katherine, Spencer, Holly L., Jia, Zongchao, Smith, Steven P.
A trimodular complex comprising the type II cohesin–dockerin interaction from the cellulosome of C. thermocellum has been purified and crystallized by the hanging-drop vapour-diffusion method. A...
MraZ from Escherichia coli: cloning, purification, crystallization and preliminary X-ray analysis
Adams, Melanie A., Udell, Christian M., Pal, Gour Pada, Jia, Zongchao
The crystallization and preliminary X-ray diffraction analysis of MraZ, formerly known as hypothetical protein YabB, from Escherichia coli K-12 is presented.
Marsh, Joseph A., Singh, Vinay K., Jia, Zongchao, Forman-Kay, Julie D.
The synucleins are a family of intrinsically disordered proteins involved in various human diseases. α-Synuclein has been extensively characterized due to its role in Parkinson's disease where it...
Ye, Qilu, Rahman, Mona N., Koschinsky, Marlys L., Jia, Zongchao
Apolipoprotein(a) [apo(a)] consists of a series of tandemly repeated modules known as kringles that are commonly found in many proteins involved in the fibrinolytic and coagulation cascades, such as...
Crystal Structure of PhnH: an Essential Component of Carbon-Phosphorus Lyase in Escherichia coli▿ †
Adams, Melanie A., Luo, Yan, Hove-Jensen, Bjarne, He, Shu-Mei, Van Staalduinen, Laura M., Zechel, David L., ...
Organophosphonates are reduced forms of phosphorous that are characterized by the presence of a stable carbon-phosphorus (C-P) bond, which resists chemical hydrolysis, thermal decomposition, and...
Folding by Numbers: Primary Sequence Statistics and Their Use in Studying Protein Folding
The exponential growth over the past several decades in the quantity of both primary sequence data available and the number of protein structures determined has provided a wealth of information...
Interfacial Adsorption of Antifreeze Proteins: A Neutron Reflection Study
Xu, Hai, Perumal, Shiamalee, Zhao, Xiubo, Du, Ning, Liu, Xiang-Yang, Jia, Zongchao, ...
Interfacial adsorption from two antifreeze proteins (AFP) from ocean pout (Macrozoarces americanus, type III AFP, AFP III, or maAFP) and spruce budworm (Choristoneura fumiferana, isoform 501, or...
Structure of Escherichia coli tyrosine kinase Etk reveals a novel activation mechanism
Lee, Daniel C, Zheng, Jimin, She, Yi-Min, Jia, Zongchao
While protein tyrosine (Tyr) kinases (PTKs) have been extensively characterized in eukaryotes, far less is known about their emerging counterparts in prokaryotes. The inner-membrane Wzc/Etk protein...
McPherson, Victor A., Everingham, Stephanie, Karisch, Robert, Smith, Julie A., Udell, Christian M., Zheng, Jimin, ...
This study investigates the roles of Fer-CIP4 homology (FCH)-Bin/amphiphysin/Rvs (F-BAR) and SH2 domains of Fes protein tyrosine kinase in regulating its activation and signaling downstream of the...
Structure of Escherichia coli tyrosine kinase Etk reveals a novel activation mechanism
Lee, Daniel C, Zheng, Jimin, She, Yi-Min, Jia, Zongchao
Correction to: The EMBO Journal (2008) 27, 1758–1766. doi:10.1038/emboj.2008.97
Guo, Jun, Massaeli, Hamid, Xu, Jianmin, Jia, Zongchao, Wigle, Jeffrey T., Mesaeli, Nasrin, ...
Although the modulation of ion channel gating by hormones and drugs has been extensively studied, much less is known about how cell surface ion channel expression levels are regulated. Here, we...
Expression, purification and preliminary X-ray diffraction studies of RebC
Van Staalduinen, Laura M., Bhattacharya, Anupam, Groom, Katherine, Zechel, David L., Jia, Zongchao
The flavin-dependent monooxygenase RebC has been crystallized by the hanging-drop vapour-diffusion method and initial X-ray diffraction analysis has been completed.