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Computational analysis of human and mouse CREB3L4 Protein

Kiran Kumar Velpula, Azeem Abdul Rehman, Soumya Chigurupati, Ramadevi Sanam, Krishna Kishore Inampudi, Chandra Sekhar Akila
2012 Bioinformation  
This study offers preliminary findings that support the translation of mouse Tisp40α findings into human models, based on structural homology.  ...  Previous studies identified this protein in mice and humans.  ...  Mattson and Alexis Stranahan of National Institute on Aging, National Institutes of Health, Baltimore, MD for kindly providing mouse tissues.  ... 
doi:10.6026/97320630008574 pmid:22829733 pmcid:PMC3398783 fatcat:h7aslblqgrbp7kczuniqmq5ugu

Preliminary crystallographic studies of the human cytomegalovirus protease

Y. Li, Y. Yan, S. Munshi, D. Hall, L. Waxman, P. Darke, L. Kuo, Z. Chen
1996 Acta Crystallographica Section A Foundations of Crystallography  
It allows us to address vmious aspects of cytochrome c function as well as those raised by a range of studies of the protein as a model system.  ...  One fundamental question is the basis for the structural stability of proteins.  ...  This suggests the necessity of studying the protein from taxonomically different origins to better understand the relationship of stability with function.  ... 
doi:10.1107/s0108767396089519 fatcat:noohby3ln5gergq3d63mixzqqi

Drug Off-Target Effects Predicted Using Structural Analysis in the Context of a Metabolic Network Model

Roger L. Chang, Li Xie, Lei Xie, Philip E. Bourne, Bernhard Ø. Palsson, Roland L. Dunbrack
2010 PLoS Computational Biology  
Recent advances in structural bioinformatics have enabled the prediction of protein-drug off-targets based on their ligand binding sites.  ...  This combined approach was applied to investigate the hypertensive side effect of the cholesteryl ester transfer protein inhibitor torcetrapib in the context of human renal function.  ...  Renal Objective Function As the preliminary step in modeling human renal function, the scientific literature was reviewed to compile a list of specific metabolic functions of the kidney, with a focus on  ... 
doi:10.1371/journal.pcbi.1000938 pmid:20957118 pmcid:PMC2950675 fatcat:lq7tck57yvhfzke5k23vlmcwxi

Predicting New Prion Candidates in Yeast

Shattuck J, Waetcher A, Ross E
2015 European Journal of Molecular and Clinical Medicine  
Here we provide preliminary evidence that we are successful at predicting yeast proteins that present prion activity in vivo.  ...  One of these algorithms was previously developed in our laboratory (Prion Aggregation Prediction Algorithm, PAPA, Toombs et al., 2012).  ...  Here we provide preliminary evidence that we are successful at predicting yeast proteins that present prion activity in vivo.  ... 
doi:10.1016/j.nhtm.2015.07.057 fatcat:ildd3yhdjbcophj3p7pntgw3fe

Detection of Immunodominant Proteins of Felis catus Gammaherpesvirus 1

Stutzman-Rodriguez K, Troyer R, VandeWoude S
2015 European Journal of Molecular and Clinical Medicine  
Here we provide preliminary evidence that we are successful at predicting yeast proteins that present prion activity in vivo.  ...  One of these algorithms was previously developed in our laboratory (Prion Aggregation Prediction Algorithm, PAPA, Toombs et al., 2012).  ...  Here we provide preliminary evidence that we are successful at predicting yeast proteins that present prion activity in vivo.  ... 
doi:10.1016/j.nhtm.2015.07.058 fatcat:ejsllwawqrh7fmiwueq4epnpga

Efficient replication and shedding of MERS CoV from the upper respiratory tract of experimentally infected dromedary camels

Adney DR, Brown VR, Van Doremalen N, Bushmaker T, Scott D, De Wit E, Munster VA, Bowen RA
2015 European Journal of Molecular and Clinical Medicine  
Here we provide preliminary evidence that we are successful at predicting yeast proteins that present prion activity in vivo.  ...  One of these algorithms was previously developed in our laboratory (Prion Aggregation Prediction Algorithm, PAPA, Toombs et al., 2012).  ...  Here we provide preliminary evidence that we are successful at predicting yeast proteins that present prion activity in vivo.  ... 
doi:10.1016/j.nhtm.2015.07.056 fatcat:x4v3u3ghbjcofgm7pree3jjjsi

Renewal and preliminary study of expressed sequence tags database on human fetal liver aged 22 wk of gestation

TingGui Chen, SongFeng Wu, GangQiao Zhou, YunPing Zhu, FuChu He
2008 Science Bulletin  
Renewal and preliminary analysis of EST database on HFL22w will help to understand hemopoiesis and cell migration mechanism, and promote future research on human fetal liver. human fetal liver, expressed  ...  sequence tags, cluster and assembly, gene ontology, hierarchical clustering The liver, as the largest gland in the human body, carries on metabolic processes of carbohydrates, fats, proteins, vitamins  ...  To sum up, we have built the world's biggest EST database on HFL22w, although it is still a preliminary attempt, the establishment of this database will promote our comprehensive research on human fetal  ... 
doi:10.1007/s11434-008-0429-8 fatcat:mk4wxo4hhzcvvleto6darqbcqu

Experimental-confirmation and functional-annotation of predicted proteins in the chicken genome

Teresia J Buza, Fiona M McCarthy, Shane C Burgess
2007 BMC Genomics  
The chicken genome was sequenced because of its phylogenetic position as a nonmammalian vertebrate, its use as a biomedical model especially to study embryology and development, its role as a source of  ...  The benefit of having a genome sequence is that it provides a basis for functional genomics.  ...  Acknowledgements We wish to acknowledge Alan Shack, Joram Buza, Amanda Cooksey and Bart van den Berg assistance with collecting the tissue samples and protein extraction & Tibor Pechan for MS/MS analysis  ... 
doi:10.1186/1471-2164-8-425 pmid:18021451 pmcid:PMC2204016 fatcat:dd3uckoyw5hbtg72seeozyqbae

Online Prediction of Interacting Proteins with a User-Specified Protein [chapter]

Byungkyu Park, Kyungsook Han
2005 Lecture Notes in Computer Science  
This paper describes the new online system for predicting interacting proteins with a user-specified human protein and its preliminary results.  ...  Biologists studying a certain mechanism or function are usually interested in a small-scale network of protein-protein interactions related to the mechanism or function of their interest rather than a  ...  The structural interactions of human proteins were predicted by a homology-based assignment of the domain structures to the whole genome.  ... 
doi:10.1007/11428862_164 fatcat:ij25j7xhn5bqpg6w7fymuqa4hu

Conservation analysis and pathogenicity prediction of mutant genes of ectodysplasin a

Fangqi He, Hongfeng Wang, Xiaoyu Zhang, Qingping Gao, Feng Guo, Chang Chen
2018 BMC Medical Genetics  
SIFT and PolyPhen-2, the online gene function prediction software, were utilized to predict the pathogenicity of point mutation of c.878 T > G.  ...  In our preliminary study, three unknown mutation sites (c.878 T > G, c.663-697del and c.587-615del) were detected from the pedigrees of HED.  ...  Acknowledgements The authors would like to thank the medical editor from the United States providing language help, and Shouyi Lu for preliminary researchon this work Availability of data and material  ... 
doi:10.1186/s12881-018-0726-2 fatcat:7yu2coun6rg4zhvvbgq5j2w56y

Uncoupling protein-3 (UCP3): A mitochondrial carrier in search of a function

BB Lowell
1999 International Journal of Obesity  
However, detailed functional studies are required to understand the true biochemical and physiological purpose of UCP3.  ...  UCP3 is a mitochondrial protein with high homology to the established uncoupling protein, UCP1. Its high degree of homology to UCP1 suggests that UCP3 may be a true uncoupling protein.  ...  Function of UCP3 BB Lowell Molecular cloning of UCP3 and predictions of function based on sequence homology UCP3 was molecularly cloned initially by Boss et al, 1 and then shortly thereafter by Vidal-Puig  ... 
doi:10.1038/sj.ijo.0800943 pmid:10454121 fatcat:huopadj22jhldo4ssckiarjagq

Effect of non synonymous SNP on JAK1 protein structure and subsequent function

Rozario Liza, Department of Biochemistry and Molecular Biology, Noakhali Science and Technology University, Bangaldesh – 3814
2019 Bioinformation  
A comprehensive list of nsSNPs potentially affecting the structure and function of JAK1 gene is not available.  ...  Genetic variations in JAK1 exhibit deleterious effects on gene function leading to the deregulation of signalling pathways.  ...  They help predict the impact of mutation on the protein function to conclude disease association.  ... 
doi:10.6026/97320630015723 pmid:31831954 pmcid:PMC6900321 fatcat:dnqzpzj5fzavtf4c47s4pl4qra

ADENOSINE A2A RECEPTOR ACTIVATION ATTENUATES NMDA RECEPTOR FUNCTION IN ALZHEIMER DISEASE

Gemma Navarro Brugal, David Aguinaga, Irene Reyes, Iu Raïch, Anna Del Ser, Carles Saura, Rafael Franco
2019 Alzheimer's & Dementia  
The roles and functional mechanisms of PWI domains are unknown, but our preliminary studies suggest that it may generally mediate protein-protein interactions.  ...  Contact e-mail: nafisehjafari86@gmail. com Background: Studies in a Caenorhabditis elegans model system of human tauopathies, by Brian Kraemer's laboratory, have shown that the Suppressor of Tau-2 (SUT2  ... 
doi:10.1016/j.jalz.2019.06.3244 fatcat:ti3dcd3zxjayvhslek5ibb3tyy

Crystallization and preliminary crystallographic studies of human septin 1 with site-directed mutations

Hao Hu, Wen-bo Yu, Shu-xing Li, Xiang-ming Ding, Long Yu, Ru-Chang Bi
2006 Acta Crystallographica. Section F : Structural Biology and Crystallization Communications  
Septin 1 is a member of an evolutionarily conserved family of GTP-binding and filament-forming proteins named septins, which function in diverse processes including cytokinasis, vesicle trafficking, apoptosis  ...  Studies have shown that septin 1 with site-directed mutations of five serine residues (Ser19, Ser206, Ser307, Ser312 and Ser315) has a much lower degree of aggregation and better structural homogeneity  ...  In summary, this work has provided a method to determine the human septin 1 structure and to further facilitate its functional studies.  ... 
doi:10.1107/s1744309105043228 pmid:16511282 pmcid:PMC2150944 fatcat:52e56iv7f5emhh3ffszgdhnv2i

Large single-crystal growth and preliminary neutron diffraction analysis ofAchromobacterprotease I

Y. Ohnishi, T. Masaki, T. Yamada, K. Kurihara, I. Tanaka, N. Niimura
2008 Acta Crystallographica Section A Foundations of Crystallography  
On the other hand, the function of the C-terminal domain of Ptr10p cannot be predicted from its amino acid sequence because it shares little sequence homology with known proteins.  ...  We will report a comparative study of shaking-grown and traditional grown crystals of the RNA aptamer-human IgG complex.  ... 
doi:10.1107/s0108767308092209 fatcat:3pasxcubfjcilor5qz7kp66hwe
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