Search Results - "Axelrod, Herbert"

A Distinct Type of Pilus from the Human Microbiome by Xu, Qingping, Shoji, Mikio, Shibata, Satoshi, Naito, Mariko, Sato, Keiko, Elsliger, Marc-André, Grant, Joanna C., Axelrod, Herbert L., Chiu, Hsiu-Ju, Farr, Carol L., Jaroszewski, Lukasz, Knuth, Mark W., Deacon, Ashley M., Godzik, Adam, Lesley, Scott A., Curtis, Michael A., Nakayama, Koji, Wilson, Ian A.

“…Pili are proteinaceous polymers of linked pilins that protrude from the cell surface of many bacteria and often mediate adherence and virulence. We…”
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Filling out the structural map of the NTF2-like superfamily by Eberhardt, Ruth Y, Chang, Yuanyuan, Bateman, Alex, Murzin, Alexey G, Axelrod, Herbert L, Hwang, William C, Aravind, L

“…The NTF2-like superfamily is a versatile group of protein domains sharing a common fold. The sequences of these domains are very diverse and they share no…”
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Improved molecular replacement by density- and energy-guided protein structure optimization by DiMaio, Frank, Terwilliger, Thomas C., Read, Randy J., Wlodawer, Alexander, Oberdorfer, Gustav, Wagner, Ulrike, Valkov, Eugene, Alon, Assaf, Fass, Deborah, Axelrod, Herbert L., Das, Debanu, Vorobiev, Sergey M., Iwaï, Hideo, Pokkuluri, P. Raj, Baker, David

“…Protein structures you can bank on With more than 60,000 structures now available in the Protein Data Bank, it is frequently possible to create homology-based…”
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MitoNEET is a uniquely folded 2Fe-2S outer mitochondrial membrane protein stabilized by pioglitazone by Paddock, Mark L, Wiley, Sandra E, Axelrod, Herbert L, Cohen, Aina E, Roy, Melinda, Abresch, Edward C, Capraro, Dominique, Murphy, Anne N, Nechushtai, Rachel, Dixon, Jack E, Jennings, Patricia A

“…Iron-sulfur (Fe-S) proteins are key players in vital processes involving energy homeostasis and metabolism from the simplest to most complex organisms. We…”
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UHM-ULM interactions in the RBM39-U2AF65 splicing-factor complex by Stepanyuk, Galina A., Serrano, Pedro, Peralta, Eigen, Farr, Carol L., Axelrod, Herbert L., Geralt, Michael, Das, Debanu, Chiu, Hsiu-Ju, Jaroszewski, Lukasz, Deacon, Ashley M., Lesley, Scott A., Elsliger, Marc-André, Godzik, Adam, Wilson, Ian A., Wüthrich, Kurt, Salomon, Daniel R., Williamson, James R.

“…RNA‐binding protein 39 (RBM39) is a splicing factor and a transcriptional co‐activator of estrogen receptors and Jun/AP‐1, and its function has been associated…”
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Structural genomics analysis of uncharacterized protein families overrepresented in human gut bacteria identifies a novel glycoside hydrolase by Sheydina, Anna, Eberhardt, Ruth Y, Rigden, Daniel J, Chang, Yuanyuan, Li, Zhanwen, Zmasek, Christian C, Axelrod, Herbert L, Godzik, Adam

“…Bacteroides spp. form a significant part of our gut microbiome and are well known for optimized metabolism of diverse polysaccharides. Initial analysis of the…”
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Crystal Structure of Miner1: The Redox-active 2Fe-2S Protein Causative in Wolfram Syndrome 2 by Conlan, Andrea R., Axelrod, Herbert L., Cohen, Aina E., Abresch, Edward C., Zuris, John, Yee, David, Nechushtai, Rachel, Jennings, Patricia A., Paddock, Mark L.

“…The endoplasmic reticulum protein Miner1 is essential for health and longevity. Mis-splicing of CISD2, which codes for Miner1, is causative in Wolfram Syndrome…”
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New mini- zincin structures provide a minimal scaffold for members of this metallopeptidase superfamily by Trame, Christine B, Chang, Yuanyuan, Axelrod, Herbert L, Eberhardt, Ruth Y, Coggill, Penelope, Punta, Marco, Rawlings, Neil D

“…The Acel_2062 protein from Acidothermus cellulolyticus is a protein of unknown function. Initial sequence analysis predicted that it was a metallopeptidase…”
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LUD, a new protein domain associated with lactate utilization by Hwang, William C, Bakolitsa, Constantina, Punta, Marco, Coggill, Penelope C, Bateman, Alex, Axelrod, Herbert L, Rawlings, Neil D, Sedova, Mayya, Peterson, Scott N, Eberhardt, Ruth Y, Aravind, L, Pascual, Jaime, Godzik, Adam

“…A novel highly conserved protein domain, DUF162 [Pfam: PF02589], can be mapped to two proteins: LutB and LutC. Both proteins are encoded by a highly conserved…”
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Dlx5 Homeodomain:DNA Complex: Structure, Binding and Effect of Mutations Related to Split Hand and Foot Malformation Syndrome by Proudfoot, Andrew, Axelrod, Herbert L., Geralt, Michael, Fletterick, Robert J., Yumoto, Fumiaki, Deacon, Ashley M., Elsliger, Marc-André, Wilson, Ian A., Wüthrich, Kurt, Serrano, Pedro

“…The Dlx5 homeodomain is a transcription factor related to the Drosophila distal-less gene that is associated with breast and lung cancer, lymphoma, Rett…”
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Allosteric control in a metalloprotein dramatically alters function by Baxter, Elizabeth Leigh, Zuris, John A., Wang, Charles, Vo, Phu Luong T., Axelrod, Herbert L., Cohen, Aina E., Paddock, Mark L., Nechushtai, Rachel, Onuchic, Jose N., Jennings, Patricia A.

“…Metalloproteins (MPs) comprise one-third of all known protein structures. This diverse set of proteins contain a plethora of unique inorganic moieties capable…”
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Structural and functional characterization of BaiA, an enzyme involved in secondary bile acid synthesis in human gut microbe by Bhowmik, Shiva, Jones, David H., Chiu, Hsien-Po, Park, In-Hee, Chiu, Hsiu-Ju, Axelrod, Herbert L., Farr, Carol L., Tien, Henry J., Agarwalla, Sanjay, Lesley, Scott A.

“…ABSTRACT Despite significant influence of secondary bile acids on human health and disease, limited structural and biochemical information is available for the…”
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Two Pfam protein families characterized by a crystal structure of protein lpg2210 from Legionella pneumophila by Coggill, Penelope, Eberhardt, Ruth Y, Finn, Robert D, Chang, Yuanyuan, Jaroszewski, Lukasz, Godzik, Adam, Das, Debanu, Xu, Qingping, Axelrod, Herbert L, Aravind, L, Murzin, Alexey G, Bateman, Alex

“…Every genome contains a large number of uncharacterized proteins that may encode entirely novel biological systems. Many of these uncharacterized proteins fall…”
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X-ray Structure Determination of the Cytochrome c2: Reaction Center Electron Transfer Complex from Rhodobacter sphaeroides by Axelrod, Herbert L., Abresch, Edward C., Okamura, Melvin Y., Yeh, Andrew P., Rees, Douglas C., Feher, George

“…In the photosynthetic bacterium Rhodobacter sphaeroides, a water soluble cytochrome c 2 (cyt c 2) is the electron donor to the reaction center (RC), the…”
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Cofactor‐induced reversible folding of Flavodoxin‐4 from Lactobacillus acidophilus by Dutta, Samit Kumar, Serrano, Pedro, Geralt, Michael, Axelrod, Herbert L., Xu, Qingping, Lesley, Scott A., Godzik, Adam, Deacon, Ashley M., Elsliger, Marc‐André, Wilson, Ian A., Wüthrich, Kurt

“…Flavodoxins in combination with the flavin mononucleotide (FMN) cofactor play important roles for electron transport in prokaryotes. Here, novel insights into…”
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Structural Basis of Murein Peptide Specificity of a γ-D-Glutamyl-L-Diamino Acid Endopeptidase by Xu, Qingping, Sudek, Sebastian, McMullan, Daniel, Miller, Mitchell D., Geierstanger, Bernhard, Jones, David H., Krishna, S. Sri, Spraggon, Glen, Bursalay, Badry, Abdubek, Polat, Acosta, Claire, Ambing, Eileen, Astakhova, Tamara, Axelrod, Herbert L., Carlton, Dennis, Caruthers, Jonathan, Chiu, Hsiu-Ju, Clayton, Thomas, Deller, Marc C., Duan, Lian, Elias, Ylva, Elsliger, Marc-André, Feuerhelm, Julie, Grzechnik, Slawomir K., Hale, Joanna, Won Han, Gye, Haugen, Justin, Jaroszewski, Lukasz, Jin, Kevin K., Klock, Heath E., Knuth, Mark W., Kozbial, Piotr, Kumar, Abhinav, Marciano, David, Morse, Andrew T., Nigoghossian, Edward, Okach, Linda, Oommachen, Silvya, Paulsen, Jessica, Reyes, Ron, Rife, Christopher L., Trout, Christina V., van den Bedem, Henry, Weekes, Dana, White, Aprilfawn, Wolf, Guenter, Zubieta, Chloe, Hodgson, Keith O., Wooley, John, Deacon, Ashley M., Godzik, Adam, Lesley, Scott A., Wilson, Ian A.

“…The crystal structures of two homologous endopeptidases from cyanobacteria Anabaena variabilis and Nostoc punctiforme were determined at 1.05 and 1.60 Å…”
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structure and function of the cytochrome c₂: reaction center electron transfer complex from Rhodobacter sphaeroides by Axelrod, H.L, Okamura, M.Y

“…In the photosynthetic bacterium, Rhodobacter sphaeroides, the mobile electron carrier, cytochrome c2 (cyt c2) transfers an electron from reduced heme to the…”
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Crystal structures of two novel dye-decolorizing peroxidases reveal a β-barrel fold with a conserved heme-binding motif by Zubieta, Chloe, Krishna, S. Sri, Kapoor, Mili, Kozbial, Piotr, McMullan, Daniel, Axelrod, Herbert L., Miller, Mitchell D., Abdubek, Polat, Ambing, Eileen, Astakhova, Tamara, Carlton, Dennis, Chiu, Hsiu-Ju, Clayton, Thomas, Deller, Marc C., Duan, Lian, Elsliger, Marc-André, Feuerhelm, Julie, Grzechnik, Slawomir K., Hale, Joanna, Hampton, Eric, Han, Gye Won, Jaroszewski, Lukasz, Jin, Kevin K., Klock, Heath E., Knuth, Mark W., Kumar, Abhinav, Marciano, David, Morse, Andrew T., Nigoghossian, Edward, Okach, Linda, Oommachen, Silvya, Reyes, Ron, Rife, Christopher L., Schimmel, Paul, Bedem, Henry van den, Weekes, Dana, White, Aprilfawn, Xu, Qingping, Hodgson, Keith O., Wooley, John, Deacon, Ashley M., Godzik, Adam, Lesley, Scott A., Wilson, Ian A.

“…BtDyP from Bacteroides thetaiotaomicron (strain VPI‐5482) and TyrA from Shewanella oneidensis are dye‐decolorizing peroxidases (DyPs), members of a new family…”
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Structure of a Virulence Regulatory Factor CvfB Reveals a Novel Winged Helix RNA Binding Module by Matsumoto, Yasuhiko, Xu, Qingping, Miyazaki, Shinya, Kaito, Chikara, Farr, Carol L., Axelrod, Herbert L., Chiu, Hsiu-Ju, Klock, Heath E., Knuth, Mark W., Miller, Mitchell D., Elsliger, Marc-André, Deacon, Ashley M., Godzik, Adam, Lesley, Scott A., Sekimizu, Kazuhisa, Wilson, Ian A.

“…CvfB is a conserved regulatory protein important for the virulence of Staphylococcus aureus. We show here that CvfB binds RNA. The crystal structure of the…”
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Crystal structures of three representatives of a new Pfam family PF14869 (DUF4488) suggest they function in sugar binding/uptake by Kumar, Abhinav, Punta, Marco, Axelrod, Herbert L., Das, Debanu, Farr, Carol L., Grant, Joanna C., Chiu, Hsiu‐Ju, Miller, Mitchell D., Coggill, Penelope C., Klock, Heath E., Elsliger, Marc‐André, Deacon, Ashley M., Godzik, Adam, Lesley, Scott A., Wilson, Ian A.

“…Crystal structures of three members (BACOVA_00364 from Bacteroides ovatus, BACUNI_03039 from Bacteroides uniformis and BACEGG_00036 from Bacteroides eggerthii)…”
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