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Acta Crystallographica. Section F, Structural Biology Communications

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https://www.readbyqxmd.com/read/28368284/x-ray-diffraction-analysis-and-in-vitro-characterization-of-the-uam2-protein-from-oryza-sativa
#1
Ditte Hededam Welner, Alex Yi Lin Tsai, Andy M DeGiovanni, Henrik Vibe Scheller, Paul D Adams
The role of seemingly non-enzymatic proteins in complexes interconverting UDP-arabinopyranose and UDP-arabinofuranose (UDP-arabinosemutases; UAMs) in the plant cytosol remains unknown. To shed light on their function, crystallographic and functional studies of the seemingly non-enzymatic UAM2 protein from Oryza sativa (OsUAM2) were undertaken. Here, X-ray diffraction data are reported, as well as analysis of the oligomeric state in the crystal and in solution. OsUAM2 crystallizes readily but forms highly radiation-sensitive crystals with limited diffraction power, requiring careful low-dose vector data acquisition...
April 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28368283/preliminary-neutron-diffraction-analysis-of-challenging-human-manganese-superoxide-dismutase-crystals
#2
Jahaun Azadmanesh, Scott R Trickel, Kevin L Weiss, Leighton Coates, Gloria E O Borgstahl
Superoxide dismutases (SODs) are enzymes that protect against oxidative stress by dismutation of superoxide into oxygen and hydrogen peroxide through cyclic reduction and oxidation of the active-site metal. The complete enzymatic mechanisms of SODs are unknown since data on the positions of hydrogen are limited. Here, methods are presented for large crystal growth and neutron data collection of human manganese SOD (MnSOD) using perdeuteration and the MaNDi beamline at Oak Ridge National Laboratory. The crystal from which the human MnSOD data set was obtained is the crystal with the largest unit-cell edge (240 Å) from which data have been collected via neutron diffraction to sufficient resolution (2...
April 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28368282/crystal-structure-of-enolase-from-drosophila-melanogaster
#3
Congcong Sun, Baokui Xu, Xueyan Liu, Zhen Zhang, Zhongliang Su
Enolase is an important enzyme in glycolysis and various biological processes. Its dysfunction is closely associated with diseases. Here, the enolase from Drosophila melanogaster (DmENO) was purified and crystallized. A crystal of DmENO diffracted to 2.0 Å resolution and belonged to space group R32. The structure was solved by molecular replacement. Like most enolases, DmENO forms a homodimer with conserved residues in the dimer interface. DmENO possesses an open conformation in this structure and contains conserved elements for catalytic activity...
April 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28368281/crystal-structure-of-a-small-heat-shock-protein-from-xylella-fastidiosa-reveals-a-distinct-high-order-structure
#4
Emanuella Maria Barreto Fonseca, Valéria Scorsato, Marcelo Leite Dos Santos, Atilio Tomazini Júnior, Susely Ferraz Siqueira Tada, Clelton Aparecido Dos Santos, Marcelo Augusto Szymanski de Toledo, Anete Pereira de Souza, Igor Polikarpov, Ricardo Aparicio
Citrus variegated chlorosis is a disease that attacks economically important citrus plantations and is caused by the plant-pathogenic bacterium Xylella fastidiosa. In this work, the structure of a small heat-shock protein from X. fastidiosa (XfsHSP17.9) is reported. The high-order structures of small heat-shock proteins from other organisms are arranged in the forms of double-disc, hollow-sphere or spherical assemblies. Unexpectedly, the structure reported here reveals a high-order architecture forming a nearly square cavity...
April 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28368280/x-ray-crystal-structure-of-human-calcium-bound-s100a1
#5
Zephan Melville, Ehson Aligholizadeh, Laura E McKnight, Dylan J Weber, Edwin Pozharski, David J Weber
S100A1 is a member of the S100 family of Ca(2+)-binding proteins and regulates several cellular processes, including those involved in Ca(2+) signaling and cardiac and skeletal muscle function. In Alzheimer's disease, brain S100A1 is overexpressed and gives rise to disease pathologies, making it a potential therapeutic target. The 2.25 Å resolution crystal structure of Ca(2+)-S100A1 is solved here and is compared with the structures of other S100 proteins, most notably S100B, which is a highly homologous S100-family member that is implicated in the progression of malignant melanoma...
April 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28368279/crystal-structure-of-the-human-heterogeneous-ribonucleoprotein-a18-rna-recognition-motif
#6
Katherine Coburn, Zephan Melville, Ehson Aligholizadeh, Braden M Roth, Kristen M Varney, France Carrier, Edwin Pozharski, David J Weber
The heterogeneous ribonucleoprotein A18 (hnRNP A18) is upregulated in hypoxic regions of various solid tumors and promotes tumor growth via the coordination of mRNA transcripts associated with pro-survival genes. Thus, hnRNP A18 represents an important therapeutic target in tumor cells. Presented here is the first X-ray crystal structure to be reported for the RNA-recognition motif of hnRNP A18. By comparing this structure with those of homologous RNA-binding proteins (i.e. hnRNP A1), three residues on one face of an antiparallel β-sheet (Arg48, Phe50 and Phe52) and one residue in an unstructured loop (Arg41) were identified as likely to be involved in protein-nucleic acid interactions...
April 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28368278/crystallization-and-x-ray-analysis-of-the-extracellular-adhesion-domain-of-helicobacter-pylori-adhesin-a-the-significance-of-the-cation-composition-in-the-crystallization-precipitant
#7
Ling Guo, Jinyong Zhang, Liwei Cui, Dong Liu, Bo Ma, Shufeng Wang, Haibo Li, Yuzhang Wu, Wei Liu
Adherence to host cells is a crucial step in the process of bacterial infection, which is usually mediated by a number of outer membrane proteins identified as adhesins. Helicobacter pylori adhesin A (HpaA) is a member of the adhesin family that mediates the adherence of Helicobacter pylori to gastric epithelial cells, and consequently assists the bacteria in becoming a life-long colonizer of the human stomach. In this study, two constructs were made for the production of truncated HpaA proteins comprising residues 31-260 and 53-260, respectively...
April 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28368277/structure-of-the-complex-of-phosphorylated-liver-kinase-b1-and-14-3-3%C3%AE
#8
Yongjian Lu, Sheng Ding, Ruiqing Zhou, Jianyong Wu
The serine/threonine protein kinase liver kinase B1 (LKB1) is a tumour suppressor and plays important roles in development and metabolism. It phosphorylates AMPK and AMPK-related kinases to regulate multiple physiological processes. Mutations in LKB1 often occur in multiple cancers. LKB1 can be suppressed by 14-3-3 proteins in a phosphorylation-dependent manner. Previously, the structure of a 14-3-3ζ-LKB1 fusion protein has been reported, revealing a phosphorylation-independent binding mode of LKB1 to 14-3-3 proteins...
April 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28368276/the-hidden-treasure-in-your-data-phasing-with-unexpected-weak-anomalous-scatterers-from-routine-data-sets
#9
Raghurama P Hegde, Alexander A Fedorov, J Michael Sauder, Stephen K Burley, Steven C Almo, Udupi A Ramagopal
Single-wavelength anomalous dispersion (SAD) utilizing anomalous signal from native S atoms, or other atoms with Z ≤ 20, generally requires highly redundant data collected using relatively long-wavelength X-rays. Here, the results from two proteins are presented where the anomalous signal from serendipitously acquired surface-bound Ca atoms with an anomalous data multiplicity of around 10 was utilized to drive de novo structure determination. In both cases, the Ca atoms were acquired from the crystallization solution, and the data-collection strategy was not optimized to exploit the anomalous signal from these scatterers...
April 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28368275/cryo-electron-microscopy-and-x-ray-crystallography-complementary-approaches-to-structural-biology-and-drug-discovery
#10
Catherine Vénien-Bryan, Zhuolun Li, Laurent Vuillard, Jean Albert Boutin
The invention of the electron microscope has greatly enhanced the view scientists have of small structural details. Since its implementation, this technology has undergone considerable evolution and the resolution that can be obtained for biological objects has been extended. In addition, the latest generation of cryo-electron microscopes equipped with direct electron detectors and software for the automated collection of images, in combination with the use of advanced image-analysis methods, has dramatically improved the performance of this technique in terms of resolution...
April 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28291753/crystal-structure-of-the-type-iv-secretion-system-component-cagx-from-helicobacter-pylori
#11
Jin Zhang, Fei Fan, Yanhe Zhao, Lifang Sun, Yadan Liu, Ronan M Keegan, Michail N Isupov, Yunkun Wu
Helicobacter pylori, a Gram-negative bacterial pathogen prevalent in the human population, is the causative agent of severe gastric diseases. An H. pylori type IV secretion (T4S) system encoded by the cytotoxin-associated gene pathogenicity island (cagPAI) is responsible for communication with host cells. As a component of the cagPAI T4S system core complex, CagX plays an important role in virulence-protein translocation into the host cells. In this work, the crystal structure of the C-terminal domain of CagX (CagXct), which is a homologue of the VirB9 protein from the VirB/D4 T4S system, is presented...
March 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28291752/new-molecular-packing-in-a-crystal-of-pseudoazurin-from-alcaligenes-faecalis-a-double-helical-arrangement-of-blue-copper
#12
Yohta Fukuda, Eiichi Mizohata, Tsuyoshi Inoue
Pseudoazurin from the denitrifying bacterium Alcaligenes faecalis (AfPAz) is a blue copper protein and functions as an electron donor to copper-containing nitrite reductase (CuNIR). Conventionally, AfPAz has been crystallized using highly concentrated ammonium sulfate as a precipitant. Here, a needle-like crystal of AfPAz grown in a solution containing a macromolecular precipitant, polyethylene glycol 8000 (PEG 8000), is reported. The crystal belonged to space group P61, with unit-cell parameters a = b = 68...
March 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28291751/the-hyperthermophilic-cystathionine-%C3%AE-synthase-from-the-aerobic-crenarchaeon-sulfolobus-tokodaii-expression-purification-crystallization-and-structural-insights
#13
Dan Sato, Tomoo Shiba, Sae Mizuno, Ayaka Kawamura, Shoko Hanada, Tetsuya Yamada, Mai Shinozaki, Masahiko Yanagitani, Takashi Tamura, Kenji Inagaki, Shigeharu Harada
Cystathionine γ-synthase (CGS; EC 2.5.1.48), a pyridoxal 5'-phosphate (PLP)-dependent enzyme, catalyzes the formation of cystathionine from an L-homoserine derivative and L-cysteine in the first step of the transsulfuration pathway. Recombinant CGS from the thermoacidophilic archaeon Sulfolobus tokodaii (StCGS) was overexpressed in Escherichia coli and purified to homogeneity by heat treatment followed by hydroxyapatite and gel-filtration column chromatography. The purified enzyme shows higher enzymatic activity at 353 K under basic pH conditions compared with that at 293 K...
March 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28291750/similarities-in-the-structure-of-the-transcriptional-repressor-amtr-in-two-different-space-groups-suggest-a-model-for-the-interaction-with-glnk
#14
Madhumati Sevvana, Kristin Hasselt, Florian C Grau, Andreas Burkovski, Yves A Muller
AmtR belongs to the TetR family of transcription regulators and is a global nitrogen regulator that is induced under nitrogen-starvation conditions in Corynebacterium glutamicum. AmtR regulates the expression of transporters and enzymes for the assimilation of ammonium and alternative nitrogen sources, for example urea, amino acids etc. The recognition of operator DNA by homodimeric AmtR is not regulated by small-molecule effectors as in other TetR-family members but by a trimeric adenylylated PII-type signal transduction protein named GlnK...
March 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28291749/proteolysis-of-truncated-hemolysin-a-yields-a-stable-dimerization-interface
#15
Walter R P Novak, Basudeb Bhattacharyya, Daniel P Grilley, Todd M Weaver
Wild-type and variant forms of HpmA265 (truncated hemolysin A) from Proteus mirabilis reveal a right-handed, parallel β-helix capped and flanked by segments of antiparallel β-strands. The low-salt crystal structures form a dimeric structure via the implementation of on-edge main-chain hydrogen bonds donated by residues 243-263 of adjacent monomers. Surprisingly, in the high-salt structures of two variants, Y134A and Q125A-Y134A, a new dimeric interface is formed via main-chain hydrogen bonds donated by residues 203-215 of adjacent monomers, and a previously unobserved tetramer is formed...
March 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28291748/the-crystal-structure-of-mouse-lc3b-in-complex-with-the-fyco1-lir-reveals-the-importance-of-the-flanking-region-of-the-lir-motif
#16
Shunya Sakurai, Taisuke Tomita, Toshiyuki Shimizu, Umeharu Ohto
FYVE and coiled-coil domain-containing protein 1 (FYCO1), a multidomain autophagy adaptor protein, mediates microtubule plus-end-directed autophagosome transport by interacting with kinesin motor proteins and with the autophagosomal membrane components microtubule-associated protein 1 light chain 3 (LC3), Rab7 and phosphatidylinositol 3-phosphate (PI3P). To establish the structural basis for the recognition of FYCO1 by LC3, the crystal structure of mouse LC3B in complex with the FYCO1 LC3-interacting region (LIR) motif peptide was determined...
March 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28291747/crystallization-of-fcpa-from-leptospira-a-novel-flagellar-protein-that-is-essential-for-pathogenesis
#17
Fabiana San Martin, Ariel E Mechaly, Nicole Larrieux, Elsio A Wunder, Albert I Ko, Mathieu Picardeau, Felipe Trajtenberg, Alejandro Buschiazzo
The protein FcpA is a unique component of the flagellar filament of spirochete bacteria belonging to the genus Leptospira. Although it plays an essential role in translational motility and pathogenicity, no structures of FcpA homologues are currently available in the PDB. Its three-dimensional structure will unveil the novel motility mechanisms that render pathogenic Leptospira particularly efficient at invading and disseminating within their hosts, causing leptospirosis in humans and animals. FcpA from L. interrogans was purified and crystallized, but despite laborious attempts no useful X ray diffraction data could be obtained...
March 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28291746/crystal-structure-of-full-length-zika-virus-ns5-protein-reveals-a-conformation-similar-to-japanese-encephalitis-virus-ns5
#18
Anup K Upadhyay, Matthew Cyr, Kenton Longenecker, Rakesh Tripathi, Chaohong Sun, Dale J Kempf
The rapid spread of the recent Zika virus (ZIKV) epidemic across various countries in the American continent poses a major health hazard for the unborn fetuses of pregnant women. To date, there is no effective medical intervention. The nonstructural protein 5 of Zika virus (ZIKV-NS5) is critical for ZIKV replication through the 5'-RNA capping and RNA polymerase activities present in its N-terminal methyltransferase (MTase) and C-terminal RNA-dependent RNA polymerase (RdRp) domains, respectively. The crystal structure of the full-length ZIKV-NS5 protein has been determined at 3...
March 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28177322/crystallization-and-x-ray-crystallographic-analysis-of-recombinant-tylp-a-putative-%C3%AE-butyrolactone-receptor-protein-from-streptomyces-fradiae
#19
Nurhikmah Mohd-Sharif, Sofiyah Shaibullah, Vasanthakumar Givajothi, Cheng Seng Tan, Kok Lian Ho, Aik Hong Teh, Syarul Nataqain Baharum, Jitka Waterman, Chyan Leong Ng
TylP is one of five regulatory proteins involved in the regulation of antibiotic (tylosin) production, morphological and physiological differentiation in Streptomyces fradiae. Its function is similar to those of various γ-butyrolactone receptor proteins. In this report, N-terminally His-tagged recombinant TylP protein (rTylP) was overproduced in Escherichia coli and purified to homogeneity. The rTylP protein was crystallized from a reservoir solution comprising 34%(v/v) ethylene glycol and 5%(v/v) glycerol...
February 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28177321/the-crystal-structure-of-pd1-a-haemophilus-surface-fibril-domain
#20
Jack Wright, Maren Thomsen, Robert Kolodziejczyk, Joshua Ridley, Jessica Sinclair, Glenn Carrington, Birendra Singh, Kristian Riesbeck, Adrian Goldman
The Haemophilus surface fibril (Hsf) is an unusually large trimeric autotransporter adhesin (TAA) expressed by the most virulent strains of H. influenzae. Hsf is known to mediate adhesion between pathogen and host, allowing the establishment of potentially deadly diseases such as epiglottitis, meningitis and pneumonia. While recent research has suggested that this TAA might adopt a novel `hairpin-like' architecture, the characterization of Hsf has been limited to in silico modelling and electron micrographs, with no high-resolution structural data available...
February 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
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