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Acta Crystallographica. Section F, Structural Biology Communications

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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
#1
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
#2
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
https://www.readbyqxmd.com/read/28177320/a-natural-single-residue-substitution-yields-a-less-active-peptaibiotic-the-structure-of-bergofungin-a-at-atomic-resolution
#3
Renate Gessmann, Danny Axford, Hans Brückner, Albrecht Berg, Kyriacos Petratos
Bergofungin is a peptide antibiotic that is produced by the ascomycetous fungus Emericellopsis donezkii HKI 0059 and belongs to peptaibol subfamily 2. The crystal structure of bergofungin A has been determined and refined to 0.84 Å resolution. This is the second crystal structure of a natural 15-residue peptaibol, after that of samarosporin I. The amino-terminal phenylalanine residue in samarosporin I is exchanged to a valine residue in bergofungin A. According to agar diffusion tests, this results in a nearly inactive antibiotic peptide compared with the moderately active samarosporin I...
February 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28177319/expression-and-crystallographic-studies-of-d-glycero-%C3%AE-d-manno-heptose-1-phosphate-adenylyltransferase-from-burkholderia-pseudomallei
#4
Jimin Park, Hyojin Kim, Suwon Kim, Daeun Lee, Dong Hae Shin
The Gram-negative bacterium Burkholderia pseudomallei is the causative agent of melioidosis. D-glycero-β-D-manno-Heptose-1-phosphate adenylyltransferase (HldC) is the fourth enzyme of the ADP-L-glycero-β-D-manno-heptose biosynthesis pathway, which produces an essential carbohydrate comprising the inner core of lipopolysaccharide. Therefore, HldC is a potential target of antibiotics against melioidosis. In this study, HldC from B. pseudomallei has been cloned, expressed, purified and crystallized. Synchrotron X-ray data from a selenomethionine-substituted HldC crystal were also collected to 2...
February 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28177318/crystallization-and-x-ray-analysis-of-d-threonine-aldolase-from-chlamydomonas-reinhardtii
#5
Yuki Hirato, Masaru Goto, Mayumi Tokuhisa, Minoru Tanigawa, Katsushi Nishimura
D-Threonine aldolase from the green alga Chlamydomonas reinhardtii (CrDTA) catalyzes the interconversion of several β-hydroxy-D-amino acids (e.g. D-threonine) and glycine plus the corresponding aldehydes. Recombinant CrDTA was overexpressed in Escherichia coli and purified to homogeneity; it was subsequently crystallized using the hanging-drop vapour-diffusion method at 295 K. Data were collected and processed at 1.85 Å resolution. Analysis of the diffraction pattern showed that the crystal belonged to space group P1, with unit-cell parameters a = 64...
February 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28177317/structure-of-methylobacterium-extorquens-malyl-coa-lyase-coa-substrate-binding-correlates-with-domain-shift
#6
Javier M González, Ricardo Marti-Arbona, Julian C H Chen, Clifford J Unkefer
Malyl-CoA lyase (MCL) is an Mg(2+)-dependent enzyme that catalyzes the reversible cleavage of (2S)-4-malyl-CoA to yield acetyl-CoA and glyoxylate. MCL enzymes, which are found in a variety of bacteria, are members of the citrate lyase-like family and are involved in the assimilation of one- and two-carbon compounds. Here, the 1.56 Å resolution X-ray crystal structure of MCL from Methylobacterium extorquens AM1 with bound Mg(2+) is presented. Structural alignment with the closely related Rhodobacter sphaeroides malyl-CoA lyase complexed with Mg(2+), oxalate and CoA allows a detailed analysis of the domain motion of the enzyme caused by substrate binding...
February 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28177316/crystallization-of-a-fungal-lytic-polysaccharide-monooxygenase-expressed-from-glycoengineered-pichia-pastoris-for-x-ray-and-neutron-diffraction
#7
William B O'Dell, Paul D Swartz, Kevin L Weiss, Flora Meilleur
Lytic polysaccharide monooxygenases (LPMOs) are carbohydrate-disrupting enzymes secreted by bacteria and fungi that break glycosidic bonds via an oxidative mechanism. Fungal LPMOs typically act on cellulose and can enhance the efficiency of cellulose-hydrolyzing enzymes that release soluble sugars for bioethanol production or other industrial uses. The enzyme PMO-2 from Neurospora crassa (NcPMO-2) was heterologously expressed in Pichia pastoris to facilitate crystallographic studies of the fungal LPMO mechanism...
February 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28177315/crystal-structure-of-the-n-terminal-anticodon-binding-domain-of-the-nondiscriminating-aspartyl-trna-synthetase-from-helicobacter-pylori
#8
Chomphunuch Songsiriritthigul, Suwimon Suebka, Chun Jung Chen, Pitchayada Fuengfuloy, Pitak Chuawong
The N-terminal anticodon-binding domain of the nondiscriminating aspartyl-tRNA synthetase (ND-AspRS) plays a crucial role in the recognition of both tRNA(Asp) and tRNA(Asn). Here, the first X-ray crystal structure of the N-terminal domain of this enzyme (ND-AspRS1-104) from the human-pathogenic bacterium Helicobacter pylori is reported at 2.0 Å resolution. The apo form of H. pylori ND-AspRS1-104 shares high structural similarity with the N-terminal anticodon-binding domains of the discriminating aspartyl-tRNA synthetase (D-AspRS) from Escherichia coli and ND-AspRS from Pseudomonas aeruginosa, allowing recognition elements to be proposed for tRNA(Asp) and tRNA(Asn)...
February 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28045395/structural-characterization-of-the-streptococcus-pneumoniae-carbohydrate-substrate-binding-protein-sp0092
#9
Simone Culurgioni, Minzhe Tang, Martin Austin Walsh
Streptococcus pneumoniae is an opportunistic respiratory pathogen that remains a major cause of morbidity and mortality globally, with infants and the elderly at the highest risk. S. pneumoniae relies entirely on carbohydrates as a source of carbon and dedicates a third of all uptake systems to carbohydrate import. The structure of the carbohydrate-free substrate-binding protein SP0092 at 1.61 Å resolution reveals it to belong to the newly proposed subclass G of substrate-binding proteins, with a ligand-binding pocket that is large enough to accommodate complex oligosaccharides...
January 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28045394/expression-purification-and-crystallization-of-a-protein-resulting-from-the-inversion-of-the-amino-acid-sequence-of-a-helical-bundle
#10
Aikaterini Kefala, Dina Kotsifaki, Mary Providaki, Maria Amprazi, Michael Kokkinidis
Earlier studies have found that the occurrence of inverse sequence identity in proteins is not indicative of three-dimensional similarity, but rather leads to different folds or unfolded proteins. Short helices, however, frequently keep their conformations when their sequences are inverted. To explore the impact of sequence inversion on long helices, revRM6, with the inverse amino-acid sequence relative to RM6, a highly stable variant of the ColE1 Rop protein, was engineered. RM6 is a highly regular four-α-helical bundle that serves as a model system for protein-folding studies...
January 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28045393/recombinant-hepatocyte-growth-factor-activator-inhibitor-1-expression-in-drosophila-s2-cells-purification-and-crystallization
#11
Min Liu, Cai Yuan, Yunbin Jiang, Longguang Jiang, Mingdong Huang
Hepatocyte growth factor activator inhibitor 1 (HAI-1) is a multi-domain membrane-associated protease inhibitor that potently inhibits a variety of serine proteases such as hepatocyte growth factor activator and matriptase. Different truncates of HAI-1 show varying potencies for inhibition of target proteases, suggesting that the domain organization of HAI-1 plays a critical role in its function. Here, the soluble full-length extracellular part of HAI-1 (sHAI-1) was expressed using the Drosophila S2 insect-cell expression system...
January 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28045392/structure-of-a-fungal-form-of-aspartate-semialdehyde-dehydrogenase-from-aspergillus-fumigatus
#12
Gopal P Dahal, Ronald E Viola
Aspartate-semialdehyde dehydrogenase (ASADH) functions at a critical junction in the aspartate biosynthetic pathway and represents a validated target for antimicrobial drug design. This enzyme catalyzes the NADPH-dependent reductive dephosphorylation of β-aspartyl phosphate to produce the key intermediate aspartate semialdehyde. The absence of this entire pathway in humans and other mammals will allow the selective targeting of pathogenic microorganisms for antimicrobial development. Here, the X-ray structure of a new form of ASADH from the pathogenic fungal species Aspergillus fumigatus has been determined...
January 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28045391/crystal-structure-of-a-putrescine-aminotransferase-from-pseudomonas-sp-strain-aac
#13
Matthew Wilding, Colin Scott, Janet Newman, Thomas S Peat
The putrescine aminotransferase KES24511 from Pseudomonas sp. strain AAC was previously identified as an industrially relevant enzyme based on the discovery that it is able to promiscuously catalyse the transamination of 12-aminododecanoic acid. Here, the cloning, heterologous expression, purification and successful crystallization of the KES24511 protein are reported, which ultimately generated crystals adopting space group I2. The crystals diffracted X-rays to 2.07 Å resolution and data were collected using the microfocus beamline of the Australian Synchrotron...
January 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28045390/x-ray-crystal-structure-of-a-malonate-semialdehyde-dehydrogenase-from-pseudomonas-sp-strain-aac
#14
Matthew Wilding, Colin Scott, Thomas S Peat, Janet Newman
The NAD-dependent malonate-semialdehyde dehydrogenase KES23460 from Pseudomonas sp. strain AAC makes up half of a bicistronic operon responsible for β-alanine catabolism to produce acetyl-CoA. The KES23460 protein has been heterologously expressed, purified and used to generate crystals suitable for X-ray diffraction studies. The crystals belonged to space group P212121 and diffracted X-rays to beyond 3 Å resolution using the microfocus beamline of the Australian Synchrotron. The structure was solved using molecular replacement, with a monomer from PDB entry 4zz7 as the search model...
January 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28045389/crystal-structure-of-an-iclr-homologue-from-microbacterium-sp-strain-hm58-2
#15
Tomonori Akiyama, Yusuke Yamada, Naoki Takaya, Shinsaku Ito, Yasuyuki Sasaki, Shunsuke Yajima
The bacterial transcription factor IclR (isocitrate lyase regulator) is a member of a one-component signal transduction system, which shares the common motif of a helix-turn-helix (HTH)-type DNA-binding domain (DBD) connected to a substrate-binding domain (SBD). Here, the crystal structure of an IclR homologue (Mi-IclR) from Microbacterium sp. strain HM58-2, which catabolizes acylhydrazide as the sole carbon source, is reported. Mi-IclR is expected to regulate an operon responsible for acylhydrazide degradation as an initial step...
January 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28045388/crystal-structure-of-the-atpase-c-domain-of-the-chromatin-remodeller-fun30-from-saccharomyces-cerevisiae
#16
Lan Liu, Tao Jiang
Fun30 (Function unknown now 30) is a chromatin remodeller belonging to the Snf2 family. It has previously been reported to be a regulator of several cellular activities, including DNA repair, gene silencing and maintenance of chromatin structure. Here, the crystal structure of the Fun30 ATPase-C domain (the C-lobe of the ATPase domain) is reported at 1.95 Å resolution. Although the structure displays overall similarities to those of other Snf2 family members, a new structural module was found to be specific to the Fun30 subfamily...
January 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/28045387/crystal-structure-of-truncated-human-coatomer-protein-complex-subunit-%C3%AE-1-cop%C3%AE-1
#17
Sergey Lunev, Marije F W Semmelink, Jia Ling Xian, Kai Yu Ma, Anna J A Leenders, Alexander S S Dömling, Michael Shtutman, Matthew R Groves
The majority of modern anticancer approaches target DNA/protein targets involved in tumour-cell proliferation. Such approaches have a major drawback, as nonproliferating cancer cells remain unaffected and may cause relapse or remission. Human coatomer protein complex I (COPI) subunit ζ (Copζ), a component of the coat protein involved in cell apoptosis and intracellular trafficking, has recently been proposed as a potential anticancer drug target. Previous studies have shown that two different isoforms of the Copζ subunit exist in mammalian cells...
January 1, 2017: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/27917840/protein-production-crystallization-and-preliminary-crystallographic-analysis-of-the-four-n-terminal-immunoglobulin-domains-of-down-syndrome-cell-adhesion-molecule-1-corrigendum
#18
Linna Cheng, Shu Ang Li, Jia Huai Wang, Yamei Yu, Qiang Chen
An extra author is added to the article by Chen et al. [(2015), Acta Cryst. F71, 775-778].
December 1, 2016: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/27917839/characterization-and-1-57%C3%A2-%C3%A3-resolution-structure-of-the-key-fire-blight-phosphatase-amsi-from-erwinia-amylovora
#19
Marco Salomone-Stagni, Francesco Musiani, Stefano Benini
AmsI is a low-molecular-weight protein tyrosine phosphatase that regulates the production of amylovoran in the Gram-negative bacterium Erwinia amylovora, a specific pathogen of rosaceous plants such as apple, pear and quince. Amylovoran is an exopolysaccharide that is necessary for successful infection. In order to shed light on AmsI, its structure was solved at 1.57 Å resolution at the same pH as its highest measured activity (pH 5.5). In the active site, a water molecule, bridging between the catalytic Arg15 and the reaction-product analogue sulfate, might be representative of the water molecule attacking the phospho-cysteine intermediate in the second step of the reaction mechanism...
December 1, 2016: Acta Crystallographica. Section F, Structural Biology Communications
https://www.readbyqxmd.com/read/27917838/overcoming-a-hemihedral-twinning-problem-in-tetrahydrofolate-dependent-o-demethylase-crystals-by-the-microseeding-method
#20
Ayaka Harada, Yukari Sato, Naofumi Kamimura, Nagarajan Venugopalan, Eiji Masai, Toshiya Senda
A tetrahydrofolate-dependent O-demethylase, LigM, from Sphingobium sp. SYK-6 was crystallized by the hanging-drop vapour-diffusion method. However, the obtained P3121 or P3221 crystals, which diffracted to 2.5-3.3 Å resolution, were hemihedrally twinned. To overcome the twinning problem, microseeding using P3121/P3221 crystals as microseeds was performed with optimization of the reservoir conditions. As a result, another crystal form was obtained. The newly obtained crystal diffracted to 2.5-3.0 Å resolution and belonged to space group P21212, with unit-cell parameters a = 102...
December 1, 2016: Acta Crystallographica. Section F, Structural Biology Communications
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