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Journal Acta Crystallogr F Struct Biol Commun

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Novel carbohydrate-recognition mode of the invertebrate C-type lectin SPL-1 from Saxidomus purpuratus revealed by the GlcNAc-complex crystal in the presence of Ca2.

Hideaki Unno, Shuhei Higuchi, Shuichiro Goda, Tomomitsu Hatakeyama,

The C-type lectins SPL-1 and SPL-2 from the bivalve Saxidomus purpuratus are composed of A and B chains and of two B chains, respectively. They bind specific carbohydrates containing acetamido groups, such as N-acetylglucosamine (GlcNAc) and N-acetylgalactosamine (GalNAc), in a Ca2+-independent manner. Unlike ordinary C-type lectins, which require Ca2+ ions ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 6):271-277]

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Crystal structure of the SH3 domain of growth factor receptor-bound protein 2.

Alexandr Bolgov, Svetlana Korban, Dmitrii Luzik, Vladimir Zhemkov, Meewhi Kim, Olga Rogacheva, Ilya Bezprozvanny,

This study presents the crystal structure of the N-terminal SH3 (SH3N) domain of growth factor receptor-bound protein 2 (Grb2) at 2.5 Å resolution. Grb2 is a small (215-amino-acid) adaptor protein that is widely expressed and involved in signal transduction/cell communication. The crystal structure of full-length Grb2 has previously been reported (PDB ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 6):263-270]

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Crystallization and X-ray analysis of Borrelia burgdorferi β-barrel assembly machinery A.

Shishang Dong, Hongguan Chu, Kangning Wen, Qianqian Yu, Hui Li, Changhui Wang, Xiaochun Qin,

Mitochondria, chloroplasts and several species of bacteria have outer membrane proteins (OMPs) that perform many essential biological functions. The β-barrel assembly machinery (BAM) complex is one of the OMPs of Borrelia burgdorferi, the pathogenic spirochete that causes Lyme disease, and its BamA component (BbBamA) includes a C-terminal β-barrel domain and ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 6):235-240]

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Structure of heme d1-free cd1 nitrite reductase NirS.

Thomas Klünemann, Wulf Blankenfeldt,

A key step in anaerobic nitrate respiration is the reduction of nitrite to nitric oxide, which is catalysed by the cd1 nitrite reductase NirS in, for example, the Gram-negative opportunistic pathogen Pseudomonas aeruginosa. Each subunit of this homodimeric enzyme consists of a cytochrome c domain and an eight-bladed β-propeller that ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 6):250-256]

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Crystal structures of the GH18 domain of the bifunctional peroxiredoxin-chitinase CotE from Clostridium difficile.

Jean L Whittingham, Shumpei Hanai, James A Brannigan, William T Ferreira, Eleanor J Dodson, Johan P Turkenburg, Jared Cartwright, Simon M Cutting, Anthony J Wilkinson,

CotE is a coat protein that is present in the spores of Clostridium difficile, an obligate anaerobic bacterium and a pathogen that is a leading cause of antibiotic-associated diarrhoea in hospital patients. Spores serve as the agents of disease transmission, and CotE has been implicated in their attachment to the ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 6):241-249]

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Expression, purification, crystallization and X-ray diffraction studies of a novel root-induced secreted protein from Trichoderma virens.

Ravindra Bansal, Hiral U Mistry, Prasun K Mukherjee, Gagan D Gupta,

Small secreted cysteine-rich proteins (SSCPs) from fungi play an important role in fungi-host interactions. The plant-beneficial fungi Trichoderma spp. are in use worldwide as biocontrol agents and protect the host plant from soil-borne as well as foliar pathogens. Recently, a novel SSCP, Tsp1, has been identified in the secreted protein ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 6):257-262]

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Crystal structure of gluconate 5-dehydrogenase from Lentibacter algarum.

Dengke Tian, Xueqi Fu, Wenqiang Cao, Hong Yuan,

Gluconate 5-dehydrogenase (Ga5DH; EC 1.1.1.69) from Lentibacter algarum (LaGa5DH) was recombinantly expressed in Escherichia coli and purified to homogeneity. The protein was crystallized and the crystal structure was solved at 2.1 Å resolution. The crystal belonged to the monoclinic system, with space group P1 and unit-cell parameters a = 55.42, b = 55.48, ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 5):228-234]

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Crystal structure of the nucleoid-associated protein Fis (PA4853) from Pseudomonas aeruginosa.

Juan Zhou, Zengqiang Gao, Heng Zhang, Yuhui Dong,

Factor for inversion stimulation (Fis) is a versatile bacterial nucleoid-associated protein that can directly bind and bend DNA to influence DNA topology. It also plays crucial roles in regulating bacterial virulence factors and in optimizing bacterial adaptation to various environments. Fis from Pseudomonas aeruginosa (PA4853, referred to as PaFis) has ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 5):209-215]

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Structure of a single-chain H2A/H2B dimer.

Christopher Warren, Jeffrey B Bonanno, Steven C Almo, David Shechter,

Chromatin is the complex assembly of nucleic acids and proteins that makes up the physiological form of the eukaryotic genome. The nucleosome is the fundamental repeating unit of chromatin, and is composed of ∼147 bp of DNA wrapped around a histone octamer formed by two copies of each core histone: H2A, ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 5):194-198]

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Characterization of the Pseudomonas aeruginosa T6SS PldB immunity proteins PA5086, PA5087 and PA5088 explains a novel stockpiling mechanism.

Haiying Wen, Zhi Geng, Zengqiang Gao, Zhun She, Yuhui Dong,

The bacterial type VI secretion system (T6SS) secretes many toxic effectors to gain advantage in interbacterial competition and for eukaryotic host infection. The cognate immunity proteins of these effectors protect bacteria from their own effectors. PldB is a T6SS trans-kingdom effector in Pseudomonas aeruginosa that can infect both prokaryotic and ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 5):222-227]

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Structure of the 4-hydroxy-tetrahydrodipicolinate synthase from the thermoacidophilic methanotroph Methylacidiphilum fumariolicum SolV and the phylogeny of the aminotransferase pathway.

Rob A Schmitz, Andreas Dietl, Melanie Müller, Tom Berben, Huub J M Op den Camp, Thomas R M Barends,

The enzyme 4-hydroxy-tetrahydrodipicolinate synthase (DapA) is involved in the production of lysine and precursor molecules for peptidoglycan synthesis. In a multistep reaction, DapA converts pyruvate and L-aspartate-4-semialdehyde to 4-hydroxy-2,3,4,5-tetrahydrodipicolinic acid. In many organisms, lysine binds allosterically to DapA, causing negative feedback, thus making the enzyme an important regulatory component of ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 5):199-208]

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Crystallographic snapshots of the EF-hand protein MCFD2 complexed with the intracellular lectin ERGIC-53 involved in glycoprotein transport.

Tadashi Satoh, Miho Nishio, Kousuke Suzuki, Maho Yagi-Utsumi, Yukiko Kamiya, Tsunehiro Mizushima, Koichi Kato,

The transmembrane intracellular lectin ER-Golgi intermediate compartment protein 53 (ERGIC-53) and the soluble EF-hand multiple coagulation factor deficiency protein 2 (MCFD2) form a complex that functions as a cargo receptor, trafficking various glycoproteins between the endoplasmic reticulum (ER) and the Golgi apparatus. It has been demonstrated that the carbohydrate-recognition domain ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 5):216-221]

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Crystal structure of Arabidopsis thaliana casein kinase 2 α1.

Manon Demulder, Lieven De Veylder, Remy Loris,

Casein kinase 2 (CK2) is a ubiquitous pleiotropic enzyme that is highly conserved across eukaryotic kingdoms. CK2 is singular amongst kinases as it is highly rigid and constitutively active. Arabidopsis thaliana is widely used as a model system in molecular plant research; the biological functions of A. thaliana CK2 are well ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 4):182-191]

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Visualizing an unseen enemy; mobilizing structural biology to counter COVID-19.

Edward N Baker,

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 4):158-159]

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Structural characterization of human O-phosphoethanolamine phospho-lyase.

Chiara Vettraino, Alessio Peracchi, Stefano Donini, Emilio Parisini,

Human O-phosphoethanolamine phospho-lyase (hEtnppl; EC 4.2.3.2) is a pyridoxal 5'-phosphate-dependent enzyme that catalyzes the degradation of O-phosphoethanolamine (PEA) into acetaldehyde, phosphate and ammonia. Physiologically, the enzyme is involved in phospholipid metabolism, as PEA is the precursor of phosphatidylethanolamine in the CDP-ethanolamine (Kennedy) pathway. Here, the crystal structure of hEtnppl in ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 4):160-167]

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Structure of the Mycobacterium smegmatis α-maltose-1-phosphate synthase GlgM.

Karl Syson, Clare E M Stevenson, David M Lawson, Stephen Bornemann,

Mycobacterium tuberculosis produces glycogen (also known as α-glucan) to help evade human immunity. This pathogen uses the GlgE pathway to generate glycogen rather than the more well known glycogen synthase GlgA pathway, which is absent in this bacterium. Thus, the building block for this glucose polymer is α-maltose-1-phosphate rather than ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 4):175-181]

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Rv0100, a proposed acyl carrier protein in Mycobacterium tuberculosis: expression, purification and crystallization. Corrigendum.

Jasper Marc G Bondoc, Hiten J Gutka, Mashal M Almutairi, Ryan Patwell, Maxwell W Rutter, Nina M Wolf, Ram Samudrala, Shahila Mehboob, Alexey Dementiev, Cele Abad-Zapatero, Farahnaz Movahedzadeh,

The true identity of the protein found in the crystals reported by Bondoc et al. [(2019), Acta Cryst. F75, 646-651] is given. ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 4):192-193]

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Crystal structure of monomeric Amuc_1100 from Akkermansia muciniphila.

Luqiu Mou, Xi Peng, Yan Chen, Qingjie Xiao, Huijuan Liao, Mingfeng Liu, Li Guo, Yang Liu, Xiaohu Zhang, Dong Deng,

Many human diseases, such as obesity and diabetes, show annual increases in prevalence and often involve intestinal microbes. One such probiotic bacterium, Akkermansia muciniphila, which was discovered a decade ago, has been reported to influence glucose homeostasis and to contribute to gut health. Amuc_1100, a functionally uncharacterized protein of A. ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 4):168-174]

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Structural insights into the catalytic mechanism of Bacillus subtilis BacF.

Ashish Deshmukh, Balasubramanian Gopal,

The nonribosomal biosynthesis of the dipeptide antibiotic bacilysin is achieved by the concerted action of multiple enzymes in the Bacillus subtilis bac operon. BacF (YwfG), encoded by the bacF gene, is a fold type I pyridoxal 5-phosphate (PLP)-dependent stereospecific transaminase. Activity assays with L-phenylalanine and 4-hydroxyphenylpyruvic acid (4HPP), a chemical ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 3):145-151]

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Structure determination of the human TRPV1 ankyrin-repeat domain under nonreducing conditions.

Miki Tanaka, Kaori Hayakawa, Nozomi Ogawa, Tatsuki Kurokawa, Kenichi Kitanishi, Kenji Ite, Toshitaka Matsui, Yasuo Mori, Masaki Unno,

TRPV1, a member of the transient receptor potential (TRP) channels family, has been found to be involved in redox sensing. The crystal structure of the human TRPV1 ankyrin-repeat domain (TRPV1-ARD) was determined at 4.5 Å resolution under nonreducing conditions. This is the first report of the crystal structure of a ligand-free ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 3):130-137]

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The crystal structure of the catalytic domain of tau tubulin kinase 2 in complex with a small-molecule inhibitor.

Douglas J Marcotte, Kerri A Spilker, Dingyi Wen, Thomas Hesson, Thomas A Patterson, P Rajesh Kumar, Jayanth V Chodaparambil,

Tau proteins play an important role in the proper assembly and function of neurons. Hyperphosphorylation of tau by kinases such as tau tubulin kinase (TTBK) has been hypothesized to cause the aggregation of tau and the formation of neurofibrillary tangles (NFTs) that lead to the destabilization of microtubules, thereby contributing ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 3):103-108]

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Engineering the Fab fragment of the anti-IgE omalizumab to prevent Fab crystallization and permit IgE-Fc complex crystallization.

Alkistis N Mitropoulou, Tom Ceska, James T Heads, Andrew J Beavil, Alistair J Henry, James M McDonnell, Brian J Sutton, Anna M Davies,

Immunoglobulin E (IgE) plays a central role in the allergic response, in which cross-linking of allergen by FcεRI-bound IgE triggers mast cell and basophil degranulation and the release of inflammatory mediators. The high-affinity interaction between IgE and FcεRI is a long-standing target for therapeutic intervention in allergic disease. Omalizumab is ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 3):116-129]

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The phospholipase A effector PlaA from Legionella pneumophila: expression, purification and crystallization.

Xiaoyan Qu, Xiaowen Song, Nannan Zhang, Jinming Ma, Honghua Ge,

Legionella pneumophila encodes an extracellular secreted phospholipase A named PlaA that is translocated by the type II secretion system. It plays an essential role in maintaining the integrity of Legionella-containing vacuoles in L. pneumophila pathogenesis. Here, it is shown that PlaA has a main lysophospholipase activity to hydrolyze fatty-acyl groups ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 3):138-144]

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Crystal structure of Arabidopsis thaliana neutral invertase 2.

Łukasz P Tarkowski, Vicky G Tsirkone, Evgenii M Osipov, Steven Beelen, Willem Lammens, Rudy Vergauwen, Wim Van den Ende, Sergei V Strelkov,

The metabolism of sucrose is of crucial importance for life on Earth. In plants, enzymes called invertases split sucrose into glucose and fructose, contributing to the regulation of metabolic fluxes. Invertases differ in their localization and pH optimum. Acidic invertases present in plant cell walls and vacuoles belong to glycoside ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 3):152-157]

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Structural and biochemical characterization of mitochondrial citrate synthase 4 from Arabidopsis thaliana.

Kazuya Nishio, Tsunehiro Mizushima,

Citrate synthase (CS) catalyzes the conversion of oxaloacetate and acetyl coenzyme A into citrate and coenzyme A in the mitochondrial tricarboxylic acid (TCA) cycle. In plants, mitochondrial metabolism, including the TCA cycle, occurs in interaction with photosynthetic metabolism. The controlled regulation of several enzymes in the TCA cycle, such as ... Read more >>

Acta Crystallogr F Struct Biol Commun (Acta crystallographica. Section F, Structural biology communications)
[2020, 76(Pt 3):109-115]

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