共查询到20条相似文献,搜索用时 15 毫秒
1.
We report the X-ray crystal structures and rate constants for proton transfer in site-specific mutants of human carbonic anhydrase III (HCA III) that place a histidine residue in the active-site cavity: K64H, R67H, and K64H-R67N HCA III. Prior evidence from the exchange of 18O between CO2 and water measured by mass spectrometry shows each mutant to have enhanced proton transfer in catalysis compared with wild-type HCA III. However, His64 in K64H and K64H-R67N HCA III have at most a capacity for proton transfer that is only 13% that of His64 in HCA II. This reduced rate in mutants of HCA III is associated with a constrained side-chain conformation of His64, which is oriented outward, away from the active-site zinc in the crystal structures. This conformation appears stabilized by a prominent pi stacking interaction of the imidazole ring of His64 with the indole ring of Trp5 in mutants of HCA III. This single orientation of His64 in K64H HCA III predominates also in a double mutant K64H-R67N HCA III, indicating that the positive charge of Arg67 does not influence the observed conformation of His64 in the crystal structure. Hence, the structures and catalytic activity of these mutants of HCA III containing His64 account only in small part for the lower activity of this isozyme compared with HCA II. His67 in R67H HCA III was also shown to be a proton shuttle residue, having a capacity for proton transfer that was approximately four times that of His64 in K64H HCA III. This is most likely due to its proximity and orientation inward towards the zinc-bound solvent. These results emphasize the significance of side chain orientation and range of available conformational states as characteristics of an efficient proton shuttle in carbonic anhydrase. 相似文献
2.
Ryuta Saito Takao Sato Atsushi Ikai Nobuo Tanaka 《Acta Crystallographica. Section D, Structural Biology》2004,60(4):792-795
Carbonic anhydrase (CA) is a zinc‐containing enzyme that catalyzes the reversible hydration of CO2 to HCO. In eukaryotes, the enzyme plays a role in various physiological functions, including interconversion between CO2 and HCO in intermediary metabolism, facilitated diffusion of CO2, pH homeostasis and ion transport. The structure of bovine carbonic anhydrase II (BCA II) has been determined by molecular replacement and refined to 1.95 Å resolution by simulated‐annealing and individual B‐factor refinement. The final R factor for the BCA II structure was 19.4%. BCA II has a C‐terminal knot structure similar to that observed in human CA II. It contains one zinc ion in the active site coordinated to three histidines and one putative water molecule in a tetrahedral geometry. The structure of BCA II reveals a probable alternative proton‐wire pathway that differs from that of HCA II. 相似文献
3.
K. Koruza B. Lafumat M. Nyblom B. P. Mahon W. Knecht R. McKenna S. Z. Fisher 《Acta Crystallographica. Section D, Structural Biology》2019,75(10):895-903
Human carbonic anhydrase IX (CA IX) expression is upregulated in hypoxic solid tumours, promoting cell survival and metastasis. This observation has made CA IX a target for the development of CA isoform‐selective inhibitors. To enable structural studies of CA IX–inhibitor complexes using X‐ray and neutron crystallography, a CA IX surface variant (CA IXSV; the catalytic domain with six surface amino‐acid substitutions) has been developed that can be routinely crystallized. Here, the preparation of protiated (H/H), H/D‐exchanged (H/D) and deuterated (D/D) CA IXSV for crystallographic studies and their structural comparison are described. Four CA IXSV X‐ray crystal structures are compared: two H/H crystal forms, an H/D crystal form and a D/D crystal form. The overall active‐site organization in each version is essentially the same, with only minor positional changes in active‐site solvent, which may be owing to deuteration and/or resolution differences. Analysis of the crystal contacts and packing reveals different arrangements of CA IXSV compared with previous reports. To our knowledge, this is the first report comparing three different deuterium‐labelled crystal structures of the same protein, marking an important step in validating the active‐site structure of CA IXSV for neutron protein crystallography. 相似文献
4.
S. Z. Fisher A. Y. Kovalevsky J. Domsic M. Mustyakimov D. N. Silverman R. McKenna P. Langan 《Acta Crystallographica. Section D, Structural Biology》2010,66(11):1178-1183
Carbonic anhydrase (CA) is a ubiquitous metalloenzyme that catalyzes the reversible hydration of CO2 to form HCO3− and H+ using a Zn–hydroxide mechanism. The first part of catalysis involves CO2 hydration, while the second part deals with removing the excess proton that is formed during the first step. Proton transfer (PT) is thought to occur through a well ordered hydrogen‐bonded network of waters that stretches from the metal center of CA to an internal proton shuttle, His64. These waters are oriented and ordered through a series of hydrogen‐bonding interactions to hydrophilic residues that line the active site of CA. Neutron studies were conducted on wild‐type human CA isoform II (HCA II) in order to better understand the nature and the orientation of the Zn‐bound solvent (ZS), the charged state and conformation of His64, the hydrogen‐bonding patterns and orientations of the water molecules that mediate PT and the ionization of hydrophilic residues in the active site that interact with the water network. Several interesting and unexpected features in the active site were observed which have implications for how PT proceeds in CA. 相似文献
5.
David Duda Lakshmanan Govindasamy Mavis Agbandje‐McKenna Chingkuang Tu David N. Silverman Robert McKenna 《Acta Crystallographica. Section D, Structural Biology》2003,59(1):93-104
Using synchrotron radiation and a CCD detector, X‐ray data have been collected at 100 K for the His64Ala mutant of human carbonic anhydrase II complexed with 4‐methylimidazole (4‐MI) to a maximal 1.05 Å resolution, allowing full anisotropic least‐squares refinement. The refined model has a conventional R factor of 15.7% for all reflections. The Cα coordinates of the model presented here have an r.m.s. deviation of 0.10 Å relative to the previously determined structure at 1.6 Å resolution. Several amino‐acid residues (six of the 255 observed) have been identified with multiple rotamer side‐chain conformations. C, N and O atoms can be differentiated with selective electron‐density map contouring. The estimated standard deviations for all main‐chain non‐H atom bond lengths and angles are 0.013 and 0.030 Å, respectively, based on unrestrained full‐matrix least‐squares refinement. This structure gives detailed information about the tetrahedrally arranged zinc ion coordinated by three histidine N atoms (His94 Nɛ2, His96 Nɛ2 and His119 Nδ1) and a water/hydroxide, the multiple binding sites of the proton chemical rescue molecule 4‐MI and the solvent networks linking the zinc‐bound water/hydroxide and 4‐MI molecules. This structure presents the highest resolution structure of a carbonic anhydrase isozyme so far determined and adds to the understanding of proton‐transfer processes. 相似文献
6.
We have investigated the possible proton transfer pathways from the surface of the protein to the zinc-bound water molecule in the mutant His-64-Ala of human carbonic anhydrase II. Starting with an input of known crystallographic structures of the mutant, we model the proton pathways as hydrogen-bonded networks of proton conducting groups and bound solvent molecules. No proton path is detected in the mutant, in close agreement with the experimental observation of a 20-fold decrease in its catalytic efficiency compared to the wild-type enzyme. We also investigate in detail changes in hydration structure at the active site of the mutant and the resulting proton paths in the presence of an exogenous proton donor 4-methylimidazole (4-MI). The proton transfer pathways thus detected are correlated to the observed chemical rescue of catalytic activity by 4-MI. 相似文献
7.
《Journal of enzyme inhibition and medicinal chemistry》2013,28(5):695-701
AbstractA novel proton transfer compound (HMeOABT)?+?(HDPC)? (1) and its Fe(III), Co(II), Ni(II) and Cu(II) complexes (2–5) have been prepared and characterized by spectroscopic techniques. Complex 4 has distorted octahedral conformation revealed by single crystal X-ray diffraction method. Structures of the other complexes might be proposed as octahedral according to experimental data. All compounds were also evaluated for their in vitro inhibition effects on hCA I and II for their hydratase and esterase activities. Although there is no inhibition for hydratase activities, all compounds have inhibited the esterase activities of hCA I and II. Data have been analyzed by using a one-way analysis of variance. The comparison of the inhibition studies of 1–5 to parent compounds indicates that 1–5 have superior inhibitory effects. The inhibition effects of 2–5 are also compared to inhibitory properties of the metal complexes of MeOABT and H2DPC, revealing an improved transfection profile. 相似文献
8.
Photorespiration by Chlamydomonas reinhardtii and Anacystis nidulans was measured as the oxygen inhibition of CO2 uptake and the CO2 compensation points. Net photosynthesis was oxygen dependent in Chlamydomonas grown in 5% CO2, but CO2 insensitive in cultures bubbled with air. Anacystis, even when cultured in 5% CO2, exhibited an CO2 insensitive net photosynthesis. The CO2 compensation point of Chlamydomonas grown in cultures bubbled with air and Anacystis grown in 5% CO2 enriched air, were reached shortly after the measurement was begun and the values were very low, less than 10 μl CO2 1?1; while Chlamydomonas grown in 5% CO2 enriched air for 4 days showed a high, but temporary CO2 compensation point (60 μl CO2 1?1). After a two hour adaptation in low CO2, a stable, low CO2 compensation point was reached. It seems that photorespiration can only be detected by the methods used in this study when the algae are cultured in high CO2, but a mechanism exists which blocks photorespiration when the green algae are adapted to low CO2 concentrations. When Chlamydomonas was treated with Diamox, an inhibitor of carbonic anhydrase, after cultivation in low CO2 (air), the cells behaved as if they had been grown in high CO2. They showed an oxygen sensitive net photosynthesis and a high CO2 compensation point. This indicates that carbonic anhydrase plays an important role in the regulation of a measurable photorespiration in Chlamydomonas. The results are discussed in relation to previous observations of photorespiration measured by enzyme assay, metabolic products and gas exchange properties. 相似文献
9.
Carbonic anhydrases (CA, EC 4.2.1.1.) catalyze reversible hydration of CO2 to HCO3?+H+. Bicarbonate transport proteins, which catalyze the transmembrane movement of membrane-impermeant bicarbonate, function in cooperation with CA. Since CA and bicarbonate transporters share the substrate, bicarbonate, we examined whether novel competitive inhibitors of CA also have direct inhibitory effects on bicarbonate transporters. We expressed the human erythrocyte membrane Cl?/HCO3? exchanger, AE1, in transfected HEK293 cells as a model bicarbonate transporter. AE1 activity was assessed in both Cl?/NO3? exchange assays, which were independent of CA activity, and in Cl?/HCO3? exchange assays. Transport was measured by following changes of intracellular [Cl?] and pH, using the intracellular fluorescent reporter dyes 6-methoxy-N-(3-sulfopropyl)quinolinium and 2′,7′-bis-(2-carboxyethyl)-5-(and-6)carboxyfluorescein, respectively. We examined the effect of 16 different carbonic anhydrase inhibitors on AE1 transport activity. Among these 12 were newly-reported compounds; two were clinically used non-steroidal anti-inflammatory drugs (celecoxib and valdecoxib) and two were anti-convulsant drugs (topiramate and zonisamide). Celecoxib and four of the novel compounds significantly inhibited AE1 Cl?/NO3? exchange activity with EC50 values in the range 0.22–2.8 μM. It was evident that bulkier compounds had greater AE1 inhibitory potency. Maximum inhibition using 40 μM of each compound was only 22–53% of AE1 transport activity, possibly because assays were performed in the presence of competing substrate. In Cl?/HCO3? exchange assays, which depend on functional CA to produce transport substrate, 40 μM celecoxib inhibited AE1 by 62±4%. We conclude that some carbonic anhydrase inhibitors, including clinically-used celecoxib, will inhibit bicarbonate transport at clinically-significant concentrations. 相似文献
10.
Satish Babu Moparthi Per Hammarström Uno Carlsson 《Protein science : a publication of the Protein Society》2009,18(2):475-479
The protein folding process is often in vitro rate‐limited by slow cis‐trans proline isomerization steps. Importantly, the rate of this process in vivo is accelerated by prolyl isomerases (PPIases). The archetypal PPIase is the human cyclophilin 18 (Cyp18 or CypA), and Arg 55 has been demonstrated to play a crucial role when studying short peptide substrates in the catalytic action of Cyp18 by stabilizing the transition state of isomerization. However, in this study we show that a R55A mutant of Cyp18 is as efficient as the wild type to accelerate the refolding reaction of human carbonic anhydrase II (HCA II). Thus, it is evident that the active‐site located Arg 55 is not required for catalysis of the rate‐limiting prolyl cis‐trans isomerization steps during the folding of a protein substrate as HCA II. Nevertheless, catalysis of cis‐trans proline isomerization in HCA II occurs in the active‐site of Cyp18, since binding of the inhibitor cyclosporin A abolishes rate acceleration of the refolding reaction. Obviously, the catalytic mechanisms of Cyp18 can differ when acting upon a simple model peptide, four residues long, with easily accessible Pro residues compared with a large protein molecule undergoing folding with partly or completely buried Pro residues. In the latter case, the isomerization kinetics are significantly slower and simpler mechanistic factors such as desolvation and/or strain might operate during folding‐assisted catalysis, since binding to the hydrophobic active site is still a prerequisite for catalysis. 相似文献
11.
Reza Zolfaghari Emameh Harlan R. Barker Leo Syrjänen Linda Urbański Claudiu T. Supuran Seppo Parkkila 《Journal of enzyme inhibition and medicinal chemistry》2016,31(6):176-184
AbstractCarbonic anhydrases (CAs) are metalloenzymes, and classified into the evolutionarily distinct α, β, γ, δ, ζ, and η classes. α-CAs are present in many living organisms. β- and γ-CAs are expressed in most prokaryotes and eukaryotes, except for vertebrates. δ- and ζ-CAs are present in phytoplanktons, and η-CAs have been found in Plasmodium spp. Since the identification of α- and β-CAs in Caenorhabditis elegans, the nematode CAs have been considered as an emerging target in research focused on antiparasitic CA inhibitors. Despite the presence of α-CAs in both helminths and vertebrates, structural studies have revealed different kinetic and inhibition results. Moreover, lack of β-CAs in vertebrates makes this enzyme as an attractive target for inhibitory studies against helminthic infection. Some CA inhibitors, such as sulfonamides, have been evaluated against nematode CAs. This review article aims to present comprehensive information about the nematode CAs and their inhibitors as potential anthelminthic drugs. 相似文献
12.
Ronald A. Venters Chih-Chin Huang Bennett T. Farmer II Ronald Trolard Leonard D. Spicer Carol A. Fierke 《Journal of biomolecular NMR》1995,5(4):339-344
Summary The protein human carbonic anhydrase II (HCA II) has been isotopically labeled with 2H, 13C and 15N for high-resolution NMR assignment studies and pulse sequence development. To increase the sensitivity of several key 1H/13C/15N triple-resonance correlation experiments, 2H has been incorporated into HCA II in order to decrease the rates of 13C and 1HN T2 relaxation. NMR quantities of protein with essentially complete aliphatic 2H incorporation have been obtained by growth of E. coli in defined media containing D2O, [1,2-13C2, 99%] sodium acetate, and [15N, 99%] ammonium chloride. Complete aliphatic deuterium enrichment is optimal for 13C and 15N backbone NMR assignment studies, since the 13C and 1HN T2 relaxation times and, therefore, sensitivity are maximized. In addition, complete aliphatic deuteration increases both resolution and sensitivity by eliminating the differential 2H isotopic shift observed for partially deuterated CHnDm moieties. 相似文献
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15.
贵州山区3种木本植物无机碳利用特性的比较 总被引:1,自引:0,他引:1
以生长在喀斯特高原地区玉舍国家森林公园内的成熟银鹊树(Tapiscia sinensis)、白栎(Quercus fabri)和亮叶桦(Betula luminifera)为实验材料,通过对光合作用、叶绿素含量、叶绿素荧光参数、羧化效率(CE)、呼吸速率(Resp)、碳酸酐酶活性(WA)以及稳定碳同位素组成(δ13 C)等指标的测定,分析3种植物不同的无机碳利用特性,为该区生态环境修复选择合适的建群植物种提供依据。结果显示:(1)银鹊树、白栎和亮叶桦分布都较为广泛,银鹊树生长的最佳土壤pH是4.5~5.5,而白栎更倾向于中性到弱酸性土壤,肥沃的酸性土壤则更有益亮叶桦生长;白栎和亮叶桦都能忍受干旱和贫瘠,但是银鹊树不能忍受干旱和高温。(2)银鹊树叶片的Pn、Tr和Gs显著大于白栎和亮叶桦,亮叶桦和白栎的Pn、Tr和Gs分别是银鹊树的69.5%、48.2%、66.7%和28.6%、21.7%、22.2%;亮叶桦叶绿素含量均为银鹊树和白栎的2倍,但3种植物间的WUE则无显著差异。(3)3个树种叶片净光合速率均随着CO2浓度升高呈持续上升的趋势,但它们之间的CO2补偿点和饱和点明显不同。其中,银鹊树和亮叶桦的CO2补偿点均低于50μmol·mol-1,而白栎的则在250~300μmol·mol-1之间;银鹊树的CO2饱和点在1 200μmol·mol-1左右,亮叶桦则在2 300μmol·mol-1左右,而白栎的CO2饱和点明显高于2 300μmol·mol-1。(4)3个树种的CE、Resp和WA均为银鹊树>亮叶桦>白栎;而δ13 C值则以银鹊树最低,亮叶桦和白栎较高。其中,白栎和亮叶桦的CE、Resp、WA分别为银鹊树的5.1%、25.7%、4.0%和45.3%、54.6%、6.8%,且树种间差异显著;白栎和亮叶桦的δ13 C值显著高于银鹊树。研究表明,银鹊树能够吸收大气中的CO2或者在高活性碳酸酐酶作用下转化利用细胞内的HCO3-,它拥有较高的CO2利用能力及无机碳同化效率,因而能够拥有较高的产能;亮叶桦只能获取大气中的CO2作为无机碳源,但它对CO2的利用能力也较高,其产能仅次于银鹊树;白栎同样只能获取大气中的CO2作为无机碳源,同时它对大气中CO2的捕获、利用能力均低于银鹊树和亮叶桦,因而白栎生长非常缓慢,造成其本身对无机碳的需求也最低,所以其产能最低。 相似文献
16.
Kaoru Suzuki Shi‐Yuan Yang Satoru Shimizu Ella Czarina Morishita Jiandong Jiang Fang Zhang Md. Mominul Hoque Yoshiteru Sato Masaru Tsunoda Takeshi Sekiguchi Akio Takénaka 《Acta Crystallographica. Section D, Structural Biology》2011,67(10):894-901
Chlamydomonas reinhardtiiα‐type carbonic anhydrase (Cr‐αCA1) is a dimeric enzyme that catalyses the interconversion of carbon dioxide and carbonic acid. The precursor form of Cr‐αCA1 undergoes post‐translational cleavage and N‐glycosylation. Comparison of the genomic sequences of precursor Cr‐αCA1 and other αCAs shows that Cr‐αCA1 contains a different N‐terminal sequence and two insertion sequences. A 35‐residue peptide in one of the insertion sequences is deleted from the precursor during maturation. The crystal structure of the mature form of Cr‐αCA1 has been determined at 1.88 Å resolution. Each subunit is cleaved into the long and short peptides, but they are linked together by a disulfide bond. The two subunits are linked by a disulfide bond. N‐Glycosylations occur at three asparagine residues and the attached N‐glycans protrude into solvent regions. The subunits consist of a core β‐sheet structure composed of nine β‐strands. At the centre of the β‐sheet is the catalytic site, which contains a Zn atom bound to three histidine residues. The amino‐acid residues around the Zn atom are highly conserved in other monomeric and dimeric αCAs. The short peptide runs near the active site and forms a hydrogen bond to the zinc‐coordinated residue in the long chain, suggesting an important role for the short peptide in Cr‐αCA1 activity. 相似文献
17.
Variation in the C18OO content of atmospheric CO2 (delta18Oa) can be used to distinguish photosynthesis from soil respiration, which is based on carbonic anhydrase (CA)-catalyzed 18O exchange between CO2 and 18O-enriched leaf water (delta18Ow). Here we tested the hypothesis that mean leaf delta18Ow and assimilation rates can be used to estimate whole-leaf C18OO flux (isoflux), ignoring intraleaf variations in CA activity and gas exchange parameters. We observed variations in CA activity along the leaf (> 30% decline from the leaf center toward the leaf ends), which were only partially correlated to those in delta18Ow (7 to 21 per thousand), delta18O and delta13C of leaf organic matter (25 to 30 per thousand and -12.8 to -13.2 per thousand, respectively), and substomatal CO2 concentrations (intercellular CO2 concentrations, c(i), at the leaf center were approximately 40% of those at the leaf tip). The combined effect of these variations produced a leaf-integrated isoflux that was different from that predicted based on bulk leaf values. However, because of canceling effects among the influencing parameters, isoflux overestimations were only approximately 10%. Conversely, use of measured parameters from a leaf segment could produce large errors in predicting leaf-integrated C18OO fluxes. 相似文献
18.
Lakshmanane Premkumar Harry M. Greenblatt Umesh K. Bageshwar Tatyana Savchenko Irena Gokhman Ada Zamir Joel L. Sussman 《Acta Crystallographica. Section D, Structural Biology》2003,59(6):1084-1086
An extracellular α‐type carbonic anhydrase (dCAII) from the salt‐tolerant alga Dunaliella salina differs from its mesophilic counterparts in remaining active from zero to multimolar salt concentrations. To gain insight into the outstanding salt tolerance of dCAII, the enzyme was functionally overexpressed in Escherichia coli, purified by affinity chromatography and crystallized by the hanging‐drop method. The crystals belonged to space group P21, with unit‐cell parameters a = 47.0, b = 119.9, c = 58.5 Å, β = 94.2°. Data from a single crystal were collected to 2.4 Å resolution under cryogenic conditions (120 K) using an R‐AXIS IV++ detector mounted on a Rigaku RU‐H3R rotating‐anode generator. The asymmetric unit contains two molecules of the protein, which corresponds to VM = 2.65 Å3 Da−1 and a solvent content of 52.7%. 相似文献
19.
Marta Ferraroni Sonia Del Prete Daniela Vullo Clemente Capasso Claudiu T. Supuran 《Acta Crystallographica. Section D, Structural Biology》2015,71(12):2449-2456
Carbonic anhydrase (CA) is a zinc enzyme that catalyzes the reversible conversion of carbon dioxide to bicarbonate (hydrogen carbonate) and a proton. CAs have been extensively investigated owing to their involvement in numerous physiological and pathological processes. Currently, CA inhibitors are widely used as antiglaucoma, anticancer and anti‐obesity drugs and for the treatment of neurological disorders. Recently, the potential use of CA inhibitors to fight infections caused by protozoa, fungi and bacteria has emerged as a new research direction. In this article, the cloning and kinetic characterization of the β‐CA from Vibrio cholerae (VchCAβ) are reported. The X‐ray crystal structure of this new enzyme was solved at 1.9 Å resolution from a crystal that was perfectly merohedrally twinned, revealing a tetrameric type II β‐CA with a closed active site in which the zinc is tetrahedrally coordinated to Cys42, Asp44, His98 and Cys101. The substrate bicarbonate was found bound in a noncatalytic binding pocket close to the zinc ion, as reported for a few other β‐CAs, such as those from Escherichia coli and Haemophilus influenzae. At pH 8.3, the enzyme showed a significant catalytic activity for the physiological reaction of the hydration of CO2 to bicarbonate and protons, with the following kinetic parameters: a kcat of 3.34 × 105 s−1 and a kcat/Km of 4.1 × 107 M−1 s−1. The new enzyme, on the other hand, was poorly inhibited by acetazolamide (Ki of 4.5 µM). As this bacterial pathogen encodes at least three CAs, an α‐CA, a β‐CA and a γ‐CA, these enzymes probably play an important role in the life cycle and pathogenicity of Vibrio, and it cannot be excluded that interference with their activity may be exploited therapeutically to obtain antibiotics with a different mechanism of action. 相似文献
20.
Satoshi Mitsuhashi Tsunehiro Mizushima Eiki Yamashita Shigetoh Miyachi Tomitake Tsukihara 《Acta Crystallographica. Section D, Structural Biology》2000,56(2):210-211
The β‐carbonic anhydrase from the red alga Porphyridium purpureum was heterologously expressed, purified and crystallized. The crystals belong to space group P21 (unit‐cell parameters a = 63.8, b = 113.9, c = 73.8 Å, β = 104.1°) with two subunits per asymmetric unit and diffract to 2.5 Å resolution. 相似文献