Hydrogenase in pea root nodule bacteriods

Summary Hydrogen uptake has been shown to occur with pea root nodule breis and this uptake has been shown to be confined to the bacteriods. The uptake of hydrogen by washed bacteriods, in the absence of any added substrates, has been shown to be accompanied by oxygen uptake and the ratio of hydrogen uptake to oxygen uptake in these preparations has been found to be 2:1. Substrates, provided to washed bacteriods, inhibit the uptake of hydrogen and it has been found that the utilisation of substrates, as measured by carbon dioxide evolution, is inhibited by hydrogen. It is suggested that hydrogen and substrates compete for electron carriers and that electrons from the hydrogen reduce components of the electron transport pathway and ATP is produced.The action of hydrogen on nitrogen fixation in nodule breis and washed bacterioid preparations was examined and the evidence shows that some non-competitive inhibition of nitrogen fixation, by hydrogen, occurs.     

Therapeutic effects of hydrogen on chronic graft‐versus‐host disease

The incidence of chronic graft‐versus‐host disease (cGVHD) is rising recent years, which has been the leading cause of non‐transplantation mortality post allogenetic hematopoietic stem cell transplantation (HSCT). Imbalance of inflammatory cytokines and fibrosis plays critical roles in the pathogenesis of cGVHD. Recent studies showed that molecular hydrogen has anti‐inflammatory, antioxidant, anti‐fibrosis effects. Therefore, we hypothesized that molecular hydrogen may have therapeutic effects on cGVHD. To determine whether hydrogen could protect mice from cGVHD in an MHC‐incompatible murine bone marrow transplantation (BMT) model, survival rates of mice were calculated, and skin lesions were also evaluated after BMT. This article demonstrated that administration of hydrogen‐rich saline increased survival rate of cGVHD mice. Administration of hydrogen‐rich saline after transplantation also reduced skin lesions of cGVHD mice. Previously, we reported the therapeutic effects of hydrogen on acute GVHD. However, there was no report on the therapeutic effects of hydrogen on cGVHD mice. It is suggested that hydrogen has a potential as an effective and safe therapeutic agent on cGVHD. This study will provide new ideas on the treatment of cGVHD and has important theoretical values.     

高等植物氢化酶活性研究进展

氢化酶作为一种可催化氢气氧化与质子还原的金属酶,在生物体的氢代谢过程中发挥着关键作用。已有研究表明,氢气干预可对植物的生长发育和抗逆性产生积极影响,同时一些高等植物的内源性产氢现象也已得到证实,然而关于催化内源性产氢的氢化酶目前了解较少。虽然已有多项研究表明,叶绿体可能是高等植物产氢的关键部位,但是鉴于多种植物在种子萌发时仍然可以产氢,而种子萌发过程中叶绿体还没有生成,加上氢化酶在进化上与线粒体复合物Ⅰ具有同源性,在对氢化酶研究现状进行概述的基础上,提出了高等植物线粒体具有氢化酶活性的猜想,并总结了线粒体存在氢化酶活性的初步实验证据,以期为后续线粒体与氢化酶的关系研究提供参考依据。     

氢气生物学作用的生物酶基础

氢气具有广泛的生物学功能,近年来逐渐引起广泛关注。但是氢气发挥生物学作用的机理一直都有争论,制约了氢生物学的进一步发展。现在被广泛接受的是氢气选择性与毒性自由基反应的理论,但是生理条件下氢气与自由基直接反应的证据并不充分,多数属于间接证据,无法区分氢气是与自由基直接反应还是影响了自由基的产生。氢气具有抗氧化作用,本团队研究表明,氢气不是在自由基产生之后去清除,而是减少自由基的产生,类似于在自由基产生之初就关上“开关”;氢气可以提高包括线粒体复合物Ⅰ、乙酰胆碱酯酶、HRP在内的生物酶的活性,可以影响线粒体膜电位和调节神经细胞膜电位,细胞膜的氧化还原酶类及离子通道等都受到氢气的调节,这表明氢气的作用可能是多靶点的主要基于酶学反应的过程,高等生物具有产生和利用氢气的氢化酶活性。主要探讨了氢气和自由基的关系以及氢气作用的生物酶学基础,以期为揭示氢气发挥生物学作用的机理提供参考。     

Ultrastructure of the fresh water cyanobacterium Anabaena variabilis SPU 003 and its application for oxygen-free hydrogen production

Photoproduction of hydrogen has been studied as one of the ways to produce a clean, renewable energy source. Ultrastructure of the selected strain Anabaena variabilis SPU 003, a heterocystous cyanobacterium, has been done to understand the cell structure. The organism was found to be essentially a dark hydrogen producer. While pH had no significant effect on hydrogen production, optimum temperature was found to be 30 degrees C. Various sugars increased the production of hydrogen while the presence of various nitrogen sources inhibits the production. The production of hydrogen is highly sensitive to salinity and micronutrients.     

Recent advances in hydrogen research as a therapeutic medical gas

Abstract

Recent basic and clinical research has revealed that hydrogen is an important physiological regulatory factor with antioxidant, anti-inflammatory and anti-apoptotic protective effects on cells and organs. Therapeutic hydrogen has been applied by different delivery methods including straightforward inhalation, drinking hydrogen dissolved in water and injection with hydrogen-saturated saline. This review summarizes currently available data regarding the protective role of hydrogen, provides an outline of recent advances in research on the use of hydrogen as a therapeutic medical gas in diverse models of disease and discusses the feasibility of hydrogen as a therapeutic strategy. It is not an overstatement to say that hydrogen's impact on therapeutic and preventive medicine could be enormous in the future.     

A ratiometric and two-photon fluorescent probe for imaging hydrogen peroxide in living cells

As an important reactive oxygen species (ROS), hydrogen peroxide plays a significant role in the life activity system, and its abnormal levels are closely related to many diseases. Developing effective fluorescent probes for detecting hydrogen peroxide is very urgent. Therefore, we constructed a probe Z that can detect hydrogen peroxide in ratio. It has naphthimide as the fluorophore and phenylboronic acid pinacol esters as the recognition group. It shows higher sensitivity, lower detection limit, higher selectivity, and broad pH applicability. Moreover, probe Z has low cytotoxicity that can be used to detect exogenous hydrogen peroxide in HeLa cells and might be a potential tool for studying hydrogen peroxide in physiological activities.     

Method for direct discrimination of intra- and intermolecular hydrogen bonds, and characterization of the G(:A):G(:A):G(:A):G heptad, with scalar couplings across hydrogen bonds

Discrimination of intra- and intermolecular hydrogen bonds in a symmetric multimer has not been accomplished yet, although such discrimination would provide a crucial basis for construction of the multimeric architecture of nucleic acids by NMR. We have developed a direct and unambiguous method for such discrimination involving the use of scalar couplings across hydrogen bonds. The method has been validated with a symmetric dimer of d(GGGCTTTTGGGC), for which the structure including both intra- and intermolecular hydrogen bonds was already reported. This has demonstrated that our method can clearly discriminate these two kinds of hydrogen bonds. Then, the method was applied to a symmetric dimer of d(GGAGGAGGAGGA) and has provided decisive information on its multimeric architecture. Additionally, the values for scalar couplings across hydrogen bonds for G:G and G:A base pairs in the G(:A):G(:A):G(:A):G heptad formed by d(GGAGGAGGAGGA) were determined for the first time. This determination has provided an insight into the nature of the heptad.     

氢气生物医学研究进展

氢气以其安全、有效、渗透性强、代谢产物只有水等特点,逐渐进入医学研究者和临床工作者的视野,并在近年来快速发展。大量研究证明,氢气对于包括肿瘤、炎症损伤、代谢疾病、神经性疾病等百余种疾病具有潜在的治疗作用。2020年新型冠状病毒肺炎（新冠肺炎）疫情全球大流行期间,氢气在新冠肺炎辅助治疗中也崭露头角。对氢气在生物医学的动物学、细胞学和临床研究领域的研究进展进行了总结,并主要综述了氢气在代谢性疾病、神经退行性疾病、急救和创伤医学以及肿瘤领域的研究进展,以期为氢气在生物医学领域的应用研究提供参考。     

An improved hydrogen bond potential: impact on medium resolution protein structures

A new semi-empirical force field has been developed to describe hydrogen-bonding interactions with a directional component. The hydrogen bond potential supports two alternative target angles, motivated by the observation that carbonyl hydrogen bond acceptor angles have a bimodal distribution. It has been implemented as a module for a macromolecular refinement package to be combined with other force field terms in the stereochemically restrained refinement of macromolecules. The parameters for the hydrogen bond potential were optimized to best fit crystallographic data from a number of protein structures. Refinement of medium-resolution structures with this additional restraint leads to improved structure, reducing both the free R-factor and over-fitting. However, the improvement is seen only when stringent hydrogen bond selection criteria are used. These findings highlight common misconceptions about hydrogen bonding in proteins, and provide explanations for why the explicit hydrogen bonding terms of some popular force field sets are often best switched off.     

Structural bases of hydrogen tunneling in enzymes: progress and puzzles

Accumulating experimental evidence suggests that the occurrence of hydrogen tunneling is likely to be widespread in enzyme-catalyzed reactions. The realization that hydrogen can transfer via tunneling mechanisms has far-reaching implications for our understanding of enzyme catalysis involving proton, hydride or hydrogen atom transfer reactions. The current status of the field is highlighted by three enzyme systems that have been under intensive study in recent years, including soybean lipoxygenase-1, thermophilic alcohol dehydrogenase and dihydrofolate reductase. Particular attention has been devoted to the issues of whether protein dynamics modulate hydrogen tunneling probability and whether the tunneling process contributes to the catalytic power of enzymes.     

SURVEY OF SELECTED SEA WEEDS FOR SIMULTANEOUS PHOTOPRODUCTION OF HYDROGEN AND OXYGEN1

Ten seaweed species were surveyed for simultaneous photoevolution of hydrogen and oxygen. In an attempt to induce hydrogenase activity (as measured by hydrogen photoproduction) the seaweeds were maintained under anaerobiosis in CO₂-free seawater for varying lengths of time. Although oxygen evolution was observed in every alga studied, hydrogen evolution was not observed. One conclusion of this research is that, in contrast to the microscopic algae, there is not a single example of a macroscopic alga for which the photoevolution of hydrogen has been observed, in spite of the fact that there are now at least nine macroscopic algal species known for which hydrogenase activity has been reported (either by dark hydrogen evolution or light-activated hydrogen uptake). These results are in conflict with the conventional view that algal hydrogenase can catalyze a multiplicity of reactions, one of which is the photoproduction of molecular hydrogen. Two possible explanations for the lack of hydrogen photoproduction in macroscopic algae are presented. It is postulated that electron acceptors other than carbon dioxide can take up reducing equivalents from Photosystem I to the measurable exclusion of hydrogen photoproduction. Alternatively, the hydrogenase system in macroscopic algae may be primarily a hydrogen-uptake system with respect to light-activated reactions. A simple kinetic argument based on recent measurements of the photosynthetic turnover times of simultaneous light-activated hydrogen and oxygen production is presented that supports the second explanation.     

Mining genomic databases to identify novel hydrogen producers

The realization that fossil fuel reserves are limited and their adverse effect on the environment has forced us to look into alternative sources of energy. Hydrogen is a strong contender as a future fuel. Biological hydrogen production ranges from 0.37 to 3.3 moles H(2) per mole of glucose and, considering the high theoretical values of production (4.0 moles H(2) per mole of glucose), it is worth exploring approaches to increase hydrogen yields. Screening the untapped microbial population is a promising possibility. Sequence analysis and pathway alignment of hydrogen metabolism in complete and incomplete genomes has led to the identification of potential hydrogen producers.     

富氢水和富氢生理盐水生物医学研究进展——动物实验

自2007年发现吸氢可有效保护脑缺血再灌注损伤以来,氢气的生物学作用被陆续发现。富氢水或富氢生理盐水作为主要的氢气干预方式已广泛应用于基础医学和临床研究中,并且已被证实对多种疾病有很好的预防和治疗作用。以往关于富氢水或富氢生理盐水的研究多是针对其医学效应的介绍,通过介绍富氢水或富氢生理盐水干预后体内氢浓度的变化情况、对正常生理功能的影响、对疾病的保护作用以及对肠道菌群的影响,并对不同动物实验中富氢水或富氢生理盐水的氢气浓度、干预介入时间点、干预时长以及每次干预剂量进行阐述,以期为氢分子基础研究提供一定的理论依据。     

Complete activity profile of Clostridium acetobutylicum [FeFe]-hydrogenase and kinetic parameters for endogenous redox partners

In Clostridium acetobutylicum, [FeFe]-hydrogenase is involved in hydrogen production in vivo by transferring electrons from physiological electron donors, ferredoxin and flavodoxin, to protons. In this report, by modifications of the purification procedure, the specific activity of the enzyme has been improved and its complete catalytic profile in hydrogen evolution, hydrogen uptake, proton/deuterium exchange and para-H2/ortho-H2 conversion has been determined. The major ferredoxin expressed in the solvent-producing C. acetobutylicum cells was purified and identified as encoded by ORF CAC0303. Clostridium acetobutylicum recombinant holoflavodoxin CAC0587 was also purified. The kinetic parameters of C. acetobutylicum [FeFe]-hydrogenase for both physiological partners, ferredoxin CAC0303 and flavodoxin CAC0587, are reported for hydrogen uptake and hydrogen evolution activities.     

Optimization of activation conditions of Rhodobacter sphaeroides in hydrogen generation process

AIMS: To examine the effects of the culture age, illuminance intensity and changes in these parameters during activation on hydrogen generation process carried out by purple nonsulfur Rhodobacter sphaeroides bacteria. METHODS AND RESULTS: The following parameters were determined in all experiments: the amount of hydrogen evolved (measured using gas chromatography), biomass increase as dry mass, pH values and consumption of organic substance as chemical oxygen demand (COD). The medium used in the process of activation and hydrogen generation contained malic acid (15 mmol) and sodium glutamate (2 mmol). The optimum age of bacteria was 12-24 h and the best intensity of illuminance was found to be 5 cd sr m-2 on activation and 9 cd sr m-2 on hydrogen generation. These conditions provided hydrogen evolution of 1.39 l l-1 of the medium with the highest specific hydrogen production of 0.146 l H2 l-1 medium h-1 g-1 inoculum. An increase in the illuminance intensity resulted in a slight inhibition of the process. CONCLUSIONS: The activation stage of bacteria has a significant effect on the parameters of hydrogen photogeneration. The optimization of the activation stages allowed a shortening of the time of hydrogen generation and of the period after which hydrogen evolution starts. SIGNIFICANCE AND IMPACT OF THE STUDY: An innovative method of bacteria activation before the initiation of the hydrogen generation process has been used to optimize this process. The shortening of the process duration as well as the twice higher hydrogen yield can help in the designing of other systems (including also those operating under solar irradiation) in which R. sphaeroides bacteria are to be applied.     

<Emphasis Type="Italic">Escherichia coli</Emphasis> hydrogenase 3 is a reversible enzyme possessing hydrogen uptake and synthesis activities

In the past, it has been difficult to discriminate between hydrogen synthesis and uptake for the three active hydrogenases in Escherichia coli (hydrogenase 1, 2, and 3); however, by combining isogenic deletion mutations from the Keio collection, we were able to see the role of hydrogenase 3. In a cell that lacks hydrogen uptake via hydrogenase 1 (hyaB) and via hydrogenase 2 (hybC), inactivation of hydrogenase 3 (hycE) decreased hydrogen uptake. Similarly, inactivation of the formate hydrogen lyase complex, which produces hydrogen from formate (fhlA) in the hyaB hybC background, also decreased hydrogen uptake; hence, hydrogenase 3 has significant hydrogen uptake activity. Moreover, hydrogen uptake could be restored in the hyaB hybC hycE and hyaB hybC fhlA mutants by expressing hycE and fhlA, respectively, from a plasmid. The hydrogen uptake results were corroborated using two independent methods (both filter plate assays and a gas-chromatography-based hydrogen uptake assay). A 30-fold increase in the forward reaction, hydrogen formation by hydrogenase 3, was also detected for the strain containing active hydrogenase 3 activity but no hydrogenase 1 or 2 activity relative to the strain lacking all three hydrogenases. These results indicate clearly that hydrogenase 3 is a reversible hydrogenase.     

The effects of structural parameters of zeolite on the adsorption of hydrogen: a molecular simulation study

The adsorption isotherm of hydrogen in zeolites FAU, LTA, KFI, RWY, RHO and TSC has been simulated employing grand canonical Monte Carlo procedure for a temperature range of 77 to 95 K and different pressures. The effects of structural composition, unit cell volume, framework density and specific surface area of zeolite on hydrogen adsorption in zeolites were investigated. The results clearly show that the adsorption of hydrogen in zeolites with the same silica density is a function of oxygen density at low pressures, and it is approximately the same at intermediate pressures. Nevertheless, at high pressures, the adsorption of hydrogen is a function of pore diameter for zeolites with same silica density. The effect of specific surface area on the adsorption isotherm of hydrogen on zeolites with approximately the same specific surface area is significant at low and high pressures. The results clearly indicate that the adsorption of hydrogen in RWY zeolite has maximum value at 77 K and at high pressures. The optimum condition of pressure for hydrogen adsorption isotherm in RWY zeolite is determined to be 600 bar. At a temperature of 77 K and a pressure of 600 bar, the adsorption of hydrogen in RWY zeolite is 6.93 wt %.     

Learning about protein hydrogen bonding by minimizing contrastive divergence

Defining the strength and geometry of hydrogen bonds in protein structures has been a challenging task since early days of structural biology. In this article, we apply a novel statistical machine learning technique, known as contrastive divergence, to efficiently estimate both the hydrogen bond strength and the geometric characteristics of strong interpeptide backbone hydrogen bonds, from a dataset of structures representing a variety of different protein folds. Despite the simplifying assumptions of the interatomic energy terms used, we determine the strength of these hydrogen bonds to be between 1.1 and 1.5 kcal/mol, in good agreement with earlier experimental estimates. The geometry of these strong backbone hydrogen bonds features an almost linear arrangement of all four atoms involved in hydrogen bond formation. We estimate that about a quarter of all hydrogen bond donors and acceptors participate in these strong interpeptide hydrogen bonds.     

Interdomain interactions in aspartic proteases of higher organisms and their analogs in retroviral enzymes

A continuous chain of hydrogen bonded groups, which forms cross-hands interaction between domains in molecules of pepsin-like enzymes, has been revealed. The chain contains a pair of 6 symmetrically related hydrogen bonds between main chain atoms and the two conserved water molecules. The peptide groups forming hydrogen bond with the inner oxygens of the active carboxyls are important elements of the chain. The so-called "fireman grip" hydrogen bonding, consisting of a pair of the two symmetrically related bonds, is an integral part of this system of interactions. One of the water molecules in this system has a zero accessibility and forms a very short hydrogen bond with the active site interacting peptide group. This chain connects tightly the two regions of domains which have a high correlation in conformational mobility. The retroviral enzymes have an abortive chain of the interdomain interaction in this region which is reduced to the "fireman grip" net.