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101.
Structure of a designed, right-handed coiled-coil tetramer containing all biological amino acids 总被引:1,自引:0,他引:1 下载免费PDF全文
Sales M Plecs JJ Holton JM Alber T 《Protein science : a publication of the Protein Society》2007,16(10):2224-2232
The previous design of an unprecedented family of two-, three-, and four-helical, right-handed coiled coils utilized nonbiological amino acids to efficiently pack spaces in the oligomer cores. Here we show that a stable, right-handed parallel tetrameric coiled coil, called RH4B, can be designed entirely using biological amino acids. The X-ray crystal structure of RH4B was determined to 1.1 Angstrom resolution using a designed metal binding site to coordinate a single Yb(2+) ion per 33-amino acid polypeptide chain. The resulting experimental phases were particularly accurate, and the experimental electron density map provided an especially clear, unbiased view of the molecule. The RH4B structure closely matched the design, with equivalent core rotamers and an overall root-mean-square deviation for the N-terminal repeat of the tetramer of 0.24 Angstrom. The clarity and resolution of the electron density map, however, revealed alternate rotamers and structural differences between the three sequence repeats in the molecule. These results suggest that the RH4B structure populates an unanticipated variety of structures. 相似文献
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103.
开展对亚成体的研究,可以更加全面了解一个物种,进而更有效地开展保护工作。甘肃盐池湾国家级自然保护区是黑颈鹤(Grus nigricollis)成体的重要繁殖地和亚成体的重要栖息地之一。为研究甘肃盐池湾黑颈鹤亚成体生境选择,于2020年7月初至8月中旬在盐池湾党河湿地展开调查,并依据Johnson对生境选择空间尺度的划分,对亚成体活动区内各类型生境和觅食微生境的生境选择进行了研究。通过遥感影像解译和卫星跟踪分别获得各栖息地类型面积以及黑颈鹤的活动位点,利用核密度分析法估计活动区面积并利用Manly研究中的设计Ⅲ来研究活动区内各类型生境选择;通过选取利用样方和对照样方,使用χ2检验、独立样本t检验和Mann-Whitney U检验,对比检验样方数据,进行微生境选择的研究。结果表明,活动区内各类型生境中亚成体选择河流,拒绝戈壁和沼泽化草甸,对沼泽既不选择也不拒绝,而成体选择湖泊,没有利用河流,同时拒绝戈壁、山脉、沼泽化草甸和盐化草甸,对沼泽既不选择也不拒绝;觅食微生境选择中,亚成体选择平均植被盖度为57.07% ± 4.53%,基质类型为泥炭,基质硬度为中,主要植被黑褐苔草(Carex atrofusca)的微生境栖息,相比成体,亚成体选择的生境基质更硬,距道路距离更近,距房屋、河流、山脉和湖泊距离更远。亚成体的栖息地选择主要受到生境质量、生境资源有限性以及成体选择等因素的影响。在这些因素的影响下,亚成体与成体产生了生态位分离,并在栖息地选择上出现了分化。这种分化对亚成体的生存和成体的繁殖都有益,可以避免种内无效的冲突和竞争,有利于亚成体和成体的适合度增加。保护黑颈鹤的栖息环境需同时考虑到亚成体的选择和生存。 相似文献
104.
Catechol 2, 3-dioxygenase is present in several types of bacteria and undergoes degradation of environmental pollutants through
an important key biochemical pathways. Specifically, this enzyme cleaves aromatic rings of several environmental pollutants such
as toluene, xylene, naphthalene and biphenyl derivatives. Hence, the importance of Catechol 2, 3-dioxygenase and its role in the
degradation of environmental pollutants made us to predict the three-dimensional structure of Catechol 2, 3-dioxygenase from
Burkholderia cepacia. The 10ns molecular dynamics simulation was carried out to check the stability of the modeled Catechol 2, 3-
dioxygenase. The results show that the model was energetically stable, and it attains their equilibrium within 2000 ps of production
MD run. The docking of various petroleum hydrocarbons into the Catechol 2,3-dioxygenase reveals that the benzene, O-xylene,
Toluene, Fluorene, Naphthalene, Carbazol, Pyrene, Dibenzothiophene, Anthracene, Phenanthrene, Biphenyl makes strong
hydrogen bond and Van der waals interaction with the active site residues of H150, L152, W198, H206, H220, H252, I254, T255,
Y261, E271, L276 and F309. Free energy of binding and estimated inhibition constant of these compounds demonstrates that they
are energetically stable in their binding cavity. Chrysene shows positive energy of binding in the active site atom of Fe. Except
Pyrene all the substrates made close contact with Fe atom by the distance ranges from 1.67 to 2.43 Å. In addition to that, the above
mentioned substrate except pyrene all other made π-π stacking interaction with H252 by the distance ranges from 3.40 to 3.90 Å.
All these docking results reveal that, except Chrysene all other substrate has good free energy of binding to hold enough in the
active site and makes strong VdW interaction with Catechol-2,3-dioxygenase. These results suggest that, the enzyme is capable of
catalyzing the above-mentioned substrate. 相似文献
105.
106.
Richard M. Gunner Rory P. Wilson Mark D. Holton Rebecca Scott Phil Hopkins Carlos M. Duarte 《Ecology and evolution》2020,10(14):7872-7886
- The use of animal‐attached data loggers to quantify animal movement has increased in popularity and application in recent years. High‐resolution tri‐axial acceleration and magnetometry measurements have been fundamental in elucidating fine‐scale animal movements, providing information on posture, traveling speed, energy expenditure, and associated behavioral patterns. Heading is a key variable obtained from the tandem use of magnetometers and accelerometers, although few field investigations have explored fine‐scale changes in heading to elucidate differences in animal activity (beyond the notable exceptions of dead‐reckoning).
- This paper provides an overview of the value and use of animal heading and a prime derivative, angular velocity about the yaw axis, as an important element for assessing activity extent with potential to allude to behaviors, using “free‐ranging” Loggerhead turtles (Caretta caretta) as a model species.
- We also demonstrate the value of yaw rotation for assessing activity extent, which varies over the time scales considered and show that various scales of body rotation, particularly rate of change of yaw, can help resolve differences between fine‐scale behavior‐specific movements. For example, oscillating yaw movements about a central point of the body's arc implies bouts of foraging, while unusual circling behavior, indicative of conspecific interactions, could be identified from complete revolutions of the longitudinal axis.
- We believe this approach should help identification of behaviors and “space‐state” approaches to enhance our interpretation of behavior‐based movements, particularly in scenarios where acceleration metrics have limited value, such as for slow‐moving animals.
107.
Caterpillars and spider mites are herbivores with different feeding mechanisms. Spider mites feed on the cell content via stylets, while caterpillars, as chewing herbivores, remove larger amounts of photosynthetically active tissue. We investigated local and systemic effects of short-term caterpillar and spider mite herbivory on cotton in terms of primary metabolism and growth processes. After short-term caterpillar feeding, leaf growth and water content were decreased in damaged leaves. The glutamate/glutamine ratio increased and other free amino acids were also affected. In contrast, mild spider mite infestation did not affect leaf growth or amino acid composition, but led to an increase in total nitrogen and sucrose concentrations. Both herbivores induced locally increased dark respiration, suggesting an increased mobilization of storage compounds potentially available for synthesis of defensive substances, but did not affect assimilation and transpiration. Systemically induced leaves were not significantly affected by the treatments performed in this study. The results show that cotton plants do not compensate the loss of photosynthetic tissue with higher photosynthetic efficiency of the remaining tissue. However, early plant responses to different herbivores leave their signature in primary metabolism, affecting leaf growth. Changes in amino acid concentrations, total nitrogen and sucrose content may affect subsequent herbivore performance. 相似文献
108.
Mycobacterium tuberculosis contains multiple versions of the accA and accD genes that encode the - and β-subunits of at least three distinct multi-functional acyl-CoA carboxylase complexes. Because of its proposed involvement in pathogenic M. tuberculosis survival, the high-resolution crystal structure of the β-subunit gene accD5 product has been determined and reveals a hexameric 356 kDa complex. Analysis of the active site properties of AccD5 and homology models of the other five M. tuberculosis AccD homologues reveals unexpected differences in their surface composition, providing a molecular rational key for a sorting mechanism governing correct acyl-CoA carboxylase holo complex assembly in M. tuberculosis. 相似文献
109.
添加玉米和水稻秸秆对淹水土壤pH、二氧化碳及交换态铵的影响 总被引:4,自引:0,他引:4
通过温室土壤培养试验,研究了不同添加量玉米和水稻秸秆对淹水土壤pH、CO2及交换态铵的影响.结果表明:在接近中性的土壤中加入秸秆可使土壤pH值降低,4 g·kg-1玉米和水稻秸秆处理的土壤pH值均与对照差异显著(P<0.05),而1 g·kg-1玉米和水稻秸秆处理与对照差异不显著(P>0.05).土壤溶液中的CO2含量随秸秆添加量的增加而增大,1 g·kg-1玉米和水稻秸秆处理的土壤溶液CO2含量最大值分别为35.9%和31.9%(v/v),与对照(25.8%)差异达显著水平(P<0.05),但两者间差异不显著(P>0.05);4 g·kg-1玉米和水稻秸秆处理的土壤溶液CO2含量最大值分别为54.2%和41.8%(v/v),与对照差异极显著(P<0.01),两者间差异也达显著水平(P<0.05).在不施氮肥的情况下,添加秸秆可降低土壤铵态氮浓度,且铵态氮浓度随秸秆添加量的增加而降低,不同添加量处理间差异显著(P<0.05);在施入氮肥的情况下,1 g·kg-1玉米和水稻秸秆处理提高了土壤铵态氮浓度,而4 g·kg-1玉米和水稻秸秆处理降低了土壤铵态氮浓度.无论是否施入氮肥,玉米和水稻秸秆处理的土壤铵态氮浓度差异不显著(P>0.05). 相似文献
110.
Lewy bodies in grafted neurons in subjects with Parkinson's disease suggest host-to-graft disease propagation 总被引:1,自引:0,他引:1
Li JY Englund E Holton JL Soulet D Hagell P Lees AJ Lashley T Quinn NP Rehncrona S Björklund A Widner H Revesz T Lindvall O Brundin P 《Nature medicine》2008,14(5):501-503
Two subjects with Parkinson's disease who had long-term survival of transplanted fetal mesencephalic dopaminergic neurons (11-16 years) developed alpha-synuclein-positive Lewy bodies in grafted neurons. Our observation has key implications for understanding Parkinson's pathogenesis by providing the first evidence, to our knowledge, that the disease can propagate from host to graft cells. However, available data suggest that the majority of grafted cells are functionally unimpaired after a decade, and recipients can still experience long-term symptomatic relief. 相似文献