Solution Conformation and Dynamics of the HIV-1 Integrase Core Domain

The human immunodeficiency virus type 1 (HIV-1) integrase (IN) is a critical enzyme involved in infection. It catalyzes two reactions to integrate the viral cDNA into the host genome, 3′ processing and strand transfer, but the dynamic behavior of the active site during catalysis of these two processes remains poorly characterized. NMR spectroscopy can reveal important structural details about enzyme mechanisms, but to date the IN catalytic core domain has proven resistant to such an analysis. Here, we present the first NMR studies of a soluble variant of the catalytic core domain. The NMR chemical shifts are found to corroborate structures observed in crystals, and confirm prior studies suggesting that the α4 helix extends toward the active site. We also observe a dramatic improvement in NMR spectra with increasing MgCl₂ concentration. This improvement suggests a structural transition not only near the active site residues but also throughout the entire molecule as IN binds Mg²⁺. In particular, the stability of the core domain is linked to the conformation of its C-terminal helix, which has implications for relative domain orientation in the full-length enzyme. ¹⁵N relaxation experiments further show that, although conformationally flexible, the catalytic loop of IN is not fully disordered in the absence of DNA. Indeed, automated chemical shift-based modeling of the active site loop reveals several stable clusters that show striking similarity to a recent crystal structure of prototype foamy virus IN bound to DNA.     

Slx9p facilitates efficient ITS1 processing of pre-rRNA in Saccharomyces cerevisiae

Slx9p (Ygr081cp) is a nonessential yeast protein previously linked genetically with the DNA helicase Sgs1p. Here we report that Slx9p is involved in ribosome biogenesis in the yeast Saccharomyces cerevisiae. Deletion of SLX9 results in a mild growth defect and a reduction in the level of 18S rRNA. Co-immunoprecipitation experiments showed that Slx9p is associated with 35S, 23S, and 20S pre-rRNA, as well as U3 snoRNA and, thus, is a bona fide component of pre-ribosomes. The most striking effects on pre-rRNA processing resulting from deletion of SLX9 is the accumulation of the mutually exclusive 21S and 27SA2 pre-rRNA. Furthermore, deletion of SLX9 is synthetically lethal with mutations in Rrp5p that block cleavage at either site A2 or A3. We conclude that Slx9p has a unique role in the processing events responsible for separating the 66S and 43S pre-ribosomal particles. Interestingly, homologs of Slx9p were found only in other yeast species, indicating that the protein has been considerably less well conserved during evolution than the majority of trans-acting processing factors.     

Deuterium isotope shifts for backbone 1H, 15N and 13C nuclei in intrinsically disordered protein α-synuclein

Intrinsically disordered proteins (IDPs) are abundant in nature and characterization of their potential structural propensities remains a widely pursued but challenging task. Analysis of NMR secondary chemical shifts plays an important role in such studies, but the output of such analyses depends on the accuracy of reference random coil chemical shifts. Although uniform perdeuteration of IDPs can dramatically increase spectral resolution, a feature particularly important for the poorly dispersed IDP spectra, the impact of deuterium isotope shifts on random coil values has not yet been fully characterized. Very precise ²H isotope shift measurements for ¹³C^??, ¹³C^??, ¹³C??, ¹⁵N, and ¹H^N have been obtained by using a mixed sample of protonated and uniformly perdeuterated ??-synuclein, a protein with chemical shifts exceptionally close to random coil values. Decomposition of these isotope shifts into one-bond, two-bond and three-bond effects as well as intra- and sequential residue contributions shows that such an analysis, which ignores conformational dependence, is meaningful but does not fully describe the total isotope shift to within the precision of the measurements. Random coil ²H isotope shifts provide an important starting point for analysis of such shifts in structural terms in folded proteins, where they are known to depend strongly on local geometry.     

大苞藤黄化学成分研究及其互变异构体超高效液相色谱质谱联用分析

从大苞藤黄枝叶的混合粉碎物中分离到11个化合物,运用光谱手段分别鉴定为neobractatin(1),brasixanthone B (2),5-O-methylxanthone V1 (3),10-O-methylmacluraxanthone (4),isobractatin (5),xanthone V1(6),xerophenone A (7),xerophenone B (8),bractatin (9),macluraxanthone (10)和3-O-methylneobractatin (11).本文首次应用超高效液相色谱-质谱联用技术分离了异构体7和8并测定了其精确分子量.其中化合物6～8为首次从该植物中发现.     

无陪护老年病人住院期间护理需求的质性研究

目的:了解无陪护老年病人在住院期间的护理需求。方法:采用质性研究中现象学研究的半结构化、面对面、深度访谈方法采访11位内科无陪护老年病人,之后依据Claizzit的现象学资料7步分析法分析、整理资料。结果:无陪护老年病人住院期间的需求涉及病室、护理人员、陪护人员三方面。结论:无陪护老年病人住院期间有着其特殊需求,无陪护的原因主要有经济因素及陪护人员综合素质较低、无统一管理等,所以除了医院在护理工作中针对这类病人给予一些特殊照护外,呼吁政府建立规范的陪护人员培训及管理机构,为广大患者提供正规、专业化的陪护。     

Imaging in cardiac resynchronisation therapy

A substantial number of heart failure (HF) patients do not respond after cardiac resynchronisation therapy (CRT). Recent studies observed that assessment of intraventricular (LV) dyssynchrony may allow identification of potential responders to CRT. In addition, presence of scar tissue and venous anatomy may play a role in the selection of candidates. In this review, an extensive overview of the available LV dyssynchrony measurements is provided using different echocardiographic modalities. In addition, the value of other noninvasive techniques such as magnetic resonance imaging, nuclear imaging and computed tomography for the selection of potential candidates for CRT will be discussed. (Neth Heart J 2008;16(suppl 1):S36-S40.)     

Solution structure of tRNA<Superscript>Val</Superscript> from refinement of homology model against residual dipolar coupling and SAXS data

A procedure is presented for refinement of a homology model of E. coli tRNA^Val, originally based on the X-ray structure of yeast tRNA^Phe, using experimental residual dipolar coupling (RDC) and small angle X-ray scattering (SAXS) data. A spherical sampling algorithm is described for refinement against SAXS data that does not require a globbic approximation, which is particularly important for nucleic acids where such approximations are less appropriate. Substantially higher speed of the algorithm also makes its application favorable for proteins. In addition to the SAXS data, the structure refinement employed a sparse set of NMR data consisting of 24 imino N–H^N RDCs measured with Pf1 phage alignment, and 20 imino N–H^N RDCs obtained from magnetic field dependent alignment of tRNA^Val. The refinement strategy aims to largely retain the local geometry of the 58% identical tRNA^Phe by ensuring that the atomic coordinates for short, overlapping segments of the ribose-phosphate backbone and the conserved base pairs remain close to those of the starting model. Local coordinate restraints are enforced using the non-crystallographic symmetry (NCS) term in the XPLOR-NIH or CNS software package, while still permitting modest movements of adjacent segments. The RDCs mainly drive the relative orientation of the helical arms, whereas the SAXS restraints ensure an overall molecular shape compatible with experimental scattering data. The resulting structure exhibits good cross-validation statistics (jack-knifed Q _free = 14% for the Pf1 RDCs, compared to 25% for the starting model) and exhibits a larger angle between the two helical arms than observed in the X-ray structure of tRNA^Phe, in agreement with previous NMR-based tRNA^Val models. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

蒜香藤叶挥发油的化学成分

蒜香藤（Pseudocalymma alliaceum Sandw．）又名紫铃藤,为紫葳科（Bignoniaceae）常绿藤状灌木,原产于南美洲的圭亚那和巴西。蒜香藤花、叶在搓揉之后,有浓浓的大蒜香味,其叶深绿富有光泽,花形大而优美,中国许多地方已引种栽培,一般作为篱笆、围墙美化或凉亭、棚架装饰之用。蒜香藤具有浓郁的蒜香,甚至可作为蒜的替代物用于烹饪。但有关其叶挥发性成分研究尚未见报道。本文利用气相色谱-质谱联用技术（GC—MS）分析了西双版纳植物园引种栽培的蒜香藤叶挥发油的化学成分,以期为合理开发和利用蒜香藤植物资源提供科学依据。     

甘薯愈伤组织中的淀粉酶

从甘薯愈伤组织和块根可溶性提取物中淀粉酶的非变性凝胶电泳和活性染色发现 ,愈伤组织和块根的淀粉酶完全不同。前者有 4种不同大小的淀粉酶 (2种α 淀粉酶和 2种 β 淀粉酶 ) ,而后者只有一种 (β 淀粉酶 ) ;其次 ,块根 β 淀粉酶对EDTA和 β 巯基乙醇都不敏感 ,而愈伤组织的淀粉酶对EDTA和 β 巯基乙醇都敏感。这些结果表明甘薯愈伤组织中不仅淀粉酶同工酶的数量多 ,而且包括α和 β两种类型。