幽门螺旋杆菌肿瘤坏死因子α诱导蛋白活性分子的构建、结晶及初步晶体学研究

幽门螺旋杆菌中的肿瘤坏死因子α诱导蛋白(Tipα)被鉴定为幽门螺旋杆菌致病感染中的新型致癌因子.Tipα通过NF-κB的激活诱导肿瘤坏死因子α(TNF-α)的大量表达,从而促使宿主的炎症反应以及肿瘤发生、发展的进程.Tipα的同源二聚体为其发挥生物学功能的活性形式,此二聚体以两个单体间N端半胱氨酸形成的二硫键(Cys25-Cys25与Cys27-Cys27)共价连接.Tipα(25-192)的基因克隆至载体pET22b中,并且在大肠杆菌菌株BL21(DE3)中以可溶形式高水平表达.重组蛋白经过Ni2+金属亲和层析、阳离子交换层析和凝胶阻滞层析进行分离纯化.Tipα蛋白样品分别通过悬滴和microbatch的方法进行结晶搜索和优化.母体和硒代晶体分别衍射到2.2和2.6,均属于C2空间群,并且具有相似的晶胞参数.母体晶体的晶胞参数为a=127.01,b=47.57,c=96.5,α=γ=90°,β=127.5°.     

Isolation and crystal ctructure of sulfur from Capparis spinosa fruits

从刺山柑果实中首次分离纯化得到S8单质.经X-射线单晶衍射分析,确认该化合物为S8晶体,M=256.48.晶体属斜方晶系,空间群Fddd.晶胞参数a=10.456(7)A°,b=12.908(9)A°,c=24.483(17)A°,V=3305(4)A°3,Z=16,F(000)=2048,R1=0.0915,wR2=0.1820.     

福氏志贺菌硫氧还过氧化物酶的晶体生长和初步晶体学研究（英文）

过氧化物酶是一类广泛存在于生物体内的抗氧化剂,清除有氧代谢过程中产生的活性氧,对于保护机体内的生物大分子有重要的生物学功能.福氏志贺菌硫氧还过氧化物酶(SF2523)作为过氧化物酶家族的一员,通过清除福氏志贺菌体内的活性氧,在维持其活性和致病性上起重要作用.目前,SF2523的三维结构还没有得到解析,其具体的功能机制也尚不清楚.为了得到SF2523蛋白的三维结构,进而了解具体的功能机制,实验获得了均一稳定的可溶蛋白,验证具有体外活性,培养出可用于X射线衍射的蛋白质晶体.在中国科学院高能物理研究所同步辐射装置收到晶体的衍射数据供结构解析使用.SF2523晶体属于空间群P2_12_12_1,晶胞参数为a=35.80,b=50.63,c=88.52,α=β=γ=90.00°,每个晶体学不对称单位含有1个蛋白质分子,马修斯系数为2.03~3/u,溶剂含量为39.56%.     

北京东灵山地区植物群落多样性研究——种-面积曲线的拟合与评价

本文选择了 1 0条曲线作为种 -面积曲线的拟合模型 ,它们分别是S=b a A (1 )S=b aln A (2 )S=(b aln A) c (3)S=aln(A 1 ) (4)S=aln(b A 1 ) (5)S=a Ab (6)S=a A/ (1 b A) (7)S=c/ (1 ae-b A ) (8)S=c - ae-b A (9)S=a(1 - e-b A ) (1 0 )对其中的 7个非线性模型给出了参数初值的计算方法 ,并用 Gauss- Newton或 Marquardt方法计算非线性最优解。又选择了剩余标准差 (RSE)、相关指数 (CRI)、偏差绝对值的平均值 (AAD)和相对偏差绝对值的平均值 (AARD)作为模型拟合优劣的 4个评价指标。研究结果表明 :1 ) 7个非线性模型中参数初值的计算方法是可行的。从 4个评价指标来看 ,它们的非线性最小二乘解都明显优于线性最小二乘解 ;2 ) 1 0个模型的拟合效果都相当好 ,对 5个样地及其各层拟合的共 2 0 0个 CRI中有 71 .5%大于 0 .9,89%大于0 .8,其中曲线 (3)和 (9)最好 ,其次是 (5)、(6)、(2 ) ,(1 )和 (1 0 )最差 ;3)秩相关分析表明 ,3个评价指标RSE、AAD和 AARD相互之间存在极强的正秩相关 ,因此在本研究中 ,它们的评价结果具很强的一致性。     

饥饿对鲤幼鱼内脏器官指数和力竭运动后代谢特征的影响

为了考察不同饥饿时间对鲤幼鱼内脏器官指数和力竭运动后代谢特征的影响, 在(25±0.5)℃条件下, 将35尾实验鱼[体质量(21.34±0.42) g, 体长(9.39±0.08) cm]随机平均分成5组, 即: 对照组(S0)、1周(S1)、2周(S2)、4周(S4)和8周(S8)饥饿组, 相应时间的饥饿处理后测定各实验组鱼体内脏器官指数及力竭运动后过量耗氧(Excess post-exercise oxygen consumption, EPOC)。结果发现: 除了体长以外, 鲤幼鱼体质量、空壳湿重、内脏团湿重、肝脏湿重、消化道湿重、心脏湿重和鳃湿重等均随着饥饿时间的延长呈下降趋势。S2、S4和S8组的幼鱼空壳指数显著高于S0和S1组(P<0.001)。S2、S4和S8组的幼鱼内脏团指数和肝脏指数都显著低于S0和S1组(P<0.001)。S1组幼鱼消化道指数显著低于S0组, 但显著高于S2、S4和S8组(P<0.001)。心脏指数和鳃指数在所有实验组之间差异不显著(P>0.05)。S1组幼鱼运动前代谢率显著低于S0组(P<0.001), 但显著高于S2、S4和S8组(P<0.001)。S1组幼鱼运动代谢峰值和代谢率增量与S1组差异不显著(P>0.05), 但显著高于S0、S4和S8组(P<0.001, P=0.003)。各组间幼鱼代谢峰值时间差异不显著(P>0.05)。各个饥饿组幼鱼运动代谢峰值比率都显著高于S0组(P=0.002)。S1组的幼鱼EPOC与S0和S2组的差异不显著(P>0.05), 但显著高于S4和S8组(P=0.043)。综上所述: (1) 鲤幼鱼各个组织器官对饥饿胁迫的响应不尽相同, 这可能与其执行的生理功能差异有关; (2) 短期饥饿胁迫提升了鲤幼鱼有氧和无氧代谢能力, 这可能有利于其摄食和逃逸能力的提高, 进而提高其生存适合度。     

从珠子草中分离得到的化合物:软木三萜酮在溶液和晶体中的结构

首次从大戟科植物珠子草中分离得到软木三萜酮.利用晶体X-射线法与一维和二维核磁共振法测定了该化合物的结构,指认了核磁共振信号的归属.晶体衍射结果表明,化合物是以斜方晶体空间群形成晶体,晶体数据维P2(1)2(1)2(1)with a=6.361(2)A,b=13.933(3)A,c=28.440(6)A,α=90°,β=90°,γ=90°,V=2520.6(11)A3,Z=4.在晶体中存在一个微弱的分子间的作用力C-H……O=C,此作用力被认为是晶体形成的重要因素.NMR方法确定化合物的结构相同,表明了软木三萜酮在晶体和溶液具有相同的构型.     

北京东灵山地区植物群落多样性研究一种-面积曲线的拟合与评价

 本文选择了10条曲线作为种—面积曲线的拟合模型,它们分别是 S=b+aA (1) S= b+alnA (2) S=(b+alnA)c (3) S=aln(A+1) (4) S=aln(bA+1) (5) S= aAb (6) S=aA/(1+bA) (7) S=c/(1+ae-bA) (8) S=c-ae-bA (9) S=a(1-e-bA) (10) 对其中的7个非线性模型给出了参数初值的计算方法,并用Gauss—Newton或Marquardt方法计算非线性最优解。又选择了剩余标准差(RSE)、相关指数(CRI)、偏差绝对值的平均值(AAD)和相对偏差绝对值的平均值(AARD)作为模型拟合优劣的4个评价指标。研究结果表明：1)7个非线性模型中参数初值的计算方法是可行的。从4个评价指标来看,它们的非线性最小二乘解都明显优于线性最小二乘解;2)10个模型的拟合效果都相当好,对5个样地及其各层拟合的共200个CRI中有71.5％大于0.9,89％大于0.8,其中曲线(3)和(9)最好,其次是(5)、(6)、(2),(1)和(10)最差;3)秩相关分析表明,3个评价指标RSE、AAD和AARD相互之间存在极强的正秩相关,因此在本研究中,它们的评价结果具很强的一致性。     

青海四种雏蝗染色体核型的比较分析

采用常规染色体制片方法对雏蝗属的褐色雏蝗Chorthippusbrunneus(Thunb .) ,异色雏蝗C .big uttulus(Linnaeus) ,小翅雏蝗C .fallax(Zub .) ,青藏雏蝗C .qingzangensis(Ying)的染色体核型进行分析 ,结果 :染色体数目均为 2n(♂ ) =1 7=1 6+XO ;常染色体类型为两类 ,中着丝点染色体 (m ,6条 )和端着丝点染色体 (T ,1 0条 ) ;性染色体类型为端着丝点。褐色雏蝗、异色雏蝗和青藏雏蝗的核型公式和染色体的相对长度组成为K( 2n ,♂ ) =1 7=6m +1 1T =6L +6M +4S +XO ,K( 2n ,♀ ) =1 8=6m +1 2T =6L +6M +4S +XX ;小翅雏蝗的为K( 2n,♂ ) =1 7=6m +1 1T =6L +4M +6S +XO ,K( 2n ,♀ ) =1 8=6m +1 2T =6L +4M +6S+XX。褐色雏蝗性染色体中部有次缢痕。染色体臂数 4种均为NF =2 3(♂ ) ,2 4 (♀ )。     

7种绢蒿属植物染色体数目和核型研究

首次报道了中国绢蒿属[Seriphidium (Bess.) Poljak.]7种植物的染色体数目和核型,其核型公式分别为:西北绢蒿[S.nitrosum (Web.ex Stechm.) Poljak.]2n=2x=18=6m(2SAT)+8sm +2st+2T;沙漠绢蒿[S.santolinum (Schrenk) Poljak.]2n=2x=18=14m+4sm;博洛塔绢蒿[S.borotalense (Poljak.) Ling et Y.R.Ling]2n=2x=18=2M+14m+2sm;新疆绢蒿[S.kaschgaricum (Krasch.) Poljak.]2n=2x=18=8m(2SAT)+10sm(2SAT);纤细绢蒿[S.gracilescens (Krasch.et Iljin) Poljak.]2n=2x=18=4m+14sm(2SAT);三裂叶绢蒿[S.junceum (Kar.et Kir.) Poljak.]2n=2x=18=10m+4sm+4st;民勤绢蒿[S.minchünensa Y.R.Ling]2n=2x=18=12m+6sm.结果表明,7种绢蒿植物中,博洛塔绢蒿最原始,西北绢蒿最进化.     

横断山及邻近地区八种菊科植物的染色体数目及核型

对横断山及邻近地区风毛菊属(Saussurea)、帚菊属(Pertya)和针苞菊属(Tricholepis)的8种菊科植物进行细胞学研究,其中异叶帚菊(Pertya berberidoides)(2n=2x=32=28m+4sm)、针苞菊(Trichole-pis furcata)(2n=2x=32=16m+ 16sm)、中甸风毛菊(Saussurea dschungdienensis)(2n=2x=30=30m+Bs)、丽江风毛菊(S.likiangensis)(2n 2x=32=26m+6sm)、倒齿风毛菊(S.retroserrata)(2n=2x=32=14m+18sm)和显梗风毛菊(S.peduncularis)(2n=2x=36=26m+ 10sm)为首次报道染色体数目和核型,长毛风毛菊(S.hieracioides)和三角叶风毛菊(S.deltoidea)的核型公式分别为:2n=4x=64=30m+34sm和2n=2x=34=22m+ 12sm,与前人报道的一致.8种植物中,除中甸风毛菊和异叶帚菊的核型不对称性为1B型外,其余6种的核型不对称性均属于2B型;在中甸风毛菊中首次发现B染色体.结合现有的细胞学资料分析表明,风毛菊属和帚菊木族的染色体数目存在变异,并且存在明显的非整倍性;此外,分布于横断山区的风毛菊属植物仪有两种倍性(二倍体和四倍体),而且多倍化并不占主导地位.     

Eupenicillium sp.E-UN41产活性物质的分离与结构分析

在筛选微生物来源代谢产物的过程中,分离得到一株正青霉Eupenicillium sp.E-UN41,发酵液经离子交换树脂和葡聚糖凝胶等方法分离得到化合物UN41A.通过核磁共振波谱和X-单晶衍射进行该化合物的分子构型和晶体结构分析,确定其为4-氨甲酰基-1-β-D-呋喃核糖-5-羟基咪唑,与咪唑立宾同质.晶体属斜方晶系,空间群P212121,晶胞参数a=7.4897(7),b=11.3801 (15),c=14.0090(13)(A),V=1194.0(2) (A)3,Z=4,Dc=1.553g/m3,F(000) =592.晶体结构分析表明,分子中存在咪唑环共平面.     

Molecular structure, stereochemistry and interactions of steffimycin B, and DNA binding anthracycline antibiotic

The crystal and molecular structure of anthracycline antibiotic steffimycin B(C29H32O13) has been determined by X-ray diffraction and the stereochemistry revealed. The orthorhombic crystals belong to space group P2(1)2(1)2(1), with the dimensions; a = 8.253 (2), b = 8.198 (2), c = 40.850 (8) A and Z = 4. Intensity data were collected for 2518 independent reflections. The structure was solved by direct methods and refined to an R value of 0.066 for 1410 reflections. The configuration in ring A is 7R,8S,9S. Ring A adopts half chair conformation, while the sugar ring has the regular chair conformation. The molecule most probably binds to double helical DNA through intercalation and hydrogen bonding.     

A crystal form of ribulose-1,5-bisphosphate carboxylase/oxygenase from Nicotiana tabacum in the activated state

A new crystal form of ribulose-1,5-bisphosphate carboxylase/oxygenase (EC 4.1.1.39) from Nicotiana tabacum has been obtained at alkaline pH with polyethylene glycol 8000 in the presence of a non-ionic detergent, beta-octyl glucoside. The crystals are grown at room temperature by the hanging-drop vapor diffusion technique from a protein solution containing enzyme complexed with CO2, Mg2+, and the transition state analog 2-C-carboxy-D-arabinitol-1,5-bisphosphate. The crystals belong to the the space group P3(1)21 (or P3(2)21) with the cell parameters a = 204.6 A, and c = 117.4 A (1 A = 0.1 nm). The asymmetric unit contains half (L4S4: L, large subunit, 53,000 Mr; S, small subunit, 15,000 Mr) of a hexadecameric molecule (L8S8, 540,000 Mr). The crystals diffract to at least 2.6 A Bragg spacing and are suitable for X-ray structure determination.     

Crystal structure and aqueous solubility of ammonium D-glucarate

Ammonium D-glucarate, NH(4)(C(6)H(9)O(8)) [ammonium D-saccharate, NH(4)-SAC], has been synthesized, and its crystal structure solved by single-crystal X-ray diffraction methods. NH(4)-SAC crystallizes in the monoclinic space group P2(1) (#4) with cell parameters a = 4.8350(4) Angstroms, b = 11.0477(8) Angstroms, c = 16.7268(12) Angstroms, beta = 90.973(1) degrees, V = 894.34(12) Angstroms(3), Z = 3. The structure was refined by full-matrix least-squares on F(2) yielding final R-values (all data) R1 = 0.0353 and R(w)2 = 0.0870. The structure consists of alternating (NH(4))(+) and (C(6)H(11)O(6))(-) layers parallel to the bc plane. An extended network of N-H...O(SAC) and O(SAC)-H...O(SAC) hydrogen bonds provide the 3-D connectivity. The aqueous solubility (S(w)) has been shown to be pH independent at ambient conditions within the range 4.5 < pH < 10 with S(w) = 2.19 M/L, whose value is about a factor of two lower than that of the ammonium isosaccharate analogue.     

New crystal forms and low resolution structure analysis of 20S proteasomes from bovine liver

20S proteasomes from higher eukaryotes have immunological functions rather than those from archibacteria or yeast. To clarify the mechanism of the sorting and production of antigen-presenting peptides, it is important and worthwhile to determine the structure of mammalian proteasomes using a third generation synchrotron radiation source. Here we report new crystal forms of 20S proteasomes from bovine liver and preliminary structure analysis of them. The crystals belong to the same space group but have different cell dimensions. One crystal (form I) belongs to space group P2(1)2(1)2(1) with unit cell dimensions of a = 124.8, b =197.4, c =323.8 A, and diffracts to 3.0 A resolution. The other crystal (form II) belongs to the same space group with a =115.1, b =205.6, c =316. 0 A, and diffracts to 4.0 A resolution. The diffraction data for the form I crystal provided an interpretable electron density map for presenting the structural differences from yeast proteasomes.     

The crystal structure of isopropyl 1-thio-beta-D-galactopyranoside monohydrate at 123 K

The crystal structure of isopropyl 1-thio-beta-D-galactopyranoside monohydrate is orthorhombic, P2(1)2(1)2(1), Z = 4, with cell dimensions at 123 K [293 K] of a = 7.983(1) [8.037(1)], b = 24.574(5) [24.709(4)], c = 6.329(1) [6.3736(8)] A, V = 1241.84 [1265.71] A3. The calculated and measured density is Dx = 1.371 [1.345] g cm-3, Dm = [1.340] g cm-3. Diffraction data were obtained with CuK alpha radiation and a Nonius CAD-4 diffractometer. The structure was solved by using MULTAN, and refined to R(F2) = 0.051, RW(F2) = 0.078, R(F) = 0.029, S = 1.16 for 1502 reflections. The molecule has the 4C1(D) conformation. The orientation of the primary alcohol group is gauche/trans, and that about the glycosidic C-S bond is (-)synclinal relative to the ring C-O bond. Although this compound does not form thermotropic liquid crystals, it has two crystal-to-crystal phase-transitions, at 70 and 104 degrees, prior to melting at 126 degrees. The crystal structure has a characteristic, amphiphilic, head-to-head bilayer molecular packing, with intercalated alkyl groups. The water molecule is included in the hydrogen-bond structure that links the galactoside moieties.     

Preliminary crystallographic study of a ribulose-1,5-bisphosphate carboxylase-oxygenase from Chromatium vinosum

Crystals of a ribulose-1,5-bisphosphate carboxylase-oxygenase from Chromatium vinosum were obtained with the hanging-drop vapor diffusion technique, using polyethylene glycol 4000 as precipitant. The crystal belongs to the cubic system, space group I432, with unit cell dimension a = 245.9 A. An asymmetric unit includes one-quarter (L2S2, L: large subunit, S: small subunit) of a hexadecameric molecule (L8S8, 544,000 Mr), which is located on the crystallographic point symmetry 222 or 4. The crystal diffracts to at least 3.0 A resolution.     

Crystal structure of ferric-yersiniabactin, a virulence factor of Yersinia pestis

Yersiniabactin (Ybt), the siderophore produced by Yersinia pestis, has been crystallized successfully in the ferric complex form and the crystal structure has been determined. The crystals are orthorhombic with a space group of P2(1)2(1)2(1) and four distinct molecules per unit cell with cell dimensions of a=11.3271(+/-0.0003)A, b=22.3556(+/-0.0006)A, and c=39.8991(+/-0.0011)A. The crystal structure of ferric Ybt shows that the ferric ion is coordinated as a 1:1 complex by three nitrogen electron pairs and three negatively charged oxygen atoms with a distorted octahedral coordination. The molecule displays a Delta absolute configuration with chiral centers at N2, C9, C10, C12, C13, and C19 in R, R, R, R, S, S configurations, respectively. Few of the crystal structures of siderophores have been solved, and those which have been are of simple hydroxamate and catechol types such as ferrioxamine B and agrobactin. To our knowledge this is the first report of the ferric crystal structure of 5-member heterocycle siderophore.     

Truncation of amino-terminal tail stimulates activity of human endonuclease III (hNTH1)

Human MRP14 (hMRP14) is a Ca(2+)-binding protein from the S100 family of proteins. This protein is co-expressed with human MRP8 (hMRP8), a homologue protein in myeloid cells, and plays an indispensable role in Ca(2+)-dependent functions during inflammation. This role includes the activation of Mac-1, the beta(2) integrin which is involved in neutrophil adhesion to endothelial cells. The crystal structure of the holo form of hMRP14 was analyzed at 2.1 A resolution. hMRP14 is distinguished from other S100 member proteins by its long C-terminal region, and its structure shows that the region is extensively flexible. In this crystal structure of hMRP14, Chaps molecules bind to the hinge region that connects two EF-hand motifs, which suggests that this region is a target-binding site of this protein. Based on a structural comparison of hMRP14 with hMRP8 and human S100A12 (hS100A12) that is another homologue protein, the character of MRP8/14 hetero-complex and the functional significance of the flexibility of the C-terminal region of hMRP14 are discussed.     

Crystal structure, detonation performance, and thermal stability of a new polynitro cage compound: 2, 4, 6, 8, 10, 12, 13, 14, 15-nonanitro-2, 4, 6, 8, 10, 12, 13, 14, 15-nonaazaheptacyclo [5.5.1.13, 11. 15, 9] pentadecane

A new polynitro cage compound 2, 4, 6, 8, 10, 12, 13, 14, 15-nonanitro-2, 4, 6, 8, 10, 12, 13, 14, 15-nonaazaheptcyclo [5.5.1.1(3,11).1(5,9)] pentadecane (NNNAHP) was designed in the present work. Its molecular structure was optimized at the B3LYP/6-31 G(d,p) level of density functional theory (DFT) and crystal structure was predicted using the Compass and Dreiding force fields and refined by DFT GGA-RPBE method. The obtained crystal structure of NNNAHP belongs to the P-1 space group and the lattice parameters are a = 9.99 ?, b = 10.78 ?, c = 9.99 ?, α = 90.01°, β = 120.01°, γ = 90.00°, and Z = 2, respectively. Based on the optimized crystal structure, the band gap, density of state, thermodynamic properties, infrared spectrum, strain energy, detonation characteristics, and thermal stability were predicted. Calculation results show that NNNAHP has detonation properties close to those of CL-20 and is a high energy density compound with moderate stability.