Molecular modeling on the recognition of DNA sequence and conformational repair of sheared DNA by novel chiral metal complex D, L-[Co(phen)_2hpip]~(3 )

Recent studies revealed that DNA, once considered as a very stable macromolecular, is rather unstable. Familiar factors, like heavy metal, microbe, high fre-quency electromagnetic radiation and so on, could easily damage the structure of DNA in different …     

Molecular modeling on the recognition of DNA sequence and conformational repair of sheared DNA by novel chiral metal complex D,L-[Co(phen)2hpip]3+

A study on the recognition of DNA sequence and conformational repair of sheared DNA by Novel Chiral Metal complex D,L-[Co(phen)₂hpip]³⁺ (phen=1,10 phenanthroline, hpip=2-[2-hydroxyphenyl] imidazole [4,5-f][1,10] phenanthroline) is carried out with molecular simulations. The results reveal that two isomers of the complex could both recognize the normal DNA in the minor groove orientation, while recognize the sheared DNA in the major groove orientation and both isomers could convert the conformation of mismatched bases from sheared form to parallel form. Further analysis shows that the steric details of complex’s intercalation to base stack determine the results of recognition, which is induced by the steric collision among ancillary ligand phen, bases and DNA backbone, and by the steric crowding occurring in the process of structural expansion of bases and DNA backbone. Detailed analysis reveals that the conformational repair of mismatched bases relates not only to the steric interactions, but also the π-π stack among normal bases, mismatched bases and hpip ligand.     

Λ-及Δ-[Ru(phen)2dppz]n+对错配DNA的识别作用的分子模拟

本文通过在ESFF(Extensible Systematic Force Field)力场下对其作用中的体系势能进行分子力学计算，分析了手性金属配合物Λ－及Δ-[Ru(phen)2dppz]^n 对错配DNA d(CCGAATGAGG)2的识别机理，并在分子水平上对其做了详细解释。     

Molecular modeling on recognition of sheared and normal DNA by novel metal complex Λ- and Δ-[Co(phen)2hpip]

Recognition of sheared and normal DNA by a novel metal complex [Co(phen)₂hpip]³⁺ (phen=1,10-phenanthroline, HPIP=2-(2-hydroxyphenyl)imidazole[4,5-f][1,10]phenanethroline) is studied by molecular modeling. Calculating results indicate that, this complex can specifically recognize DNA segment of sequence –MMNNMM– (M means mismatch base pairs and N means normal base pairs). Intercalating from minor groove between the middle normal duplex into the sheared DNA with the depth of 1.2 nm is of preference and enantioselectivity is observed. Comparison on the two DNA structures of optimal conformation and analysis on the interaction between DNA and the two tail ligands of the complex show that, the effect of the two neighboring mismatch duplexes on the structure of the middle normal base pairs and the steric interaction between the mismatch duplexes and the two tail ligands of the complex are the essential reason to the segment specificity. Investigation on the detailed energy terms indicate that, in effecting enantioselectivity, the electrostatic distribution of the complex is in the majority and steric interaction is at the next place. But, steric interaction is surely the only factor determining the intercalating from minor groove.     

Molecular modeling of the binding mode of chiral metal complexes △- and (A)-[Co(phen)2dppz]3+ with B-DNA

Molecular modeling methods have been applied to the structural characterization of the interaction between chiral metal complexes [Co(phen)2dppz]3+ (where phen = 1, 10-phenanthroline, dppz = dipyrido[3,2-a: 2′, 3′-c]phenazine) and the oligonucleotide (B-DNA fragment). The natures of two kinds of the binding modes, which are currently intense controversy, have been explored. Barton proposed that there is enantio-selective DNA binding by the octahedral complexes and intercalative access by these complexes from the major groove; but Norden suggested that both enantiomers bind extremely strongly to DNA from the minor groove without any noticeable enantio-selectivity. Our results support and extend structural models based upon Norden's studies, and conflict with Barton's model.     

Molecular modeling of the binding mode of chiral metal complexes A- and A-[Co(phen)_2dppz]~(3 ) with B-DNA

Molecular modeling methods have been applied to the structural characterization of the interaction between chiral metal complexes [Co(phen)2dppz]3 (where phen = 1, 10-phenanthroline, dppz = dipyrido[3,2-a: 2', 3'-c]phenazine) and the oligonucleotide (B-DNA fragment). The natures of two kinds of the binding modes, which are currently intense controversy, have been explored. Barton proposed that there is enantio-selective DMA binding by the octahedral complexes and intercalative access by these complexes from the major groove; but Norden suggested that both enantiomers bind extremely strongly to DNA from the minor groove without any noticeable enantio-selectivity. Our results support and extend structural models based upon Norden's studies, and conflict with Barton's model.     

Molecular modeling of the binding mode of chiral metal complexes δ- and ∧-[Co(phen)2dppz]3+with B-DNA

Molecular modeling methods have been applied to the structural characterization of the interaction between chiral metal complexes [Co(phen)₂dppz]³⁺ (where phen = 1, 10-phenanthroline, dppz = dipyrido[3,2-a: 2′, 3′ -c]phenazine) and the oligonucleotide (B-DNA fragment). The natures of two kinds of the binding modes, which are currently intense controversy, have been explored. Barton proposed that there is enantio-selective DNA binding by the octahedral complexes and intercalative access by these complexes from the major groove; but Norden suggested that both enantiomers bind extremely strongly to DNA from the minor groove without any noticeable enantio-selectivity. Our results support and extend structural models based upon Norden’s studies, and conflict with Barton’ model.     

Λ-、Δ-[Rh(bpy)2chrysi]3+对含C:T错配的DNA序列识别作用的分子模拟研究

通过分子模拟方法研究了手性金属配合物[Rh(bpy)2Chrysi]3 (bpy=2,2’- bipyridine;Chrysi=5,6-chrysenequinonediimine)对包含C:T错配碱基对的B-DNA序列的识别作用。结合类似的针对含G:A错配的和正常的B-DNA序列的识别作用研究,发现配合物[Rh(bpy)2Chrysi]3 可以对错配B-DNA序列进行序列特异性的识别．能量对比计算结果表明,该经典插入识别作用倾向于在错配碱基对附近进行,其中Δ-[Rh(bpy)2charysi]3 比其手性异构体更占优势．这同Barton教授工作组的实验结果是一致的。另外插入作用倾向于在错配序列中的正常双碱基对C3A4／G374(错配碱基对附近)中从小沟进行．与该配合物对含G:A错配的和正常的B-DNA序列的识别作用不同的是,对包含C:T错配碱基对的B-DNA序列的识别作用倾向于从小沟进行．这一点可能源于C:T碱基对结构的不同．     

The selective recognition of mismatched d(GCGAGC)2 by the cobalt(III) complex

We studied the binding of [Co(phen)₂(HPIP)]CI₃ to mismatched d(GCGAGC)₂ containing two sheared G:A mispairs by NMR. The result shows that the complex was intercalated into G:A region from the minor groove and extended to the major groove, and could selectively recognize the mispairs.³¹P NMR indicates that the complex binding induced the change of the phosphate backbone in the mismatched base pairs region.     

微量热法研究 [Cu(phen)2]2+、[Cu(bpy)2]2+与DNA的作用

用微量热法对菲咯啉合铜([Cu(phen)     

[Fe(phen)3]2+ aquation in aqueous polyacrylamide solution

The aquation of tris(1, 10-phenanthroline) iron(II) has been studied in aqueous polyacrylamide solutions. The rate increases up to 2.8 times at low polymer concentrations, and subsequently decreases. These effects are attributed to changes in the local water activity in the region of the complex.

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(1, 10-) (II) . 2,8 , . .

     

[Ru(bpy)2tpphz]2+与Zn2+形成的双核配合物的荧光性质研究

The formation of heterobimetallic ruthenium(Ⅱ) complex was investigated by absorption and emission spectra. As an intercalator of DNA， the luminescent monometallic ruthenium(Ⅱ) complex [Ru(bpy)₂tpphz]²⁺ could coor-dinate with Zn²⁺ to form the nonluminescent heterobimetallic complex [Ru(bpy)₂(tpphz)Zn]⁴⁺. The emission in-tensity of complex decreased as increasing the amounts of Zn²⁺ and the luminescence was almost lost at the ratio of [Zn]/[Ru] of 1. After binding to DNA， the peripheral coordination site on the tpphz ligand remained accessible for Zn²⁺， the coordination occurred from the oppsite side of helix with respect to intercalated [Ru(bpy)₂tpphz]²⁺ and the nonluminescent heterobimetallic complex was formed. On the other hand， the [Ru(bpy)₂(tpphz)Zn]⁴⁺ also bound to DNA by intercalation and situated the region of the intercalated [Ru(bpy)₂tpphz]²⁺ between the base pairs of DNA. The complex looked like a molecular nut (the Zn²⁺) and bolt (the [Ru(bpy)₂tpphz]²⁺).     

手性金属配合物Δ,Λ-[Ru(IP)2dppz]2＋对含G:T错配的环丁烷嘧啶二聚体识别和部分构型修复的分子力学研究

环丁烷嘧啶二聚体(Cyclobutane Pyrimidine Dimer, CPD)是紫外线对DNA损伤导致皮肤癌的首要环节, XPC-hHR23B是最早作为对CPD的损伤识别剂的, 但其识别效率很低. 本文首次采用分子力学方法模拟了一种新的手性金属配合物Δ,Λ-[Ru(IP)₂dppz]^2＋对含G:T错配的CPD双螺旋DNA的识别作用. 模拟结果显示: 金属配合物[Ru(IP)₂dppz]^2＋的两个手性异构体都对含G:T错配的CPD双螺旋DNA具有识别作用, 识别的过程体现了很强的手性选择性、沟选择性和位点特异性. 同时, 我们发现: 在Λ-[Ru(IP)₂dppz]^2＋插入到CPD后, 形成CPD的两个T碱基由原来的敞口形状部分地转为近平行状, 使其在构型上得到初步的修复.     

Co(phen)33+与6-巯基嘌呤及DNA间相互作用的研究

自1969年首次报道顺铂(cis-[Pt(NH 3 ) 2 Cl 2 ])对肿瘤有强烈抑制作用以来,金属配合物抗肿瘤药物的研究倍受重视 [1,2] ?很多抗肿瘤药物治疗恶性肿瘤疾病都是通过切割人体肿瘤细胞的DNA来实现的?DNA与外源性分子相互作用的研究构成肿瘤形成的机理和一些抗肿瘤药物作用机理的基     

手性配合物Λ, Δ-[Ru(phen)2hpip]2+的两种结构对含G:T错配DNA识别的分子力学研究

In this work, the recognition of DNA including G：T mismatched pairs by the two different structures of [Ru（phen）2hpip]^2＋ was firstly studied with molecular modeling respectively. The results revealed that all of the four chiral isomers of the two structures could recognize the mismatched DNA from the minor groove orientation especially and the interaction was enantioselective and sitespecific. The two left isomers were more preferential than the right ones. Especially, the structure Ⅱ which had much lower energy after interacting with DNA was the advantaged structure. Detailed energy analysis indicated that the steric interaction in the process of the complex inserting base stack determined the recognition results and the electrostatic interaction made an effect to some extent.     

配合物[La(pic)3(phen)2]·CH3CN的合成及晶体结构

The Lanthanum picrate complex with 1,10-phenanthroline was synthesized, whose chemical formula can be written in [La(pic)₃(phen)₂]·CH₃CN. The crystal Xray diffraction analysis shows that crystal belongs to monoclinic with space group P2₁/a and unit cell parameters:a=17.072(4),b=16.083(4),c=17.789(4),β=106.34(2)°,V=4687(4)³, Z=4,Dc=1.735g·cm³, μ=10.106cm¹,F(000)=2448,R=0.0589,Rw=0.0589. The coordination number of La³⁺ is nine. Acetonitrile, a solvent molecule is not coordinated. Between three Pic ligands, that possesses 2 bidentate forms six member ring with La. The other is unidentate ligand. As usually, phen is bidentate ligand.     

[Cu(dien)Cl]+与DNA及多核苷酸作用的平衡透析研究

用平衡透析法研究了37℃、pH=6.00,离子强度为0.005条件下的[Cu(dien)Cl]~+与DNA、多聚腺苷酸、多聚鸟苷酸以及多聚胞苷酸之间的相互作用。用McGhee和von Hippel法对实验数据进行了分析,求得其结合常数、反映键合过程中(Cu(dien)Cl]~+间相互作用的协同参数以及每个[Cu(dien)Cl]~+所键合的核苷酸残基数。     

一种含[Ni(CN)4]2-和[Cu(pn)]2+构筑元组成的超分子配合物的合成、单晶结构和磁学性质

A cyano-bridged heterometallic supramolecular complex {[Cu(pn)]₃[Ni(CN)₄]₃}_n (1) has been synthesized and structurally characterized by single crystal X-ray diffraction. 1 displays an interesting 3D structure formed by μ₄, μ₃-[Ni(CN)₄]^2- tectons bridging five-coordinated and six-coordinated Cu(II) ions. The magnetic property shows that 1 behaves as weakly ferromagnetic interactions between the adjacent Cu(II) ions through the diamagnetic spacer NC-Ni-CN. CCDC: 624387.     

以[M(DETA)2)]n+(M=Cu2+, Ni2+, Co3+)为客体的MnPS3夹层化合物的合成、结构表征与磁性研究

将过渡金属配合物阳离子([M(DETA)₂]ⁿ⁺(M=Cu²⁺,Ni²⁺,Co³⁺;DETA=Diethylenetriamine,二乙烯三胺)作为客体插入层状MnPS₃层间得到了相应的3个夹层化合物。通过X-射线粉末衍射、元素分析和红外光谱对夹层化合物的结构进行了表征。结果表明,与主体MnPS₃ 0.65 nm的层间距相比较,夹层化合物(Mn_0.88PS₃[Cu(DETA)₂]_0.12)的层间距扩大了0.32 nm,由此推测客体[Cu(DETA)₂]²⁺在层间以平面四方的配位形式存在,而另2个夹层化合物(Mn_0.79PS₃[Ni(DETA)₂]_0.21和Mn_0.74PS₃[Co(DETA)₂]_0.17)的层间距扩大了0.48 nm,说明客体[(M(DETA)₂]ⁿ⁺,M=Co³⁺,Ni²⁺) 在主体层间以八面体配位形式存在。磁性测试结果表明过渡金属离子[(M(DETA)₂]ⁿ⁺(M=Cu²⁺,Co³⁺)的插入能引起主体MnPS₃的磁性在35~40 K发生由顺磁向亚铁磁性的转变并表现自发磁化,而客体[Ni(DETA)₂]²⁺却使夹层化合物的反铁磁相互作用增强,抑制了自发磁化的发生。     

两种氨基酸中[MH-CO2H2]+的特征质谱碎裂

运用低能碰撞诱导解离（ＣＩＤ）研究了电子轰击（ＥＩ）、快原子轰击（ＦＡＢ）电离条件下质子化亮氨酸与异亮氨酸解离产生亚稳离子「ＭＨ－ＣＯ２Ｈ２」的单分子质谱破裂，二种异构体呈现出了各自不同的解离特征，根据ＣＩＤ的特征碎片离子和氘代同位素标记实验，提出了其破裂过程的存在离子／中性（碎片）复合物中间体机理，并对有关的特征离子的形成进行了讨论。