5-(6-propionyl-2-dimethylaminonaphthalene)-3'O,5'O-bis(tert-butyldimethylsilyl)-2'-deoxyuridine | 891492-04-9

• 分子结构分类: 有机化合物 - 核苷、核苷酸和类似物 - 嘧啶核苷
• 英文名称: 5-(6-propionyl-2-dimethylaminonaphthalene)-3'O,5'O-bis(tert-butyldimethylsilyl)-2'-deoxyuridine
• 英文别名: 5-PRODAN-2'-deoxy-3',5'-O-(tert-butyldimethylsilyl)uridine
• CAS: 891492-04-9
• 化学式: C₃₆H₅₅N₃O₆Si₂
• 分子量: 682.02
• InChiKey: AFAPTVUMDNLMIQ-DCMFLLSESA-N

计算性质

• 辛醇/水分配系数(LogP)：
  7.27
• 重原子数：
  47.0
• 可旋转键数：
  11.0
• 环数：
  4.0
• sp3杂化的碳原子比例：
  0.58
• 拓扑面积：
  102.86
• 氢给体数：
  1.0
• 氢受体数：
  8.0

反应信息

• 作为反应物：
  描述：

  5-(6-propionyl-2-dimethylaminonaphthalene)-3'O,5'O-bis(tert-butyldimethylsilyl)-2'-deoxyuridine 在 四丁基氟化铵 作用下， 以 四氢呋喃 、 吡啶 为溶剂， 反应 16.0h， 生成 5-PRODAN-2'-deoxy-5'-O-(4,4'-dimethoxytrityl)uridine
  参考文献：
  名称：

  PRODAN-Conjugated DNA:  Synthesis and Photochemical Properties

  摘要：

  A solvatochromic fluorophore, PRODAN, has been used as a microenvironment-sensitive reporter. Based on the chemistry of PRODAN, we designed and synthesized four novel fluorescent nucleosides, X-PDN (X = U, C, A, and G), to which a PRODAN fluorophore was attached at pyrimidine C5 or purine C8. The fluorescent nucleosides sensitively varied the Stokes shift values depending on the orientational polarizability of the solvent. The X-PDN incorporated into DNA also changed the Stokes shift values depending on the DNA structure. In particular, the excitation spectrum of the X-PDN-containing duplex shifted to a longer wavelength and gave a smaller Stokes shift value when the base opposite X-PDN could form a Watson-Crick base pair with X-PDN. A lower energy excitation of X-PDN-containing DNA resulted in a strong fluorescence emission selective to the Watson-Crick pairing base. This unique photochemical character was applicable to the efficient typing of single-nucleotide polymorphisms of genes.

  DOI：

  10.1021/ja069156a
• 作为产物：
  描述：

  6-(二甲基氨基)-2-萘醛 在 palladium on activated charcoal 、 copper(l) iodide 、 四(三苯基膦)钯 正丁基锂 、 四丙基高钌酸铵 、 4 A molecular sieve 、 氢气 、 sodium methylate 、 N-甲基吗啉氧化物 、 三乙胺 作用下， 以 四氢呋喃 、 甲醇 、 正己烷 、 二氯甲烷 、 N,N-二甲基甲酰胺 为溶剂， 反应 16.5h， 生成 5-(6-propionyl-2-dimethylaminonaphthalene)-3'O,5'O-bis(tert-butyldimethylsilyl)-2'-deoxyuridine
  参考文献：
  名称：

  PRODAN-Conjugated DNA:  Synthesis and Photochemical Properties

  摘要：

  A solvatochromic fluorophore, PRODAN, has been used as a microenvironment-sensitive reporter. Based on the chemistry of PRODAN, we designed and synthesized four novel fluorescent nucleosides, X-PDN (X = U, C, A, and G), to which a PRODAN fluorophore was attached at pyrimidine C5 or purine C8. The fluorescent nucleosides sensitively varied the Stokes shift values depending on the orientational polarizability of the solvent. The X-PDN incorporated into DNA also changed the Stokes shift values depending on the DNA structure. In particular, the excitation spectrum of the X-PDN-containing duplex shifted to a longer wavelength and gave a smaller Stokes shift value when the base opposite X-PDN could form a Watson-Crick base pair with X-PDN. A lower energy excitation of X-PDN-containing DNA resulted in a strong fluorescence emission selective to the Watson-Crick pairing base. This unique photochemical character was applicable to the efficient typing of single-nucleotide polymorphisms of genes.

  DOI：

  10.1021/ja069156a

文献信息

• Prodan-containing nucleotide and use thereof
  申请人：Okamoto Akimitsu

  公开号：US20060142311A1

  公开（公告）日：2006-06-29

  A compound represented by formula (1): wherein R 1 is a substituent represented by formula (2): wherein R 2 is ═O or —NH 2 , with the proviso that when R 2 is ═O, H is attached to the 1-position N of the pyrimidine ring, and the bond between the 1-position N and the 6-position C is a single bond; or a substituent represented by formula (3): wherein R 3 is —OH, ═O, or —NH 2 , with the proviso that when R 3 is —OH or —NH 2 , R 4 is H; when R 3 is ═O, R 4 is —NH 2 ; and when R 3 is ═O, H is attached to the 1-position N of the purine ring, and the bond between the 1-position N and the 6-position C is a single bond.

  一种由式（1）表示的化合物：其中R1是由式（2）表示的取代基：其中R2为 ═O或—NH2，但是当R2为═O时，H附着在嘧啶环的1位N上，并且1位N和6位C之间的键为单键；或者由式（3）表示的取代基：其中R3为—OH，═O或—NH2，但是当R3为—OH或—NH2时，R4为H；当R3为═O时，R4为—NH2；当R3为═O时，H附着在嘌呤环的1位N上，并且1位N和6位C之间的键为单键。