Chemical probing studies of the hepatitis delta virus (HDV) genomic ribozyme.
We have investigated the higher-order structure of HDV genomic ribozyme using various base-and phosphate-specific chemical probes under native, semi-denaturing and denaturing conditions. The bases of the HDV ribozyme were probed by treatment with dimethylsulfate and carbodiimide. In general, our results are consistent with the proposed pseudoknot model of secondary structure. The involvement of phosphates in hydrogen bonds or ion co-ordination was monitored with ethylnitrosourea.
Nishikawa
S
S
National Institute of Bioscience and Human Technology, AIST, MITI, Tsukuba Science City, Japan.
Kumar
P K
PK
Jeoung
Y H
YH
Kawakami
J
J
Nishikawa
F
F
Suh
Y
Y
Ohtsuka
E
E
Taira
K
K
D001483:Base Sequence; D001665:Binding Sites; D002234:Carbodiimides / Q000737:chemistry; D005038:Ethylnitrosourea / Q000737:chemistry; D003698:Hepatitis Delta Virus / Q000201:enzymology / Q000235:genetics*; D006860:Hydrogen Bonding; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D016337:RNA, Catalytic / Q000737:chemistry* / Q000378:metabolism; D012367:RNA, Viral / Q000737:chemistry* / Q000378:metabolism; D013463:Sulfuric Acid Esters / Q000737:chemistry
D002234:Carbodiimides; D016337:RNA, Catalytic; D012367:RNA, Viral; D013463:Sulfuric Acid Esters; C007482:dimethyl sulfate; D005038:Ethylnitrosourea