The HSV-1 ICP27 RGG box specifically binds flexible, GC-rich sequences but not G-quartet structures.
Herpes simplex virus 1 (HSV-1) protein ICP27, an important regulator for viral gene expression, directly recognizes and exports viral RNA through an N-terminal RGG box RNA binding motif, which is necessary and sufficient for RNA binding. An ICP27 N-terminal peptide, including the RGG box RNA binding motif, was expressed and its binding specificity was analyzed using EMSA and SELEX. DNA oligonucleotides corresponding to HSV-1 glycoprotein C (gC) mRNA, identified in a yeast three-hybrid analysis, were screened for binding to the ICP27 N-terminal peptide in EMSA experiments. The ICP27 N-terminus was able to bind most gC substrates. Notably, the ICP27 RGG box was unable to bind G-quartet structures recognized by the RGG domains of other proteins. SELEX analysis identified GC-rich RNA sequences as a common feature of recognition. NMR analysis of SELEX and gC sequences revealed that sequences able to bind to ICP27 did not form secondary structures and conversely, sequences that were not able to bind to ICP27 gave spectra consistent with base-pairing. Therefore, the ICP27 RGG box is unique in its recognition of nucleic acid sequences compared to other RGG box proteins; it prefers flexible, GC-rich substrates that do not form stable secondary structures.
Corbin-Lickfett
Kara A
KA
Department of Microbiology and Molecular Genetics, University of California Irvine, Irvine, CA 92697, USA.
Chen
I-Hsiung Brandon
IH
Cocco
Melanie J
MJ
Sandri-Goldin
Rozanne M
RM
D001483:Base Sequence; D001665:Binding Sites; D004279:DNA, Viral / Q000737:chemistry; D024202:Electrophoretic Mobility Shift Assay; D054856:G-Quadruplexes; D020862:GC Rich Sequence; D017874:Immediate-Early Proteins / Q000737:chemistry / Q000378:metabolism*; D008969:Molecular Sequence Data; D019906:Nuclear Magnetic Resonance, Biomolecular; D017434:Protein Structure, Tertiary; D012367:RNA, Viral / Q000737:chemistry* / Q000378:metabolism; D016601:RNA-Binding Proteins / Q000737:chemistry / Q000378:metabolism*; D052156:SELEX Aptamer Technique; D014759:Viral Envelope Proteins / Q000235:genetics
D004279:DNA, Viral; C057120:ICP27 protein, human herpesvirus 1; D017874:Immediate-Early Proteins; D012367:RNA, Viral; D016601:RNA-Binding Proteins; D014759:Viral Envelope Proteins; C038535:glycoprotein gC, herpes simplex virus type 1