Document Detail

Short peptide fragments derived from HMG-I/Y proteins bind specifically to the minor groove of DNA.
MedLine Citation:
PMID:  8172908     Owner:  NLM     Status:  MEDLINE    
Short peptides derived from chromosomal proteins have previously been proposed to bind specifically to the minor groove of A,T-rich DNA [for a review, see M. E. A. Churchill and A. A. Travers (1991) Trends Biochem. Sci. 16, 92-97]. Using NMR spectroscopy, we investigated the DNA binding of SPRKSPRK, which is one such A,T-specific motif. Under the conditions studied SPRKSPRK interacts only nonspecifically with d(CGCAAAAAAGGC).d(GCCTTTTTTGCG). The peptides TPKRPRGRPKK, PRGRPKK, and PRGRP derived from the non-histone chromosomal protein HMG-I/Y, however, bind specifically to the central A,T sites of d(CGCAAATTTGCG)2 and d(CGCGAATTCGCG)2. 2D NOE measurements show that the RGR segment of each peptide is in contact with the minor groove. The arginine side chains and the peptide backbone are buried deep in the minor groove, in a fashion generally similar to the antibiotic netropsin. Under the same conditions the peptide PKGKP does not interact with the same oligonucleotide duplexes, indicating that the arginine guanidinium groups are major determinants of the A,T specificity.
B H Geierstanger; B F Volkman; W Kremer; D E Wemmer
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Publication Detail:
Type:  Comparative Study; Journal Article; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.; Research Support, U.S. Gov't, P.H.S.    
Journal Detail:
Title:  Biochemistry     Volume:  33     ISSN:  0006-2960     ISO Abbreviation:  Biochemistry     Publication Date:  1994 May 
Date Detail:
Created Date:  1994-06-08     Completed Date:  1994-06-08     Revised Date:  2007-11-14    
Medline Journal Info:
Nlm Unique ID:  0370623     Medline TA:  Biochemistry     Country:  UNITED STATES    
Other Details:
Languages:  eng     Pagination:  5347-55     Citation Subset:  IM    
Graduate Group in Biophysics, University of California, Berkeley 94720.
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MeSH Terms
Amino Acid Sequence
Base Sequence
Binding Sites
Carrier Proteins / chemistry*,  metabolism
Chromosomal Proteins, Non-Histone / chemistry*,  metabolism
DNA / chemistry*,  metabolism
Distamycins / chemistry
High Mobility Group Proteins / chemistry*,  metabolism
Hydrogen Bonding
Magnetic Resonance Spectroscopy
Models, Molecular
Molecular Sequence Data
Netropsin / chemistry
Oligodeoxyribonucleotides / chemical synthesis,  chemistry*,  metabolism
Oligopeptides / chemical synthesis,  chemistry*,  metabolism
Peptide Fragments / chemical synthesis,  chemistry*,  metabolism
X-Ray Diffraction
Grant Support
Reg. No./Substance:
0/Carrier Proteins; 0/Chromosomal Proteins, Non-Histone; 0/Distamycins; 0/High Mobility Group Proteins; 0/Oligodeoxyribonucleotides; 0/Oligopeptides; 0/Peptide Fragments; 1438-30-8/Netropsin; 9007-49-2/DNA

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