1en1
From Proteopedia
(New page: 200px<br /> <applet load="1en1" size="450" color="white" frame="true" align="right" spinBox="true" caption="1en1" /> '''STRUCTURE OF THE HIV-1 MINUS STRAND PRIMER ...) |
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'''STRUCTURE OF THE HIV-1 MINUS STRAND PRIMER BINDING SITE'''<br /> | '''STRUCTURE OF THE HIV-1 MINUS STRAND PRIMER BINDING SITE'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The HIV-1 nucleocapsid protein (NC) functions as a nucleic acid chaperone | + | The HIV-1 nucleocapsid protein (NC) functions as a nucleic acid chaperone during the plus-strand transfer step in reverse transcription by facilitating annealing of the primer binding site (PBS) sequence in the short plus-strand strong-stop DNA fragment [(+) SSDNA] to a complementary site located near the 3' end of the minus-strand DNA [(-) PBS DNA]. To investigate the mechanism by which NC performs this function, we have prepared an 18-nucleotide (-) PBS DNA for nuclear magnetic resonance (NMR) based structural and NC binding studies. The (-) PBS DNA forms a stable hairpin (T(m) approximately 42 +/- 5 degrees C) that contains a five-residue loop and a bulged thymine in a guanosine-cytosine-rich stem. Addition of substoichiometric amounts of NC results in significant broadening and reductions in NMR signal intensities of the Watson-Crick base-paired imino protons and a reduction by 20 degrees C in the upper temperature at which the imino proton signals are detectable, consistent with destabilization of the structure. The results suggest that inefficient annealing in the absence of NC may be due to the intrinsic stability of an internal (-) PBS DNA hairpin and that NC facilitates strand transfer by destabilizing the hairpin and exposing stem nucleotides for base pairing with the PBS sequence in (+) SSDNA. |
==About this Structure== | ==About this Structure== | ||
| - | 1EN1 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http:// | + | 1EN1 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EN1 OCA]. |
==Reference== | ==Reference== | ||
A mechanism for plus-strand transfer enhancement by the HIV-1 nucleocapsid protein during reverse transcription., Johnson PE, Turner RB, Wu ZR, Hairston L, Guo J, Levin JG, Summers MF, Biochemistry. 2000 Aug 8;39(31):9084-91. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10924101 10924101] | A mechanism for plus-strand transfer enhancement by the HIV-1 nucleocapsid protein during reverse transcription., Johnson PE, Turner RB, Wu ZR, Hairston L, Guo J, Levin JG, Summers MF, Biochemistry. 2000 Aug 8;39(31):9084-91. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10924101 10924101] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Johnson, P | + | [[Category: Johnson, P E.]] |
| - | [[Category: Levin, J | + | [[Category: Levin, J G.]] |
| - | [[Category: Summers, M | + | [[Category: Summers, M F.]] |
| - | [[Category: Turner, R | + | [[Category: Turner, R B.]] |
| - | [[Category: Wu, Z | + | [[Category: Wu, Z R.]] |
[[Category: bulge]] | [[Category: bulge]] | ||
[[Category: hairpin]] | [[Category: hairpin]] | ||
[[Category: pentaloop]] | [[Category: pentaloop]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:29:27 2008'' |
Revision as of 10:29, 21 February 2008
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STRUCTURE OF THE HIV-1 MINUS STRAND PRIMER BINDING SITE
Overview
The HIV-1 nucleocapsid protein (NC) functions as a nucleic acid chaperone during the plus-strand transfer step in reverse transcription by facilitating annealing of the primer binding site (PBS) sequence in the short plus-strand strong-stop DNA fragment [(+) SSDNA] to a complementary site located near the 3' end of the minus-strand DNA [(-) PBS DNA]. To investigate the mechanism by which NC performs this function, we have prepared an 18-nucleotide (-) PBS DNA for nuclear magnetic resonance (NMR) based structural and NC binding studies. The (-) PBS DNA forms a stable hairpin (T(m) approximately 42 +/- 5 degrees C) that contains a five-residue loop and a bulged thymine in a guanosine-cytosine-rich stem. Addition of substoichiometric amounts of NC results in significant broadening and reductions in NMR signal intensities of the Watson-Crick base-paired imino protons and a reduction by 20 degrees C in the upper temperature at which the imino proton signals are detectable, consistent with destabilization of the structure. The results suggest that inefficient annealing in the absence of NC may be due to the intrinsic stability of an internal (-) PBS DNA hairpin and that NC facilitates strand transfer by destabilizing the hairpin and exposing stem nucleotides for base pairing with the PBS sequence in (+) SSDNA.
About this Structure
1EN1 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
A mechanism for plus-strand transfer enhancement by the HIV-1 nucleocapsid protein during reverse transcription., Johnson PE, Turner RB, Wu ZR, Hairston L, Guo J, Levin JG, Summers MF, Biochemistry. 2000 Aug 8;39(31):9084-91. PMID:10924101
Page seeded by OCA on Thu Feb 21 12:29:27 2008
Categories: Protein complex | Johnson, P E. | Levin, J G. | Summers, M F. | Turner, R B. | Wu, Z R. | Bulge | Hairpin | Pentaloop
