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J. Biol. Chem., Vol. 279, Issue 23, 23855-23858, June 4, 2004

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Resonance Raman Evidence for Two Conformations Involved in the L Intermediate of Photoactive Yellow Protein^*

Masashi Unno, Masato Kumauchi¶, Norio Hamada||, Fumio Tokunaga¶, and Seigo Yamauchi

From the Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Sendai 980-8577, Japan, the ^¶Department of Earth and Space Science, Graduate School of Science, Osaka University, Toyonaka, Osaka 560-0043, Japan, and ^||JST, CREST, Osaka University, Suita, Osaka 565-0871, Japan

The blue light receptor photoactive yellow protein (PYP) displays a photocycle that involves several intermediate states. Here we report resonance Raman spectroscopic investigations of the short-lived red-shifted intermediate denoted PYP_L. We have found that the Raman bands of the carbonyl C=O stretching mode ₁₁ as well as the C=C stretching mode ₁₃ for the chromophore can be resolved into two peaks, and the ratio of the two components varies as a function of pH with pK_a 6. The isotope effects on the resonance Raman spectra have confirmed a deprotonated cis-chromophore for the two components. The results indicate the presence of two conformations in the active site of PYP_L. The normal coordinate calculations based on the density functional theory provide a structural model for the two conformations, where the low pH form is possibly an active structure for the protonation reaction generating a following intermediate in the photocycle.

Received for publication, April 2, 2004 , and in revised form, April 14, 2004.

^* This work was supported by grants from the Association for the Progress of New Chemistry (to M. U.). The costs of publication of this article were defrayed in part by the payment of page charges. This article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact.

The on-line version of this article (available at http://www.jbc.org) contains supplemental Figs. 1S and 2S and Table 1S.

To whom correspondence may be addressed. Tel.: 81-22-217-5618; Fax: 81-22-217-5616; E-mail: unno{at}tagen.tohoku.ac.jp.

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