JBC Avanti Polar Lipids

HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
 QUICK SEARCH:   [advanced]


     


Originally published In Press as doi:10.1074/jbc.M005861200 on July 28, 2000

J. Biol. Chem., Vol. 275, Issue 48, 37824-37828, December 1, 2000
This Article
Right arrow Abstract Freely available
Right arrow Full Text (PDF)
Right arrow All Versions of this Article:
275/48/37824    most recent
M005861200v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Right arrow Citation Map
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrow reprints & permissions
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Hasegawa, J.
Right arrow Articles by Igarashi, Y.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Hasegawa, J.
Right arrow Articles by Igarashi, Y.
Social Bookmarking
 Add to CiteULike   Add to Complore   Add to Connotea   Add to Del.icio.us   Add to Digg   Add to Reddit   Add to Technorati  
What's this?

Selected Mutations in a Mesophilic Cytochrome c Confer the Stability of a Thermophilic Counterpart*

Jun HasegawaDagger §, Susumu Uchiyama||, Yuko Tanimoto||, Masayuki Mizutani**, Yuji Kobayashi||, Yoshihiro SambongiDagger Dagger §§, and Yasuo Igarashi**

From Dagger  Daiichi Pharmaceutical Co., Ltd., Edogawa-ku, Tokyo 134-8630, Japan, the || Faculty of Pharmaceutical Sciences, Osaka University, Suita, Osaka 565-0871, Japan, the ** Department of Biotechnology, University of Tokyo, Bunkyo-ku, Tokyo 113-0032, Japan, and the Dagger Dagger  Institute of Scientific and Industrial Research, Osaka University, Ibaraki, Osaka 567-0047, Japan

Received for publication, July 5, 2000, and in revised form, July 27, 2000

    ABSTRACT
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS AND DISCUSSION
REFERENCES

Mesophilic cytochrome c551 of Pseudomonas aeruginosa (PA c551) became as stable as its thermophilic counterpart, Hydrogenobacter thermophilus cytochrome c552 (HT c552), through only five amino acid substitutions. The five residues, distributed in three spatially separated regions, were selected and mutated with reference to the corresponding residues in HT c552 through careful structure comparison. Thermodynamic analysis indicated that the stability of the quintuple mutant of PA c551 could be partly attained through an enthalpic factor. The solution structure of the mutant showed that, as in HT c552, there were tighter side chain packings in the mutated regions. Furthermore, the mutant had an increased total accessible surface area, resulting in great negative hydration free energy. Our results provide a novel example of protein stabilization in that limited amino acid substitutions can confer the overall stability of a natural highly thermophilic protein upon a mesophilic molecule.

    INTRODUCTION
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS AND DISCUSSION
REFERENCES

Heat-stable proteins from thermophilic bacteria usually exhibit main chain foldings similar to those of mesophilic counterparts. Mutational studies on mesophilic proteins modeled with respect to thermophilic counterparts have proved that specific side chain interactions in the thermophiles are partially responsible for the higher stability (1-3). Thermodynamic analysis has also indicated that a thermophilic protein can be stabilized through global interaction throughout the molecule (4). It remains enigmatic as to how many amino acid substitutions contribute to the stability of a natural thermophilic protein (5). In some cases, a mesophilic protein only acquires the stability of the thermophilic counterpart after substantial exchanges of a linear sequence; groups of individual mutations are not sufficient (6). Multiple mutations in mesophilic proteins that completely increase the stability to the levels of thermophilic counterparts would provide important information about relationships between local side chain interactions and overall protein stability and demonstrate that the thermophilic character can depend on a limited number of strong noncovalent interactions.

Cytochrome c is a powerful tool for characterizing protein stability because structural information on a variety of cytochromes c is available, and heterologous expression systems for holopoteins have been established (7). Cytochrome c551 (PA c551)1 from a mesophile, Pseudomonas aeruginosa, and cytochrome c552 (HT c552) from a thermophile, Hydrogenobacter thermophilus, are 82- and 80-amino acid proteins, respectively, each with a covalently attached heme. These proteins exhibit 56% sequence identity (8) and almost the same main chain foldings (9), but HT c552 exhibits much higher stability compared with PA c551 (10). On a structural comparison between HT c552 (9) and PA c551 (11), we identified three distal regions responsible for the higher stability of the former (9). The single mutation Val-78 to Ile (V78I), and two double mutations Phe-7 to Ala/Val-13 to Met (F7A/V13M) and Phe-34 to Tyr/Glu-43 to Tyr (F34Y/E43Y), chosen with reference to HT c552, in these three regions of PA c551 have each been shown to increase protein stability (1).

In the present study, the five mutations were introduced together into PA c551. Thermodynamic analysis showed that the quintuple mutant of PA c551 was as stable as HT c552. In order to provide a molecular basis for understanding protein stabilization, we have determined the solution structure of the quintuple mutant. We discuss factors contributing to protein stability in conjunction with structural analyses of HT c552, and the wild-type and quintuple mutant PA c551 proteins.

    EXPERIMENTAL PROCEDURES
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS AND DISCUSSION
REFERENCES

Protein Preparations-- Mutations were introduced into the PA c551 gene with a polymerase chain reaction-based kit, Mutan-Super Express Km (Takara, Kyoto, Japan), as described previously (1). Transformed Escherichia coli JCB7120 cells harboring PA c551 genes were harvested from an anaerobic culture, and the proteins used in this study were purified as described previously (1, 8). The concentrations of the purified protein solutions were determined spectrophotometrically using extinction coefficients of epsilon 551 = 25,200 cm-1 M-1 and epsilon 552 = 20,400 cm-1 M-1 for PA c551 and HT c552, respectively. The uniformly 15N- or 13C/15N-labeled quintuple mutant PA c551 protein was obtained from an anaerobic culture with (15NH4)2SO4 (99.3%), a 15N-labeled Algal amino acid mixture (98.2%), and a glycerol-13C3 and 13C/15N-labeled Algal amino acid mixture (97.5%) as nitrogen and carbon sources. The labeled compounds were obtained from Shoko Co., Ltd. (Tokyo, Japan).

Guanidine Hydrochloride (GdnHCl) Denaturation-- Proteins (10 µg/ml) were incubated in diluted HCl water (pH 5.0) with various concentrations of GdnHCl at 25 °C for 2 h before measurements in order to equilibrate the proteins with the denaturant. The CD ellipticity at 222 nm of the protein solutions was measured using a 1-cm path length cuvette at 25 °C with a JASCO J-720 CD spectrophotometer with a PT343 thermoelectric temperature controller. The data were fitted by nonlinear least-squares analysis with KaleidaGraph 3.0 (Synergy Software) employing the Marquart-Levenberg algorithm using a linear extrapolation model as described previously (12). Cm was the concentration of GdnHCl at which the free energy change value, Delta G, became 0.

Thermal Denaturation-- The temperature dependence of the CD ellipticity at 222 nm was monitored using a 1-cm path length cuvette with a JASCO J-720 spectrophotometer with a PT343 thermoelectric temperature controller as described previously (1). Protein solutions (~10 µg/ml), pH 5.0, containing 1.5 M GdnHCl were heated from 15 °C to 90 or 100 °C at a heating rate of 1 K/min. Under these conditions, the thermal transition was highly reversible (95%). The van't Hoff enthalpy, Delta Hvan, was determined from the CD denaturation curve according to a two-state mechanism with a temperature-independent heat capacity change, Delta CP (13). The Delta CP values used were obtained by differential scanning calorimetric (DSC) measurements at pH 5.0 in the presence of 1.5 M GdnHCl for each protein. The slope of the CD base line for HT c552 in the denatured state was assumed to be the same as that in the native state.

DSC measurements were carried out with the VP-DSC developed by MicroCal Inc. (14). Degassed protein solutions, with a concentration of ~1 mg/ml, were loaded into the calorimeter cell, and each sample was heated from 10 to 125 °C under approximately 3 atmospheres, with a heating rate of 1 K/min. Thermodynamic parameters, i.e. Tm, Delta H, Delta S, Delta CP, and Delta G, were estimated from the heat capacity curve using nonlinear least square fitting based on the previously described method (15, 16). The fitting was performed with MATHEMATICA 3.0 (Wolfram Research Inc.) employing the Marquart-Levenberg algorithm.

NMR Measurement-- A protein sample (~1 mM) of the quintuple mutant was dissolved in a 90% H2O, 10% D2O or 99.99% D2O (v/v) solution (pH 5.0 adjusted with HCl), and then reduced with sodium dithionite. All NMR experiments were performed at 25 °C with a Varian UNITYInova 600 spectrometer. Sequential assignments of the backbone resonances of a polypeptide chain were achieved by means of sets of experiments, HNCACB (17), CBCA(CO)NH (18), HNCO (19), (HB)CBCACO(CA)HA (20), and HNHA (21). Protein side chain assignments were made through HCCH-total correlation spectroscopy experiments (22). Stereospecific assignments of the gamma -methyl protons of valines and beta -methylene protons were made by analyzing HNHB (23), 15N-edited NOESY-HSQC (24), and DQF-COSY (25) spectra. All proton signals from the heme moiety were assigned according to the procedure of Keller and Wüthrich (26). The signals of carbons attached to heme protons were assigned with a constant time 13C-1H HSQC spectrum (27). All data were processed using the software NMRPipe (28), and the data analysis was assisted by the software PIPP (29). The 1H, 13C, and 15N resonance assignments of the quintuple mutant have been deposited in the BioMagResBank, under accession number 4578.

Structure Calculation-- Approximate interproton distances were obtained from simultaneous 13C/15N-edited NOESY-HSQC (30), 15N-edited NOESY-HSQC, and NOESY (31) spectra. The mixing time was 60 ms for all NOESY experiments. The distance restraints were grouped into four classes: 1.8-2.7, 1.8-3.3, 1.8-5.0, and 1.8-6.0 Å, corresponding to strong, medium, weak, and very weak NOE cross-peak intensities, respectively. The NOEs including backbone amide protons were grouped into the four classes of 1.8-2.9, 1.8-3.5, 1.8-5.0, and 1.8-6.0 Å. The backbone coupling constants, 3JNHalpha , were measured in a HNHA experiment. The phi  and psi -dihedral angle restraints were derived from 3JNHalpha coupling constants and chemical shift indices. Values of -60 ± 30° and -40 ± 30° were used for the phi  and psi -dihedral angles, respectively, for alpha -helical regions. Hydrogen bond restraints were obtained by analyzing the H/D exchange rates and NOE patterns characteristic of alpha -helices. Two distance restraints, rNH-O (0-2.3 Å) and rN-O (0-3.3 Å), were used for each hydrogen bond. Structures were calculated using the YASAP protocol (32) within X-PLOR 3.1 (33). The coordinates of the quintuple mutant of PA c551 have been deposited in the Protein Data Bank, under accession number 1DVV.

Calculation of the Accessible Surface Area (ASA) and Gibbs Free Energy of Hydration for the Native State (GhN)-- ASA values were calculated using the program MSRoll (34), with a probe radius of 1.4 Å. The Protein Data Bank accession numbers for the three-dimensional structures of the native proteins were 451C and 1AYG for PA c551 and HT c552, respectively. Surfaces were classified into polar and nonpolar components by regarding carbon and sulfur atoms as nonpolar and oxygen and nitrogen as polar (35). GhN was calculated according to the method proposed by Oobatake and Ooi (36).

    RESULTS AND DISCUSSION
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS AND DISCUSSION
REFERENCES

Stability against GdnHCl Denaturation-- The far-ultraviolet CD spectrum of the quintuple mutant of PA c551 (F7A/V13M/F34Y/E43Y/V78I) was nearly identical to that of the wild type (data not shown). A GdnHCl-induced denaturation curve of the quintuple mutant obtained by CD showed that its Cm value (4.39 M) was highly elevated relative to that of the wild type (Fig. 1A and Table I) and essentially the same as that of HT c552 (Cm = 4.47 M). Since PA c551 and HT c552 exhibit a total of 35 amino acid differences, it is noteworthy that only five of these residues are responsible for the enhanced overall stability against chemical denaturation.


View larger version (15K):
[in this window]
[in a new window]
 
Fig. 1.   Stability of PA c551 and HT c552 measured by CD. A, chemical denaturation curves induced by GdnHCl measured by CD. The data are plotted as a function of the GdnHCl concentration for the wild-type PA c551 (), the quintuple mutant PA c551 (open circle ), and HT c552 (black-square). B, thermal denaturation curves observed by CD. The symbols are the same as in A. The solid lines represent the results of nonlinear least-squares best fits based on methods described under "Experimental Procedures."

                              
View this table:
[in this window]
[in a new window]
 
Table I
Thermodynamic parameters characterizing GdnHCl and thermal denaturations
Cm, Delta Hm, and other values were obtained in GdnHCl and thermal denaturation experiments, respectively. Delta H, Delta S, and Delta Delta G are the values at Tm of the wild-type PA c551 (47.3 °C) estimated from DSC measurements. The hypothetical difference in the free energy change (Delta Delta Ghyp) of the quintuple mutant at the Tm of wild-type PA c551 is the sum of the Delta Delta G values of the PA c551 mutants having the F7A/V13M, F34Y/E43Y, and V78I substitutions. Delta Hm is the calorimetric enthalpy change at Tm of each protein. Delta Hvan is the van't Hoff enthalpy derived from CD measurements. Errors are estimated from three independent measurements.

Stability against Thermal Denaturation-- To address the question of how both the quintuple mutant PA c551 and HT c552 are thermodynamically stabilized, we performed thermal denaturation experiments using CD and DSC. Fig. 1B shows thermal denaturation curves of the quintuple mutant and HT c552 together with the wild-type PA c551 observed by CD. The Delta Hvan values estimated from CD measurements for the three proteins were almost identical to the calorimetric enthalpy change at the denaturation temperature (Tm), Delta Hm, obtained from DSC measurements (see below and Table I), indicating that thermal denaturation of these proteins proceeded in a two-state manner.

Fig. 2A shows the heat capacity curves of the three proteins measured by DSC. From these curves, thermodynamic parameters were obtained as a function of temperature. We further obtained the Delta CP value of the wild-type PA c551 from Tm-dependent Delta H(Tm) measurements at pH 3.6, 3.8, and 4.0 in the absence of GdnHCl (Fig. 2, B and C) (37). The Delta CP value obtained from the Tm-dependent Delta H value was 781 cal/mol/K, which was close to that obtained on nonlinear fitting of the CP curve at pH 5.0 in the presence of 1.5 M GdnHCl (720 cal/mol/K; Table I). These results indicate that the Delta CP values obtained in this study are reliable ones. It has also been reported that the Delta CP values do not dramatically change in the presence of GdnHCl up to 2.0 M (38).


View larger version (11K):
[in this window]
[in a new window]
 
Fig. 2.   DSC analysis of PA c551 and HT c552. A, molar heat capacity curves in the presence of 1.5 M GdnHCl observed by DSC for the wild-type PA c551 (), the quintuple mutant PA c551 (open circle ), and HT c552 (black-square). The solid lines represent the results of nonlinear least-squares best fits based on the two-state model. B, heat capacity curves for wild-type PA c551 at pH 3.6 (), 3.8 (open circle ), and 4.0 (black-square). C, enthalpy change of denaturation measured at different pH values versus the corresponding denaturation temperature.

The DSC measurements (Fig. 2A) showed that the quintuple mutant had an increased Tm value of 32.9 °C and enhanced thermodynamic stability (Delta Delta G) of 5.86 kcal/mol at the Tm value of wild-type PA c551 (Table I). These values were nearly the same as those of HT c552. The quintuple mutant exhibited a large increase in Delta H compared with the wild-type PA c551 (Table I), suggesting that the mutant was enthalpically stabilized. In contrast, HT c552 was stabilized by a small Delta S rather than by an enthalpic factor (Table I). This is obvious from the heat capacity curve (Fig. 2A), since the peak height and area (nearly representing Delta Hm) of HT c552 were smaller than those of the quintuple mutant although their Tm values were nearly the same. These results suggest that the enhanced Tm values of HT c552 and the quintuple mutant are mainly due to the five residues (Ala-7, Met-13, Tyr-34, Tyr-43, and Ile-78, numbered as in the quintuple mutant of PA c551); however, the stabilizing factors differ in the two stable proteins.

Additivity of Thermal Stabilization-- We estimated Delta Delta G values for the reported PA c551 mutants (1) having F7A/V13M, F34Y/E43Y, and V78I substitutions, respectively, by DSC measurements (data not shown). The estimated values were as follows: F7A/V13M, 2.39; F34Y/E43Y, 2.52; and V78I, 0.82 kcal/mol. The Delta Delta G value of the quintuple mutant obtained in this study was almost identical to the value for the hypothetical difference in free energy change, Delta Delta Ghyp, i.e. the sum of the Delta Delta G values for the mutant proteins with the F7A/V13M, F34Y/E43Y, and V78I substitutions, respectively (Table I). This indicates that the mutations in each of the three regions contribute in an additive manner to the enhanced overall stability. The three mutated regions in the quintuple mutant do not interact with each other; thus, they may behave independently without nonlocal structural perturbations.

Structure of the Quintuple Mutant Protein-- We next determined the solution structure of the quintuple mutant PA c551 protein using 1545 NOE-based distance restraints (comprising 592 intraresidue and intraheme, 300 sequential, 257 medium range, 396 long range including NOEs between the heme and polypeptide chain), supplemented with 102 dihedral and 46 hydrogen bond restraints (Fig. 3A). The best 20 structures for the quintuple mutant satisfied the experimental constraints with small deviations from the idealized covalent geometry (Table II). The stereochemical quality of the 20 structures was determined using PROCHECK-NMR (39). Ignoring all glycines and prolines, 98.5% of the remaining residues fell into the most favored and additional allowed regions of phi  and phi spaces. The average atomic root mean square (r.m.s.) deviations for heavy atoms of residues 3-80 were 0.40 ± 0.06 Å for the main chain atoms and 0.84 ± 0.05 Å for all atoms. These values indicate that the determined structures were well converged and that the restrained energy-minimized structure could be used as a representative for comparison with those of the wild-type PA c551 and HT c552. The main chain folding of the quintuple mutant was similar to those of the wild-type PA c551 and HT c552 (Fig. 3B; backbone r.m.s. deviation values were 0.84 Å for residues 3-80 of the wild-type PA c551 and 0.99 Å for residues 3-78 of HT c552, respectively). This indicates that the introduction of five mutations into PA c551 does not alter the main chain folding.


View larger version (24K):
[in this window]
[in a new window]
 
Fig. 3.   Structures of the quintuple mutant and wild-type PA c551 proteins and HT c552. A, stereoview of the 20 structures of the quintuple mutant. B, schematic representation of main chain folding of the quintuple mutant (purple) overlaid with those of the wild-type PA c551 (green) and HT c552 (red).

                              
View this table:
[in this window]
[in a new window]
 
Table II
Statistics of the 20 structures of the quintuple mutant protein
< SA> represents the 20 individual structures calculated with the X-PLOR program. < SA> r is the refined structure obtained by energy minimization of the mean structure obtained by simple averaging of the coordinates of the SA structures. FNOE and Ftor were calculated using force constants of 50 kcal/mol/Å2 and 200 kcal/mol/rad2, respectively. Fvdw was calculated using a final value of 4 kcal/mol/Å2 with the van der Waals hard sphere radii set to 0.75 times those in the parameter set PARALLHSA supplied with the X-PLOR program.

Structure Comparison between HT c552 and the Quintuple Mutant-- The structure of the quintuple mutant showed that the side chains of the introduced Ala-7 and Met-13 filled a small cavity found in the wild-type (Fig. 4A). The F7A/V13M mutations in this region also changed the Ile-18 side chain conformation to the favorable gauche plus form from the wild-type gauche minus one (Fig. 4A). The r.m.s. deviation value for the Ala-7, Met-13, Tyr-27, and Trp-77 heavy chain atoms and the residues 5-20, 25-29, and 75-79 main chain atoms was 1.28 Å when these atoms were superimposed on the corresponding atoms of HT c552.


View larger version (69K):
[in this window]
[in a new window]
 
Fig. 4.   Comparison of the side chain packing around the mutation sites in the quintuple mutant and the corresponding regions in the wild-type PA c551 and HT c552. Amino acids mentioned throughout are designated with a one-letter code. Residues in HT c552 are shown with the numbering used for those in PA c551. The mutated side chains of the quintuple mutant and the corresponding ones of the wild-type PA c551 and HT c552 are colored purple, green, and red, respectively. A, the hydrophobic region around Phe-7 and Val-13 of the wild-type PA c551 and the corresponding regions in the quintuple mutant and HT c552. B, the loop and half of the third helix region from Phe-34 to Leu-44 of the wild-type PA c551 and the corresponding regions in the quintuple mutant and HT c552. C, the internal hydrophobic region around Val-78 and the heme of the wild type and the corresponding regions in the quintuple mutant and HT c552.

The two introduced Tyr-34 and Tyr-43 aromatic side chains in the quintuple mutant were adjacent, as found in HT c552, and suggested to undergo a hydrophobic interaction and/or pi -pi interaction with one another (Fig. 4B). The r.m.s. deviation value for the heavy atoms of the introduced Tyr-34 and Tyr-43 and the main chain atoms of residues 34-44 in the quintuple mutant was 0.91 Å when these atoms were superimposed on the corresponding atoms of HT c552. Molecular modeling of PA c551 with the F34Y mutation predicts that the eta  oxygen atom of the introduced Tyr-34 forms a hydrogen bond with the guanidyl base of Arg-47; this was also indicated by our previous thermodynamic analysis (1). However, it was not clear from the NMR data whether an extra hydrogen bond exists in the quintuple mutant, because the guanidyl base of Arg-47 in the mutant was not well defined in the NMR structure.

The mutant structure also showed that the introduced Ile-78 filled a cavity around the heme, which was found in the wild-type (Fig. 4C). The r.m.s. deviation value for the Ile-48, Leu-74, Ile-78, and heme heavy atoms and residues 72-80 main chain atoms in the quintuple mutant was 0.91 Å when these atoms were superimposed on the corresponding atoms of HT c552.

These comparisons of side chain interactions in the three mutated regions of the three proteins clearly showed that the regions in the quintuple mutant became more like those in HT c552.

Difference in Accessible Surface Area-- We further evaluated, using the structural data, the effects of the five mutations in the three regions on the total ASA (accessible surface area). The quintuple mutant and HT c552 in their native states had larger ASA values compared with that of the wild-type PA c551; this was due to the larger polar ASA (ASApol) value in both cases (Table III). Thus, undefined hydrophilic and polar groups may be more exposed to the solvent. Consequently, the quintuple mutant and HT c552 in the native states exhibited greater negative GhN compared with the wild-type PA c551. The negative GhN values for these two proteins may contribute to the enhanced stability, which is consistent with the results of recent statistical analyses of proteins from thermophiles (40).

                              
View this table:
[in this window]
[in a new window]
 
Table III
Accessible surface area and hydration free energy
Delta GhN was calculated at 298 K.

Conclusion-- Our successful design of a mesophilic protein is, to the best of our knowledge, the first example of protein stabilization to the level of a natural thermophilic counterpart by means of limited amino acid substitutions (2, 41, 42). The formation of extra side chain interactions and exposure of hydrophilic and polar groups of the quintuple PA c551 mutant caused the overall elevated stability, which was partly reflected by the increased enthalpy change. The stabilizing strategy for the mutant differed from that in the case of the cold shock protein (43), in which the protein stabilization was mainly achieved through improvement of the electrostatic interaction on the molecular surface.

Our way of carefully comparing the structures of thermophilic and mesophilic homologous proteins and combining selected mutations is valuable for elucidating the relationship between local side chain interactions and overall protein stability. Now that this has been achieved for the first time, it will be worthwhile exploring the possibility of altering other proteins, especially those of industrial and medical interest, in the same manner.

    ACKNOWLEDGEMENTS

We thank R. Muhandirum and L. E. Kay for the pulse sequences and S. J. Ferguson for critical reading of the manuscript.

    FOOTNOTES

* This work was supported by a grant from the Japanese Ministry of Education, Science and Culture.The costs of publication of this article were defrayed in part by the payment of page charges. The article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact.

The atomic coordinates and the structure factors (code 1DVV) have been deposited in the Protein Data Bank, Research Collaboratory for Structural Bioinformatics, Rutgers University, New Brunswick, NJ (http://www.rcsb.org/).

§ To whom correspondence and requests for reprints may be addressed. Tel.: 81-3-3680-0151; Fax: 81-3-5696-8336; E-mail: haseg7li@ daiichipharm.co.jp.

These authors contributed equally to this work.

§§ To whom correspondence and reprint requests may be addressed. E-mail: sambongi@sanken.osaka-u.ac.jp.

Published, JBC Papers in Press, July 28, 2000, DOI 10.1074/jbc.M005861200

    ABBREVIATIONS

The abbreviations used are: PA c551, ferrocytochrome c551 from P. aeruginosa; HT c552, ferrocytochrome c552 from H. thermophilus; GdnHCl, guanidine hydrochloride; HSQC, heteronuclear single quantum correlation; NOESY, nuclear Overhauser effect spectroscopy; DQF-COSY, double quantum-filtered correlation spectroscopy; DSC, differential scanning calorimetry; ASA, accessible surface area; r.m.s., root mean square.

    REFERENCES
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS AND DISCUSSION
REFERENCES

1. Hasegawa, J., Shimahara, H., Mizutani, M., Uchiyama, S., Arai, H., Ishii, M., Kobayashi, Y., Ferguson, S. J., Sambongi, Y., and Igarashi, Y. (1999) J. Biol. Chem. 274, 37533-37537
2. Bogin, O., Peretz, M., Hacham, Y., Korkhin, Y., Frolow, F., Kalb (Gilboa), A. J., and Burstein, Y. (1998) Protein Sci. 7, 1156-1163
3. Vetriani, C., Maeder, D. L., Tolliday, N., Yip, K. S., Stillman, T. J., Britton, K. L., Rice, D. W., Klump, H. H., and Robb, F. T. (1998) Proc. Natl. Acad. Sci. U. S. A. 95, 12300-12305
4. Hollien, J., and Marqusee, S. (1999) Proc. Natl. Acad. Sci. U. S. A. 96, 13674-13678
5. Jaenicke, R., and Bohm, G. (1998) Curr. Opin. Struct. Biol. 8, 738-748
6. Eidsness, M. K., Richie, K. A., Burden, A. E., Kurtz, D. M., Jr., and Scott, R. A. (1997) Biochemistry 36, 10406-10413
7. Sambongi, Y., Stoll, R., and Ferguson, S. J. (1996) Mol. Microbiol. 19, 1193-1204
8. Sanbongi, Y., Ishii, M., Igarashi, Y., and Kodama, T. (1989) J. Bacteriol. 171, 65-69
9. Hasegawa, J., Yoshida, T., Yamazaki, T., Sambongi, Y., Yu, Y., Igarashi, Y., Kodama, T., Yamazaki, K., Kyogoku, Y., and Kobayashi, Y. (1998) Biochemistry 37, 9641-9649
10. Sanbongi, Y., Igarashi, Y., and Kodama, T. (1989) Biochemistry 28, 9574-9578
11. Matsuura, Y., Takano, T., and Dickerson, R. E. (1982) J. Mol. Biol. 156, 389-409
12. Santoro, M. M., and Bolen, B. W. (1988) Biochemistry 27, 8063-8068
13. Marky, L., and Breslauer, K. (1987) Biopolymers 26, 1601-1620
14. Plotnikov, V. V., Brandts, J. M., Lin, L.-N., and Brandts, J. F. (1997) Anal. Biochem. 250, 237-244
15. Freire, E. (1994) Methods Enzymol. 240, 502-529
16. Sturtevant, J. M. (1987) Annu. Rev. Phys. Chem. 38, 463-488
17. Wittekind, M., and Mueller, L. (1993) J. Magn. Reson. 101, 201-205
18. Grzesiek, A., and Bax, A. (1992) J. Am. Chem. Soc. 114, 6291-6293
19. Kay, L. E., Ikura, M., Tschudin, R., and Bax, A. (1990) J. Magn. Reson. 89, 496-514
20. Kay, L. E. (1993) J. Am. Chem. Soc. 115, 2055-2057
21. Vuister, G. W., and Bax, A. (1993) J. Am. Chem. Soc. 115, 7772-7777
22. Kay, L. E., Xu, G-Y., Singer, A. U., Muhandiram, D. R., and Forman-Kay, J. D. (1993) J. Magn. Reson. B 101, 333-337
23. Archer, S. J., Ikura, M., Torchia, D. A., and Bax, A. (1991) J. Magn. Reson. 95, 636-641
24. Zhang, O., Kay, L. E., Olivier, J. P., and Forman-Kay, J. D. (1994) J. Biomol. NMR 4, 845-858
25. Rance, M., Sørensen, O. W., Bodenhausen, G., Wagner, G., Ernst, R. R., and Wüthrich, K. (1983) Biochem. Biophys. Res. Commun. 117, 479-485
26. Keller, R. M., and Wüthrich, K. (1978) Biochim. Biophys. Acta 533, 195-208
27. Vuister, G., and Bax, A. (1992) J. Magn. Reson. 98, 428-435
28. Delaglio, F., Grzesiek, S., Vuister, G. W., Zhu, G, Pfeifer, J., and Bax, A. (1995) J. Biomol. NMR 6, 277-293
29. Garret, D. S., Powers, R., Gronenborn, A. M., and Clore, G. M. (1991) J. Magn. Reson. 95, 214-220
30. Pascal, S. M., Muhandiran, D. R., Yamazaki, T., Forman-Kay, J. D., and Kay, L. E. (1994) J. Magn. Reson. B 103, 197-201
31. Macura, S., and Ernst, R. R. (1980) Mol. Phys. 41, 95-117
32. Nilges, M., Gronenborn, A. M., Brünger, A. T., and Clore, G. M. (1988) Protein Eng. 2, 27-38
33. Brünger, A. T. (1993) X-PLOR Version 3.1: A System for X-ray Crystallography and NMR , Yale University Press, New Haven, CT
34. Connolly, M. L. (1983) J. Appl. Crystallogr. 16, 548-558
35. Richards, F. M. (1977) Annu. Rev. Biophys. Bioeng. 6, 151-176
36. Oobatake, M., and Ooi, T. (1993) Prog. Biophys. Molec. Biol. 59, 237-284
37. Privalov, P. (1979) Adv. Protein Chem. 33, 167-241
38. Makhatadze, G. I., and Privalov, P. L. (1992) J. Mol. Biol. 226, 491-505
39. Laskowski, R. A., Rullmannn, J. A., MacArthur, M. W., Kaptein, R., and Thornton, J. M. (1996) J. Biomol. NMR 8, 477-486
40. Gromiha, M. M., Oobatake, M., and Sarai, A. (1999) Biophys. Chem. 82, 51-67
41. Serrano, L., Day, A. G., and Fersht, A. (1993) J. Mol. Biol. 233, 305-312
42. Malakauskas, S. M., and Mayo, S. L. (1998) Nat. Struct. Biol. 5, 470-475
43. Perl, D., Mueller, U., Heinemann, U., and Schmid, F. X. (2000) Nat. Struct. Biol. 7, 380-383


Copyright © 2000 by The American Society for Biochemistry and Molecular Biology, Inc.
Add to CiteULike CiteULike   Add to Complore Complore   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us   Add to Digg Digg   Add to Reddit Reddit   Add to Technorati Technorati    What's this?


This article has been cited by other articles:


Home page
J. Biol. Chem.Home page
A. Borgia, D. Bonivento, C. Travaglini-Allocatelli, A. Di Matteo, and M. Brunori
Unveiling a Hidden Folding Intermediate in c-Type Cytochromes by Protein Engineering
J. Biol. Chem., April 7, 2006; 281(14): 9331 - 9336.
[Abstract] [Full Text] [PDF]


Home page
J. Biol. Chem.Home page
C. Travaglini-Allocatelli, S. Gianni, V. K. Dubey, A. Borgia, A. Di Matteo, D. Bonivento, F. Cutruzzola, K. L. Bren, and M. Brunori
An Obligatory Intermediate in the Folding Pathway of Cytochrome c552 from Hydrogenobacter thermophilus
J. Biol. Chem., July 8, 2005; 280(27): 25729 - 25734.
[Abstract] [Full Text] [PDF]


Home page
J. Biol. Chem.Home page
K. Oikawa, S. Nakamura, T. Sonoyama, A. Ohshima, Y. Kobayashi, S.-i. J. Takayama, Y. Yamamoto, S. Uchiyama, J. Hasegawa, and Y. Sambongi
Five Amino Acid Residues Responsible for the High Stability of Hydrogenobacter thermophilus Cytochrome c552: RECIPROCAL MUTATION ANALYSIS
J. Biol. Chem., February 18, 2005; 280(7): 5527 - 5532.
[Abstract] [Full Text] [PDF]


Home page
Protein Eng Des SelHome page
A. Mozo-Villarias, J. Cedano, and E. Querol
A simple electrostatic criterion for predicting the thermal stability of proteins
Protein Eng. Des. Sel., April 1, 2003; 16(4): 279 - 286.
[Abstract] [Full Text] [PDF]


Home page
Protein Eng Des SelHome page
S. Uchiyama, J. Hasegawa, Y. Tanimoto, H. Moriguchi, M. Mizutani, Y. Igarashi, Y. Sambongi, and Y. Kobayashi
Thermodynamic characterization of variants of mesophilic cytochrome c and its thermophilic counterpart
Protein Eng. Des. Sel., June 1, 2002; 15(6): 455 - 461.
[Abstract] [Full Text] [PDF]


Home page
J. Biol. Chem.Home page
R. Wain, T. A. Pertinhez, E. J. Tomlinson, L. Hong, C. M. Dobson, S. J. Ferguson, and L. J. Smith
The Cytochrome c Fold Can Be Attained from a Compact Apo State by Occupancy of a Nascent Heme Binding Site
J. Biol. Chem., November 30, 2001; 276(49): 45813 - 45817.
[Abstract] [Full Text] [PDF]


This Article
Right arrow Abstract Freely available
Right arrow Full Text (PDF)
Right arrow All Versions of this Article:
275/48/37824    most recent
M005861200v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Right arrow Citation Map
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrow reprints & permissions
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Hasegawa, J.
Right arrow Articles by Igarashi, Y.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Hasegawa, J.
Right arrow Articles by Igarashi, Y.
Social Bookmarking
 Add to CiteULike   Add to Complore   Add to Connotea   Add to Del.icio.us   Add to Digg   Add to Reddit   Add to Technorati  
What's this?


HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
 All ASBMB Journals   Molecular and Cellular Proteomics 
 Journal of Lipid Research   ASBMB Today 
Copyright © 2000 by the American Society for Biochemistry and Molecular Biology.