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1.
Biochemistry ; 40(41): 12329-38, 2001 Oct 16.
Article in English | MEDLINE | ID: mdl-11591152

ABSTRACT

We investigated the characteristics of CRP having amino acid substitutions at position 99. Analysis of amino acid residue proximity to cAMP in molecular dynamics (MD) simulations of the CRP:(cAMP)(2) complex [García, A. E., and Harman, J. G. (1996) Protein Sci. 5, 62-71] showed repositioning of tyrosine 99 (Y99) to interact with the equatorial exocyclic oxygen atom of cAMP. To test the role of Y99 in cAMP-mediated CRP activation, Y99 was substituted with alanine (A) or phenylalanine (F). Cells that contained the WT or mutant forms of CRP induced beta-galactosidase in the presence of cAMP. Purified WT, Y99A, and Y99F CRP showed only a 3- to 4-fold difference in cAMP affinity. There were no apparent differences between the three forms of CRP in cAMP binding cooperativity, in CRP:(cAMP)(1) complex binding to lacP DNA, in the formation of CRP:cAMP:RNAP complexes at lacP, or in CRP efficacy in mediating lacP activity in vitro. The apo-form of Y99A CRP was more sensitive to protease than the apo-form of either WT CRP or Y99F CRP. Whereas the WT or Y99F CRP:(cAMP)(1) complexes were cleaved by protease at hinge-region peptide bonds, the Y99A CRP:(cAMP)(1) complex was cleaved at peptide bonds located at the subunit interface. The rates of subunit exchange for Y99A CRP, both in the apo-form and in a 1:1 complex with cAMP, were significantly greater than that measured for WT CRP. The results of this study show that tyrosine 99 contributes significant structural stability to the CRP dimer, specifically in stabilizing subunit association.


Subject(s)
Cyclic AMP Receptor Protein/chemistry , Amino Acid Sequence , Amino Acid Substitution , Base Sequence , Binding Sites , Cyclic AMP/chemistry , Cyclic AMP/metabolism , Cyclic AMP Receptor Protein/genetics , Cyclic AMP Receptor Protein/metabolism , DNA, Bacterial/metabolism , Dimerization , Escherichia coli/genetics , Escherichia coli/metabolism , Models, Molecular , Mutagenesis, Site-Directed , Protein Subunits , Thermodynamics
2.
Biochim Biophys Acta ; 1547(1): 1-17, 2001 May 05.
Article in English | MEDLINE | ID: mdl-11343786

ABSTRACT

The cyclic AMP receptor protein (CRP) of Escherichia coli is a dimer made up of identical subunits. Each CRP subunit contains a cyclic nucleotide binding pocket and the CRP dimer exhibits negative cooperativity in binding cAMP. In solutions containing cAMP, CRP undergoes sequential conformation changes from the inactive apo-form through the active CRP:(cAMP)(1) complex to the less active CRP:(cAMP)(2) complex depending on the cAMP concentration. Apo-CRP binds DNA with low affinity and no apparent sequence specificity. The CRP:(cAMP)(1) complex exhibits high affinity, sequence-specific DNA binding and interacts with RNA polymerase, whether free in solution or complexed with DNA. The results of genetic, biochemical and biophysical studies have helped to uncover many of the details of cAMP-mediated allosteric control over CRP conformation and activity as a transcription factor. These studies indicate that cAMP binding produces only small, but significant, changes in CRP structure; changes that include subunit realignment and concerted motion of the secondary structure elements within the C-terminal DNA binding domain of each subunit. These adjustments promote CRP surface-patch interaction with RNA polymerase and protrusion of the F-helix to promote CRP site-specific interaction with DNA. Interactions between CRP and RNA polymerase at CRP-dependent promoters produce active ternary transcription complexes.


Subject(s)
Cyclic AMP/chemistry , Protein Conformation , Receptors, Cyclic AMP/chemistry , Allosteric Regulation , Binding Sites , DNA-Directed RNA Polymerases/chemistry , Escherichia coli , Magnetic Resonance Spectroscopy , Models, Molecular , Mutation , Receptors, Cyclic AMP/genetics
3.
Biochemistry ; 38(19): 6222-30, 1999 May 11.
Article in English | MEDLINE | ID: mdl-10320351

ABSTRACT

The lacP DNA binding and activation characteristics of CRP having amino acid substitutions at position 127 were investigated. Wild-type (WT) and T127C CRP footprinted lacP DNA in the presence of DNase I in a cAMP-dependent manner. The T127G, T127I, and T127S forms of CRP failed to footprint lacP both in the absence and in the presence of cAMP. Consistent with these data, WT and T127C CRP:cAMP complexes exhibited high affinity for the lacP CRP site whereas T127G, T127I, or T127S CRP:cAMP complexes exhibited low affinity for the lacP CRP site. CRP:cAMP:RNA polymerase (RNAP) complexes formed at lacP in reactions that contained WT, T127C, T127G, T127I, or T127S CRP. These results demonstrate that allosteric changes important for cAMP-mediated CRP activation are differentially affected by amino acid substitution at position 127. Proper cAMP-mediated reorientation of the DNA binding helices required either threonine or cysteine at position 127. However, cAMP-dependent interaction of CRP with RNAP was accomplished regardless of the amino acid at position 127. RNAP:lacP complexes that supported high-level lac RNA synthesis formed rapidly in reactions that contained WT or T127C CRP whereas RNAP:lacP complexes that supported only low-level lac RNA synthesis formed at slower rates in reactions that contained T127I or T127S CRP. The T127G CRP:cAMP:RNAP:lacP complex failed to activate lacP. The results of this study lead us to conclude that threonine 127 plays an important role in transduction of the signal from the CRP cyclic nucleotide binding pocket that promotes proper orientation of the DNA binding helices and only a minor, if any, role in the functional exposure of the CRP RNAP interaction domain.


Subject(s)
Cyclic AMP Receptor Protein/metabolism , Cyclic AMP/metabolism , DNA, Bacterial/metabolism , DNA-Directed RNA Polymerases/metabolism , Amino Acid Substitution , Carrier Proteins , Cyclic AMP Receptor Protein/genetics , Cyclic AMP Receptor Protein/isolation & purification , DNA Footprinting , DNA, Bacterial/chemistry , DNA, Bacterial/isolation & purification , DNA-Directed RNA Polymerases/isolation & purification , Escherichia coli/metabolism , Mutation , Nucleic Acid Conformation , Threonine/metabolism
4.
Mol Cells ; 7(3): 444-7, 1997 Jun 30.
Article in English | MEDLINE | ID: mdl-9264036

ABSTRACT

Changes in DNA structure induced by cAMP receptor protein (CRP) binding to the lac-control region contained on a 231 bp fragment were investigated by measurement of the molar cyclization factor (jM). Increases in jM were observed at low to moderate CRP: cAMP complex concentrations and correlated with CRP binding to the promoter-proximal CRP binding site. At CRP:cAMP complex concentrations greater than 200 nM, decreases in jM correlated with CRP binding to both the promoter-proximal and the operator-proximal CRP binding sites. These results show that binding of the CRP:cAMP complex to the operator-proximal CRP binding site induces a structural change in lac DNA.


Subject(s)
Cyclic AMP Receptor Protein/metabolism , Cyclic AMP/metabolism , DNA, Bacterial/genetics , DNA, Bacterial/metabolism , Lac Operon , Binding Sites/genetics , DNA, Bacterial/chemistry , Escherichia coli/genetics , Escherichia coli/metabolism , Molecular Structure , Promoter Regions, Genetic
5.
Lipids ; 31(4): 373-7, 1996 Apr.
Article in English | MEDLINE | ID: mdl-8743048

ABSTRACT

The ERG6 gene from Saccharomyces cerevisiae has been functionally expressed in Escherichia coli, for the first time, yielding a protein that catalyzes the bisubstrate transfer reaction whereby the reactive methyl group from (S)-adenosyl-L-methionine is transferred stereoselectively to C-24 of the sterol side chain. The structural requirements of sterol in binding and catalysis were similar to the native protein from S. cerevisiae. Inhibition of biomethylation was observed with fecosterol and ergosterol which suggests that ergosterol may function in wild-type yeast as feedback regulator of sterol biosynthesis.


Subject(s)
Methyltransferases/metabolism , Saccharomyces cerevisiae/enzymology , Sterols/metabolism , Amino Acid Sequence , Base Sequence , Catalysis , Chromatography, High Pressure Liquid , Cloning, Molecular , Escherichia coli/metabolism , Genes, Fungal , Kinetics , Methyltransferases/biosynthesis , Molecular Sequence Data , Open Reading Frames , Plasmids , RNA, Messenger/biosynthesis , RNA, Messenger/chemistry , Recombinant Proteins/biosynthesis , Recombinant Proteins/metabolism , Restriction Mapping , Saccharomyces cerevisiae/genetics , Substrate Specificity
6.
Protein Sci ; 5(1): 62-71, 1996 Jan.
Article in English | MEDLINE | ID: mdl-8771197

ABSTRACT

The CRP:cAMP complex functions as a transcription factor that facilitates RNA polymerase recognition of several bacterial promoters. Detailed crystal structure information is available for CRP:(cAMP)2 and for CRP:(cAMP)2 complexed with DNA. In the crystalline environment, CRP:(cAMP)2 subunits are asymmetrically related; one subunit has a closed conformation and the other has an open conformation. The CRP:(cAMP)2 complexed with DNA shows both subunits in a closed conformation. We have studied the molecular dynamics of CRP:(cAMP)2 in noncrystalline environments. CRP:(cAMP)2 was simulated for 625 ps in vacuo and for 140 ps in solution. The crystal structure of CRP:(cAMP)2 in the absence of DNA was used as the initial conformation. Molecule optimal dynamic coordinates (MODCs) (García A, 1992, Phys Rev Lett 68:2696) were used to analyze protein conformations sampled during the course of the simulations. Two MODCs define a transition of the open subunit to a closed subunit conformation during the first 125 ps of simulation in vacuo; the resulting subunit conformation is similar to that observed in CRP:(cAMP)2:DNA crystals. Simulation of CRP:(cAMP)2 in solution showed that a transition from the open to the closed state also occurs when water is explicitly included in the calculations. These calculations suggest that the asymmetric conformation of CRP:(cAMP)2 is stabilized by crystal lattice interactions. The predicted solution conformation is more symmetric, with both subunits in a closed conformation.


Subject(s)
Cyclic AMP Receptor Protein/chemistry , Adenosine Monophosphate/chemistry , DNA/chemistry , Protein Conformation
7.
J Rheumatol ; 22(9): 1631-5, 1995 Sep.
Article in English | MEDLINE | ID: mdl-8523335

ABSTRACT

OBJECTIVE: To determine the effectiveness of intrasynovial triamcinolone hexacetonide coupled with joint rest (3 weeks upper extremity; 6 weeks lower extremity) in the treatment of joint and tendon sheath inflammation in patients with seropositive rheumatoid arthritis (RA). METHODS: The medical records of 169 patients with seropositive RA treated by a single rheumatologist for at least one year between 1974 and 1992 were abstracted. RESULTS: Nine hundred fifty-six injections were given to 140 patients; approximately 75% of injected synovial structures remained in remission during a mean followup 7 years; 218 injections were given into previously treated structures. The injection rate was about 2 per patient in the first year, half of which were given at the time of the first visit. The rate then approximated 0.6 injections per patient-year for the next 15 years. Joints in the right upper extremity were injected significantly (p = 0.01) more frequently than those on the left. CONCLUSION: Intrasynovial triamcinolone hexacetonide followed by rest is a very useful adjunctive modality in the treatment of seropositive rheumatoid arthritis.


Subject(s)
Anti-Inflammatory Agents/administration & dosage , Arthritis, Rheumatoid/drug therapy , Triamcinolone Acetonide/analogs & derivatives , Anti-Inflammatory Agents/adverse effects , Bed Rest , Combined Modality Therapy , Follow-Up Studies , Humans , Injections, Intra-Articular , Remission Induction , Treatment Outcome , Triamcinolone Acetonide/administration & dosage , Triamcinolone Acetonide/adverse effects
8.
J Rheumatol ; 22(9): 1636-45, 1995 Sep.
Article in English | MEDLINE | ID: mdl-8523336

ABSTRACT

OBJECTIVE: To determine the longterm morbidity and mortality in a cohort of 169 patients with seropositive rheumatoid arthritis (RA) treated by a single rheumatologist with remittive agents used in combination. The effectiveness of a regimen combining pulse oral methotrexate, azathioprine and an antimalarial drug (MAH) was examined in detail. METHODS: All outpatient visits by patients followed for at least one year and up to 18 years (mean 7 years) were abstracted. Remittive antirheumatic drugs were used in combination to achieve progressive improvement. Univariate and multivariate analyses of the differences between first and last visit results in 9 process or outcome variables were calculated for the entire cohort, for those patients receiving or not receiving MAH at last visit, and for those patients taking methotrexate but not in combination with both azathioprine and an antimalarial. The numbers of patients in remission (Lansbury articular index zero), and near remission (articular index < 6) were determined for each of these groups. A survival curve was calculated. RESULTS: The entire patient cohort showed improvement in every variable except hemoglobin at the time of the last visit (p < 0.0004). On multivariate analysis MAH patients were improved only in American Rheumatism Association functional class compared to the other groups (p < 0.0001). Remission and near remission rates overall were 43 and 61%; for MAH patients 45 and 69% (p = n.s.). Survival was no different from that of the general population. Herpes zoster (17 patients) and second attacks of varicella (2 patients) were the most striking side effects. Prednisone use was reduced from 34 to 19% of patients and the mean daily dose was lowered from 9.3 to 5.9 mg. CONCLUSION: Combination therapy with multiple antirheumatic agents successfully controlled joint inflammation in 167 of 169 patients with seropositive RA; complete remission was achieved in 43% of patients. Survival of this patient cohort did not differ from that of the general population.


Subject(s)
Antimalarials/administration & dosage , Antirheumatic Agents/administration & dosage , Arthritis, Rheumatoid/drug therapy , Azathioprine/administration & dosage , Immunosuppressive Agents/administration & dosage , Methotrexate/administration & dosage , Administration, Oral , Adult , Aged , Arthritis, Rheumatoid/complications , Arthritis, Rheumatoid/mortality , Cohort Studies , Drug Therapy, Combination , Female , Humans , Male , Middle Aged , Remission Induction , Survival Rate , Treatment Outcome
9.
Nucleic Acids Res ; 22(15): 2894-901, 1994 Aug 11.
Article in English | MEDLINE | ID: mdl-8065899

ABSTRACT

The cyclic 3', 5' adenosine monophosphate (cAMP) binding pocket of the cAMP receptor protein (CRP) of Escherichia coli was mutagenized to substitute cysteine or glycine for serine 83; cysteine, glycine, isoleucine, or serine for threonine 127; and threonine or alanine for serine 128. Cells that expressed the binding pocket residue-substituted forms of CRP were characterized by measurements of beta-galactosidase activity. Purified wild-type and mutant CRP preparations were characterized by measurement of cAMP binding activity and by their capacity to support lacP activation in vitro. CRP structure was assessed by measurement of sensitivity to protease and DTNB-mediated subunit crosslinking. The results of this study show that cAMP interactions with serine 83, threonine 127 and serine 128 contribute to CRP activation and have little effect on cAMP binding. Amino acid substitutions that introduce hydrophobic amino acid side chain constituents at either position 127 or 128 decrease CRP discrimination of cAMP and cGMP. Finally, cAMP-induced CRP structural change(s) that occur in or near the CRP hinge region result from cAMP interaction with threonine 127; substitution of threonine 127 by cysteine, glycine, isoleucine, or serine produced forms of CRP that contained, independently of cAMP binding, structural changes similar to those of the wild-type CRP:cAMP complex.


Subject(s)
Escherichia coli/chemistry , Mutagenesis , Receptors, Cyclic AMP/genetics , Base Sequence , Binding Sites , Cross-Linking Reagents , Cyclic AMP/metabolism , Cyclic AMP/pharmacology , Cysteine , Dithionitrobenzoic Acid , Escherichia coli/genetics , Glycine , Isoleucine , Molecular Sequence Data , Serine , Structure-Activity Relationship , Threonine , Transcription, Genetic , beta-Galactosidase/metabolism
10.
Nucleic Acids Res ; 21(8): 1827-35, 1993 Apr 25.
Article in English | MEDLINE | ID: mdl-8388097

ABSTRACT

The 3', 5' cyclic adenosine monophosphate (cAMP) binding pocket of the cAMP receptor protein (CRP) of Escherichia coli was mutagenized to substitute leucine, glutamine, or aspartate for glutamate 72; and lysine, histidine, leucine, isoleucine, or glutamine for arginine 82. Substitutions were made in wild-type CRP and in a CRP*, or cAMP-independent, form of the protein to assess the effects of the amino acid substitutions on CRP structure. Cells containing the binding pocket residue-substituted forms of CRP were characterized through beta-galactosidase activity and by measurement of cAMP binding activity. This study confirms a role for both glutamate 72 and arginine 82 in cAMP binding and activation of CRP. Glutamine or leucine substitution of glutamate 72 produced forms of CRP having low affinity for the cAMP and unresponsive to the nucleotide. Aspartate substituted for glutamate 72 produced a low affinity cAMP-responsive form of CRP. CRP has a stringent requirement for the positioning of the position 72 glutamate carboxyl group within the cyclic nucleotide binding pocket. Results of this study also indicate that there are differences in the binding requirements of cAMP and cGMP, a competitive inhibitor of cAMP binding to CRP.


Subject(s)
Escherichia coli/genetics , Receptors, Cyclic AMP/genetics , Base Sequence , Binding Sites/genetics , Cyclic AMP/metabolism , DNA, Bacterial , Molecular Sequence Data , Mutagenesis, Site-Directed , Receptors, Cyclic AMP/isolation & purification , Receptors, Cyclic AMP/metabolism , beta-Galactosidase/metabolism
11.
Microbiol Rev ; 56(1): 100-22, 1992 Mar.
Article in English | MEDLINE | ID: mdl-1315922

ABSTRACT

Cyclic AMP (cAMP) is found in a variety of prokaryotes including both eubacteria and archaebacteria. cAMP plays a role in regulating gene expression, not only for the classic inducible catabolic operons, but also for other categories. In the enteric coliforms, the effects of cAMP on gene expression are mediated through its interaction with and allosteric modification of a cAMP-binding protein (CRP). The CRP-cAMP complex subsequently binds specific DNA sequences and either activates or inhibits transcription depending upon the positioning of the complex relative to the promoter. Enteric coliforms have provided a model to explore the mechanisms involved in controlling adenylate cyclase activity, in regulating adenylate cyclase synthesis, and in performing detailed examinations of CRP-cAMP complex-regulated gene expression. This review summarizes recent work focused on elucidating the molecular mechanisms of CRP-cAMP complex-mediated processes. For other bacteria, less detail is known. cAMP has been implicated in regulating antibiotic production, phototrophic growth, and pathogenesis. A role for cAMP has been suggested in nitrogen fixation. Often the only data that support cAMP involvement in these processes includes cAMP measurement, detection of the enzymes involved in cAMP metabolism, or observed effects of high concentrations of the nucleotide on cell growth.


Subject(s)
Adenylyl Cyclases/metabolism , Bacteria/metabolism , Cyclic AMP/metabolism , Gene Expression Regulation, Bacterial , Calmodulin/metabolism , Receptors, Cyclic AMP
12.
Photosynth Res ; 32(2): 79-94, 1992 May.
Article in English | MEDLINE | ID: mdl-24408279

ABSTRACT

The three genes of the pet operon, coding, respectively, for the Rieske iron-sulfur protein, cytochrome b and cytochrome c 1 components of the cytochrome bc 1 complex in the photosynthetic bacterium Rhodospirillum rubrum have been sequenced. The amino acid sequences deduced for these three peptides from the nucleotide sequences of the genes have been confirmed, in part, by direct sequencing of portions of the three peptides separated from a sample of the purified, detergent-solubilized complex. These sequences show considerable homology with those previously obtained for the pet operons of other photosynthetic bacteria. Northern blots of R. rubrum mRNA have established that the operon is transcribed as a single polycistronic message, the start site of which has been determined by both primer extension and nuclease protection. Photosynthetic growth of R. rubrum was shown to be inhibited by antimycin A, a specific inhibitor of cytochrome bc 1 complexes, and antimycin A-resistant mutants of R. rubrum have been isolated. Preliminary results suggest that it may be possible to express the R. rubrum pet operon in a strain of the photosynthetic bacterium Rhodobacter capsulatus from which the native pet operon has been deleted.

13.
Protein Expr Purif ; 2(2-3): 151-7, 1991.
Article in English | MEDLINE | ID: mdl-1821784

ABSTRACT

We used site-directed mutagenesis to introduce both a NdeI restriction endonuclease site and an initiator codon at the junction of the leader and structural gene sequences of the metallo-beta-lactamase of Bacillus cereus 5/B/6. This construct allowed us to clone just the beta-lactamase structural gene sequence into an Escherichia coli expression vector. E. coli cells were transformed with the recombinant plasmid, the B. cereus beta-lactamase was expressed, and these E. coli cells were disrupted by sonic oscillation. When the resultant suspensions were clarified by ultracentrifugation, the B. cereus beta-lactamase represented 15% of the total protein in the supernatant. Subsequent gel filtration and ion-exchange chromatography allowed the first reported purification to homogeneity of the B. cereus beta-lactamase from E. coli with an 87% recovery and an overall yield of 17 mg of enzyme per liter of cell culture. The electrophoretic mobilities of the enzyme expressed in and purified from E. coli and the enzyme purified directly from B. cereus were identical in both native and sodium dodecyl sulfate gel electrophoreses. As with the B. cereus enzyme, Km and Vmax (using cephalosporin C as substrate) for the enzyme purified from E. coli were 0.39 mM and 1333 units/mg protein, respectively. Likewise, the Co(II)-reconstituted enzyme purified from E. coli, which retained 29% of the activity of the Zn(II) enzyme, had electronic absorption spectra with maxima at 347, 551, 617, and 646 nm with extinction coefficients of 900, 250, 173, and 150 M-1 cm-1, respectively.


Subject(s)
Bacillus cereus/enzymology , Bacillus cereus/genetics , beta-Lactamases/genetics , beta-Lactamases/isolation & purification , Base Sequence , Chromatography, Gel , Chromatography, Ion Exchange , Cloning, Molecular , DNA, Bacterial/genetics , Escherichia coli/genetics , Gene Expression , Genes, Bacterial , Kinetics , Molecular Sequence Data , Mutagenesis, Site-Directed , beta-Lactamases/metabolism
14.
Biochemistry ; 29(14): 3557-62, 1990 Apr 10.
Article in English | MEDLINE | ID: mdl-2162197

ABSTRACT

Raman spectroscopy was employed to examine the secondary structure of the cAMP receptor protein (CRP). Spectra were obtained over the range 400-1900 cm-1 from solutions of CRP and from CRP-cAMP cocrystals. The spectra of CRP dissolved in 30 mM sodium phosphate and 0.15 M NaCl buffered at either pH 6 or pH 8 or dissolved in 0.15-0.2 M NaCl at protein concentrations of 5, 15, and 30 mg/mL were examined. Estimates of the secondary structure distribution were made by analyzing the amide I region of the spectra (1630-1700 cm-1). CRP secondary structure distributions were essentially the same in either pH and at all protein concentrations examined. The amide I analyses indicated a structural distribution of 44% alpha-helix, 28% beta-strand, 18% turn, and 10% undefined for CRP in solution. Raman spectra of CRP-cAMP cocrystals differed from the spectra of CRP in solution. Some differences were assigned to interfering background bands, whereas other spectral differences were attributed to changes in CRP structure. Differences in the amide III region and in the intensity at 935 cm-1 were consistent with alterations in secondary structure. Analysis of the amide I region of the CRP-cAMP cocrystal spectrum indicated a secondary structure distribution of 37% alpha-helix, 33% beta-strand, 17% turn, and 12% undefined. This result is in agreement with a published secondary structure distribution derived from X-ray analysis of CRP-cAMP cocrystals (37% alpha-helix and 36% beta-strand).(ABSTRACT TRUNCATED AT 250 WORDS)


Subject(s)
Escherichia coli/metabolism , Amides , Cyclic AMP/metabolism , Escherichia coli/genetics , Ligands , Models, Molecular , Plasmids , Protein Conformation , Receptors, Cyclic AMP/genetics , Receptors, Cyclic AMP/isolation & purification , Spectrum Analysis, Raman/methods
15.
Biochemistry ; 28(11): 4568-74, 1989 May 30.
Article in English | MEDLINE | ID: mdl-2548582

ABSTRACT

Catabolite gene activator protein (CAP) in the presence of cAMP stimulates transcription from several operons in Escherichia coli. A cAMP-independent variant, in which Ala-144 is replaced by Thr (CAP91), is activated by analogues of cAMP, such as adenosine, which do not activate the wild-type CAP. In order to test the effect of adenosine on the structure, a crystal of CAP91 grown as a complex with cAMP was soaked in a solution of 10 mM adenosine, and X-ray diffraction data were measured to 3.5-A resolution. The difference Fourier map calculated with phases from the CAP91 structure showed significant negative density at the position of the phosphate of cAMP bound in one subunit of the CAP91 dimer. Adenosine was preferentially substituted for cAMP in the subunit in the "closed" conformation, while the cAMP-binding site of the "open" subunit was apparently still occupied by cAMP. The structure was refined by restrained least-squares methods to an R factor of 20.2%. Adenosine is not bound in exactly the same position as cAMP; instead, the 5'-OH of adenosine is in a new position that allows formation of two hydrogen bonds with Ser-83, replacing two of the three interactions of the phosphate of cAMP with Arg-82 and Ser-83.


Subject(s)
Adenosine/analysis , Cyclic AMP/analysis , Escherichia coli/genetics , Receptors, Cyclic AMP/genetics , Adenosine/pharmacology , Amino Acids/analysis , Binding Sites , Cyclic AMP/pharmacology , Cyclic AMP Receptor Protein/genetics , Electrochemistry , Molecular Structure , Phosphates/analysis , Receptors, Cyclic AMP/analysis , Transcription, Genetic/drug effects , X-Ray Diffraction
16.
J Biol Chem ; 263(17): 8072-7, 1988 Jun 15.
Article in English | MEDLINE | ID: mdl-2836410

ABSTRACT

Mutant forms (CRP*) of the Escherichia coli cAMP receptor protein (CRP) that activate CRP-dependent promoters in the absence of the normal allosteric effector (cAMP) have been described. A previous report (Harman, J. G., McKenney, K., and Peterkofsky, A. (1986) J. Biol. Chem. 261, 16332-16339) detailed the properties of three CRP* mutant proteins. One protein, 220 CRP, has amino acid substitutions at positions 127 and 170 and low CRP* activity in vivo. A second protein, 222 CRP, has the amino acid substitutions present in 220 CRP and a third substitution (arginine for leucine) at position 195. 222 CRP has high CRP* activity in vivo and high apparent affinity for lacP DNA relative to the 220 CRP in vitro. In this report, we evaluate the effect of a single amino acid substitution at position 195 (leucine to arginine) on CRP activity both in vivo and in vitro. Cells (cya delta crp delta/pJH8crpR195) containing R195 CRP were found to exhibit a CRP* phenotype, expressing a variety of CRP-dependent genes in the absence of added cAMP. R195 CRP exhibited both CRP* activity in vitro and increased apparent affinity for cAMP relative to wild-type CRP. CRP titration experiments performed using an in vitro lac transcription system suggest that the isolated substitution of arginine at position 195 does not confer on CRP the high lacP affinity that distinguishes the 220 and 222 forms of CRP. These findings lead us to the conclusion that the effects of multiple mutations in CRP can be both cumulative and interactive.


Subject(s)
Arginine , Cyclic AMP/metabolism , Escherichia coli/analysis , Leucine , Receptors, Cyclic AMP/analysis , Mutation , Plasmids , Promoter Regions, Genetic , Protein Conformation , Receptors, Cyclic AMP/genetics , Structure-Activity Relationship , Transcription, Genetic
17.
J Biol Chem ; 262(12): 5630-6, 1987 Apr 25.
Article in English | MEDLINE | ID: mdl-3032940

ABSTRACT

Escherichia coli NCR91 synthesizes a mutant form of catabolite gene activator protein (CAP) in which alanine 144 is replaced by threonine. This mutant, which also lacks adenylate cyclase activity, has a CAP phenotype; in the absence of cAMP it is able to express genes that normally require cAMP. CAP91 has been purified and crystallized with cAMP under the same conditions as used to crystallize the wild type CAP X cAMP complex. X-ray diffraction data were measured to 2.4-A resolution and the CAP91 structure was determined using initial model phases from the wild type structure. A difference Fourier map calculated between CAP91 and wild type showed the 2 alanine to threonine sequence changes in the dimer and also a change in orientation of cysteine 178 in one of the subunits. The CAP91 coordinates were refined by restrained least squares to an R factor of 0.186. Differences in the atomic positions of the wild type and mutant protein structures were analyzed by a vector averaging technique. There were small changes that included concerted motions in the small domains, in the hinge between the two domains and in an adjacent loop between beta-strands 4 and 5. The mutation at residue 144 apparently causes changes in the position of some protein atoms that are distal to the mutation site.


Subject(s)
Escherichia coli/genetics , Mutation , Receptors, Cyclic AMP/genetics , Cyclic AMP/pharmacology , Escherichia coli/metabolism , Fourier Analysis , Models, Molecular , Protein Conformation , Receptors, Cyclic AMP/metabolism
18.
J Biol Chem ; 261(35): 16332-9, 1986 Dec 15.
Article in English | MEDLINE | ID: mdl-3023348

ABSTRACT

cAMP receptor protein (CRP)-dependent operon expression in Escherichia coli requires the CRP X cAMP complex form of wild-type CRP. One class of crp mutants (crp*) activates CRP-dependent promoters in strains (cya) incapable of endogenous cAMP synthesis. Of fundamental interest is the difference in regulatory properties exhibited by crp* mutant strains, some of which exhibit glucose-mediated repression of beta-galactosidase synthesis, some of which do not. To gain a better understanding of the mechanisms of cAMP-independent promoter activation and repression we have: determined through cloning and DNA sequence analysis the primary structure of three CRP* forms of CRP; purified the mutant proteins; characterized the effect of these mutations on CRP secondary structure; and studied CRP*-activated lac promoter regulation in a purified in vitro transcription system. The results of this study provide strong evidence that mutations in crp alter the conformation of CRP and result in cAMP-independent activation of CRP-dependent promoters in vitro. In addition, a CRP allele-specific inhibition of CRP* activity by spermidine was observed in vitro that parallels crp* strain-specific sensitivity to glucose-mediated repression of CRP-dependent enzyme synthesis in vivo. This observation provides evidence that catabolite repression in cells lacking cAMP may be mediated through a mechanism that inhibits CRP* activity.


Subject(s)
Bacterial Proteins/genetics , Escherichia coli/genetics , Bacterial Proteins/metabolism , Cyclic AMP/metabolism , Escherichia coli/metabolism , Hemolysin Proteins , Operon , Plasmids , Promoter Regions, Genetic , Spermidine/pharmacology , Temperature , Transcription, Genetic/drug effects , beta-Galactosidase/biosynthesis , beta-Galactosidase/genetics
19.
Mol Gen Genet ; 192(3): 477-86, 1983.
Article in English | MEDLINE | ID: mdl-6318040

ABSTRACT

A well-characterized set of pts deletion mutants of Salmonella typhimurium were used to re-evaluate the purported role of the PTS in the inducer exclusion process and in regulation cAMP synthesis. During the course of these studies a class of secondary mutations was isolated which suppress the inhibition of cAMP synthesis caused by pts mutations. These suppressor mutations were traced to the crp locus and tentatively designated as acr (adenylate cyclase regulation) mutations. A new model is proposed in which CRP rather than adenylate cyclase is believed to be the central regulatory element in the catabolite repression phenomenon.


Subject(s)
Gene Expression Regulation , Models, Genetic , Salmonella typhimurium/genetics , Cyclic AMP/biosynthesis , Genes, Bacterial , Mutation , Suppression, Genetic
20.
J Bacteriol ; 153(1): 191-9, 1983 Jan.
Article in English | MEDLINE | ID: mdl-6294047

ABSTRACT

Escherichia coli strain NCR30 contains a cya lesion and a second-site cya suppressor mutation that lies in the crp gene. NCR30 shows a pleiotropic phenotypic reversion to the wild-type state in expressing many operons that require the cyclic AMP (cAMP)-cAMP receptor protein (CRP) complex for positive control. In vivo beta-galactosidase synthesis in NCR30 was sensitive to glucose-mediated repression, which was relieved not only by cAMP but also by cyclic GMP and cyclic CMP. The CRP isolated from NCR30 differed from the protein isolated from wild-type E. coli in many respects. The mutant protein bound cAMP with four to five times greater affinity than wild-type CRP. Protease digestion studies indicated that native NCR30 CRP exists in the cAMP-CRP complex-like conformation. The protein conferred a degree of cAMP independence on the in vitro synthesis of beta-galactosidase. In addition, the inherent positive control activity of the mutant protein in vitro was enhanced by those nucleotides that stimulate in vivo beta-galactosidase synthesis in NCR30. The results of this study supported the conclusion that the crp allele of NCR30 codes for a protein having altered effector specificity yet capable of promoting positive control over catabolite-sensitive operons in the absence of an effector molecule.


Subject(s)
Adenylyl Cyclases/genetics , Escherichia coli/genetics , Genes, Bacterial , Receptors, Cyclic AMP/genetics , Suppression, Genetic , Cyclic AMP/metabolism , Cyclic AMP/pharmacology , Escherichia coli/metabolism , Receptors, Cyclic AMP/metabolism , beta-Galactosidase/biosynthesis
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