A novel variant of the catalytic triad in the Streptomyces scabies esterase

The crystal structure of a novel esterase from Streptomyces scabies , a causal agent of the potato scab disease, was solved at 2.1 Å resolution. The tertiary fold of the enzyme is substantially different from that of the α/β hydrolase family and unique among all known hydrolases. The active site contains a dyad of Ser 14 and His 283, closely resembling two of the three components of typical Ser-His-Asp(Glu) triads from other serine hydrolases. Proper orientation of the active site imidazol is maintained by a hydrogen bond between the Nδ-H group and a main chain oxygen. Thus, the enzyme constitutes the first known natural variation of the chymotrypsin-like triad in which a carboxylic acid is replaced by a neutral hydrogen-bond acceptor.

[1]  J. Markley,et al.  Zymogen activation in serine proteinases. Proton magnetic resonance pH titration studies of the two histidines of bovine chymotrypsinogen A and chymotrypsin Aalpha. , 1978, Biochemistry.

[2]  T. A. Jones,et al.  A graphics model building and refinement system for macromolecules , 1978 .

[3]  K. Sharp,et al.  Protein folding and association: Insights from the interfacial and thermodynamic properties of hydrocarbons , 1991, Proteins.

[4]  J. Wells,et al.  Dissecting the catalytic triad of a serine protease , 1988, Nature.

[5]  J. Thornton,et al.  PROCHECK: a program to check the stereochemical quality of protein structures , 1993 .

[6]  G. Rose,et al.  Loops in globular proteins: a novel category of secondary structure. , 1986, Science.

[7]  J. Richardson,et al.  The anatomy and taxonomy of protein structure. , 1981, Advances in protein chemistry.

[8]  K. Zhang SQUASH - combining constraints for macromolecular phase refinement and extension. , 1993, Acta crystallographica. Section D, Biological crystallography.

[9]  U Derewenda,et al.  Structure of a myristoyl-ACP-specific thioesterase from Vibrio harveyi. , 1994, Biochemistry.

[10]  L. Norskov,et al.  A serine protease triad forms the catalytic centre of a triacylglycerol lipase , 1990, Nature.

[11]  S. Zimmerman,et al.  Syn and anti-oriented imidazole carboxylates as models for the histidine-aspartate couple in serine proteases and other enzymes , 1991 .

[12]  R. Read Improved Fourier Coefficients for Maps Using Phases from Partial Structures with Errors , 1986 .

[13]  J. Zou,et al.  Improved methods for building protein models in electron density maps and the location of errors in these models. , 1991, Acta crystallographica. Section A, Foundations of crystallography.

[14]  H. Sobek,et al.  The metal-ion-free oxidoreductase from Streptomyces aureofaciens has an α/β hydrolase fold , 1994, Nature Structural Biology.

[15]  R M Stroud,et al.  The three-dimensional structure of Asn102 mutant of trypsin: role of Asp102 in serine protease catalysis. , 1988, Science.

[16]  J. Kraut Serine proteases: structure and mechanism of catalysis. , 1977, Annual review of biochemistry.

[17]  R J Fletterick,et al.  Crystal structure of a catalytic antibody with a serine protease active site. , 1994, Science.

[18]  F. Winkler,et al.  Structure of human pancreatic lipase , 1990, Nature.

[19]  Z. Derewenda,et al.  Molecular mechanism of enantiorecognition by esterases , 1995 .

[20]  W. Hendrickson Stereochemically restrained refinement of macromolecular structures. , 1985, Methods in enzymology.

[21]  Joel L. Sussman,et al.  The α/β hydrolase fold , 1992 .

[22]  W. Bachovchin 15N NMR spectroscopy of hydrogen-bonding interactions in the active site of serine proteases: evidence for a moving histidine mechanism. , 1986, Biochemistry.

[23]  D. Bacon,et al.  A fast algorithm for rendering space-filling molecule pictures , 1988 .

[24]  J. Emsley,et al.  Hydrogen Bonding and Chemical Reactivity , 1991 .

[25]  P. Frey,et al.  A low-barrier hydrogen bond in the catalytic triad of serine proteases. , 1994, Science.

[26]  D. Blow,et al.  Role of a Buried Acid Group in the Mechanism of Action of Chymotrypsin , 1969, Nature.

[27]  A. Goldman,et al.  Atomic structure of acetylcholinesterase from Torpedo californica: a prototypic acetylcholine-binding protein , 1991, Science.

[28]  G A Rogers,et al.  Synthesis and evaluation of a model for the so-called "charge-relay" system of the serine esterases. , 1974, Journal of the American Chemical Society.

[29]  Z. Derewenda,et al.  Relationships among serine hydrolases: evidence for a common structural motif in triacylglyceride lipases and esterases. , 1991, Biochemistry and cell biology = Biochimie et biologie cellulaire.

[30]  A. Warshel,et al.  How do serine proteases really work? , 1989, Biochemistry.

[31]  J. Schrag,et al.  Ser-His-Glu triad forms the catalytic site of the lipase from Geotrichum candidum , 1991, Nature.

[32]  Mike Carson,et al.  Ribbon models of macromolecules , 1987 .

[33]  Linus Pauling,et al.  Molecular Architecture and Biological Reactions , 1946 .

[34]  Barry C. Finzel,et al.  The use of an imaging proportional counter in macromolecular crystallography , 1987 .

[35]  P. Kraulis A program to produce both detailed and schematic plots of protein structures , 1991 .

[36]  Z. Derewenda,et al.  Crystallization and preliminary crystallographic data of a Streptomyces scabies extracellular esterase. , 1992, Journal of molecular biology.

[37]  Z. Derewenda,et al.  (His)Cε-H···O=C< Hydrogen Bond in the Active Sites of Serine Hydrolases , 1994 .

[38]  J. Schottel,et al.  Purification and characterization of a novel extracellular esterase from pathogenic Streptomyces scabies that is inducible by zinc , 1987, Journal of bacteriology.

[39]  Greg Raymer,et al.  Cloning, sequencing, and regulation of expression of an extracellular esterase gene from the plant pathogen Streptomyces scabies , 1990, Journal of bacteriology.

[40]  A. Kossiakoff,et al.  Direct determination of the protonation states of aspartic acid-102 and histidine-57 in the tetrahedral intermediate of the serine proteases: neutron structure of trypsin. , 1981, Biochemistry.