Your browser doesn't support javascript.
loading
Show: 20 | 50 | 100
Results 1 - 20 de 37
Filter
1.
J Biol Chem ; 276(51): 48580-7, 2001 Dec 21.
Article in English | MEDLINE | ID: mdl-11673472

ABSTRACT

Polysaccharide-degrading enzymes are generally modular proteins that contain non-catalytic carbohydrate-binding modules (CBMs), which potentiate the activity of the catalytic module. CBMs have been grouped into sequence-based families, and three-dimensional structural data are available for half of these families. Clostridium thermocellum xylanase 11A is a modular enzyme that contains a CBM from family 6 (CBM6), for which no structural data are available. We have determined the crystal structure of this module to a resolution of 2.1 A. The protein is a beta-sandwich that contains two potential ligand-binding clefts designated cleft A and B. The CBM interacts primarily with xylan, and NMR spectroscopy coupled with site-directed mutagenesis identified cleft A, containing Trp-92, Tyr-34, and Asn-120, as the ligand-binding site. The overall fold of CBM6 is similar to proteins in CBM families 4 and 22, although surprisingly the ligand-binding site in CBM4 and CBM22 is equivalent to cleft B in CBM6. These structural data define a superfamily of CBMs, comprising CBM4, CBM6, and CBM22, and demonstrate that, although CBMs have evolved from a relatively small number of ancestors, the structural elements involved in ligand recognition have been assembled at different locations on the ancestral scaffold.


Subject(s)
Carbohydrate Metabolism , Xylosidases/metabolism , Amino Acid Sequence , Binding Sites , Crystallography, X-Ray , Ligands , Models, Molecular , Molecular Sequence Data , Sequence Homology, Amino Acid , Structure-Activity Relationship , Xylan Endo-1,3-beta-Xylosidase , Xylosidases/chemistry
2.
J Biol Chem ; 276(52): 49061-5, 2001 Dec 28.
Article in English | MEDLINE | ID: mdl-11598143

ABSTRACT

The recycling of photosynthetically fixed carbon by the action of microbial glycoside hydrolases is a key biological process. The consortium of degradative enzymes involved in this process frequently display catalytic modules appended to one or more noncatalytic carbohydrate-binding modules (CBMs). CBMs play a central role in the optimization of the catalytic activity of plant cell wall hydrolases through their binding to specific plant structural polysaccharides. Despite their pivotal role in the biodegradation of plant biomass, the mechanism by which these proteins recognize their target ligands is unclear. This report describes the structure of a xylan-binding CBM (CBM15) in complex with its ligand. This module, derived from Pseudomonas cellulosa xylanase Xyn10C, binds to both soluble xylan and xylooligosaccharides. The three-dimensional crystal structure of CBM15 bound to xylopentaose has been solved by x-ray crystallography to a resolution of 1.6 A. The protein displays a similar beta-jelly roll fold to that observed in many other families of binding-modules. A groove, 20-25 A in length, on the concave surface of one of the beta-sheets presents two tryptophan residues, the faces of which are orientated at approximately 240 degrees to one another. These form-stacking interactions with the n and n+2 sugars of xylopentaose complementing the approximate 3-fold helical structure of this ligand in the binding cleft of CBM15. In four of the five observed binding subsites, the 2' and 3' hydroxyls of the bound ligand are solvent-exposed, providing an explanation for the capacity of this xylan-binding CBM to accommodate the highly decorated xylans found in the plant cell wall.


Subject(s)
Protein Structure, Tertiary , Xylans/chemistry , Xylosidases/chemistry , Binding Sites , Carbohydrate Sequence , Catalytic Domain , Cell Wall/chemistry , Crystallography, X-Ray , Ligands , Models, Molecular , Molecular Sequence Data , Molecular Structure , Protein Binding , Pseudomonas/enzymology , Xylans/metabolism , Xylosidases/metabolism
3.
J Biol Chem ; 276(46): 43010-7, 2001 Nov 16.
Article in English | MEDLINE | ID: mdl-11560933

ABSTRACT

The recycling of photosynthetically fixed carbon by the action of microbial plant cell wall hydrolases is a fundamental biological process that is integral to one of the major geochemical cycles and, in addition, has considerable industrial potential. Enzyme systems that attack the plant cell wall contain noncatalytic carbohydrate-binding modules (CBMs) that mediate attachment to this composite structure and play a pivotal role in maximizing the hydrolytic process. Anaerobic fungi that colonize herbivores are the most efficient plant cell wall degraders known, and this activity is vested in a high molecular weight complex that binds tightly to the plant cell wall. To investigate whether plant cell wall attachment is mediated by noncatalytic proteins, a cDNA library of the anaerobic fungus Piromyces equi was screened for sequences that encode noncatalytic proteins that are components of the cellulase-hemicellulase complex. A 1.6-kilobase cDNA was isolated encoding a protein of 479 amino acids with a M(r) of 52548 designated NCP1. The mature protein had a modular architecture comprising three copies of the noncatalytic dockerin module that targets anaerobic fungal proteins to the cellulase-hemicellulase complex. The two C-terminal modules of NCP1, CBM29-1 and CBM29-2, respectively, exhibit 33% sequence identity with each other but have no homologues in protein data bases. A truncated form of NCP1 comprising CBM29-1 and CBM29-2 (CBM29-1-2) and each of the two individual copies of CBM29 bind primarily to mannan, cellulose, and glucomannan, displaying the highest affinity for the latter polysaccharide. CBM29-1-2 exhibits 4-45-fold higher affinity than either CBM29-1 or CBM29-2 for the various ligands, indicating that the two modules, when covalently linked, act in synergy to bind to an array of different polysaccharides. This paper provides the first report of a CBM-containing protein from an anaerobic fungal cellulase-hemicellulase complex. The two CBMs constitute a novel CBM family designated CBM29 whose members exhibit unusually wide ligand specificity. We propose, therefore, that NCP1 plays a role in sequestering the fungal enzyme complex onto the plant cell wall.


Subject(s)
Carbohydrate Metabolism , Carbohydrates/chemistry , Fungal Proteins/chemistry , Fungal Proteins/physiology , Piromyces/chemistry , Amino Acid Sequence , Amino Acids/chemistry , Animals , Base Sequence , Blotting, Western , Calorimetry , Cattle , Cell Wall , DNA/metabolism , DNA, Complementary/metabolism , Dose-Response Relationship, Drug , Electrophoresis, Polyacrylamide Gel , Escherichia coli/metabolism , Gene Library , Kinetics , Ligands , Mannans/metabolism , Molecular Sequence Data , Piromyces/metabolism , Plants/chemistry , Plasmids/metabolism , Protein Binding , Recombinant Proteins/metabolism , Sequence Homology, Amino Acid , Serum Albumin/metabolism , Temperature
4.
Biochemistry ; 40(31): 9167-76, 2001 Aug 07.
Article in English | MEDLINE | ID: mdl-11478884

ABSTRACT

The majority of plant cell wall hydrolases are modular enzymes which, in addition to a catalytic module, possess one or more carbohydrate-binding modules (CBMs). These carbohydrate-active enzymes and their constituent modules have been classified into a number of families based upon amino acid sequence similarity. The Clostridium thermocellum xylanase, Xyn10B, contains two CBMs that belong to family 22 (CBM22). The crystal structure of the C-terminal CBM22 (CBM22-2) was determined in a previous study [Charnock, S. J., et al. (2000) Biochemistry 39, 5013--5021] and revealed a surface cleft which presents several conserved residues that are implicated in ligand binding. These amino acids have been substituted and the structure and biochemical properties of the mutants analyzed. The data show that R25A, W53A, Y103A, Y136A, and E138A exhibit greatly reduced affinity for xylotetraose relative to that of the wild-type protein. Conversely, mutations Y103F and Y136F have little effect on ligand binding. Using thermodynamic, X-ray, and NMR measurements on the mutants, we show that the cleft of CBM22-2 does indeed form the ligand-binding site. Trp 53 and Tyr 103 most likely participate in hydrophobic stacking interactions with the ligand, while Glu 138 makes one or more important hydrogen bonds with the tetrasaccharide. Although Arg 25 and Tyr 136 are likely to form hydrogen bonds with the ligand, they are also shown to play a critical role in maintaining the structural integrity of the binding cleft.


Subject(s)
Amino Acids/chemistry , Amino Acids/metabolism , Carbohydrate Metabolism , Clostridium/enzymology , Xylosidases/chemistry , Xylosidases/metabolism , Amino Acid Motifs/genetics , Amino Acid Substitution/genetics , Amino Acids/genetics , Binding Sites/genetics , Clostridium/genetics , Conserved Sequence , Crystallography, X-Ray , Ligands , Mutagenesis, Site-Directed , Nuclear Magnetic Resonance, Biomolecular , Oligosaccharides/metabolism , Protein Binding/genetics , Thermodynamics , Tryptophan/metabolism , Xylan Endo-1,3-beta-Xylosidase , Xylans/metabolism , Xylosidases/genetics
5.
Infect Control Hosp Epidemiol ; 22(5): 301-3, 2001 May.
Article in English | MEDLINE | ID: mdl-11428442

ABSTRACT

An outbreak of vancomycin-resistant Enterococcus faecium involving 28 infants in a neonatal intensive care unit was observed. Successful control of the outbreak was achieved following use of patient and staff cohorting, contact isolation precautions, patient and environmental surveillance cultures, environmental decontamination, molecular typing, introduction of an alcohol-based hand disinfectant, and decreased use of vancomycin.


Subject(s)
Cross Infection/epidemiology , Disease Outbreaks , Enterococcus faecium/drug effects , Gram-Positive Bacterial Infections/epidemiology , Intensive Care Units, Neonatal , Vancomycin Resistance , Bacterial Typing Techniques , Cross Infection/microbiology , Cross Infection/prevention & control , Enterococcus faecium/isolation & purification , Gram-Positive Bacterial Infections/prevention & control , Humans , Infant, Newborn , Infection Control/methods
6.
Biochemistry ; 40(8): 2468-77, 2001 Feb 27.
Article in English | MEDLINE | ID: mdl-11327868

ABSTRACT

Glycoside hydrolases often contain multiple copies of noncatalytic carbohydrate binding modules (CBMs) from the same or different families. Currently, the functional importance of this complex molecular architecture is unclear. To investigate the role of multiple CBMs in plant cell wall hydrolases, we have determined the polysaccharide binding properties of wild type and various derivatives of Cellulomonas fimi xylanase 11A (Cf Xyn11A). This protein, which binds to both cellulose and xylan, contains two family 2b CBMs that exhibit 70% sequence identity, one internal (CBM2b-1), which has previously been shown to bind specifically to xylan and the other at the C-terminus (CBM2b-2). Biochemical characterization of CBM2b-2 showed that the module bound to insoluble and soluble oat spelt xylan and xylohexaose with K(a) values of 5.6 x 10(4), 1.2 x 10(4), and 4.8 x 10(3) M(-1), respectively, but exhibited extremely weak affinity for cellohexaose (<10(2) M(-1)), and its interaction with insoluble cellulose was too weak to quantify. The CBM did not interact with soluble forms of other plant cell wall polysaccharides. The three-dimensional structure of CBM2b-2 was determined by NMR spectroscopy. The module has a twisted "beta-sandwich" architecture, and the two surface exposed tryptophans, Trp 570 and Trp 602, which are in a perpendicular orientation with each other, were shown to be essential for ligand binding. In addition, changing Arg 573 to glycine altered the polysaccharide binding specificity of the module from xylan to cellulose. These data demonstrate that the biochemical properties and tertiary structure of CBM2b-2 and CBM2b-1 are extremely similar. When CBM2b-1 and CBM2b-2 were incorporated into a single polypeptide chain, either in the full-length enzyme or an artificial construct comprising both CBM2bs covalently joined via a flexible linker, there was an approximate 18-20-fold increase in the affinity of the protein for soluble and insoluble xylan, as compared to the individual modules, and a measurable interaction with insoluble acid-swollen cellulose, although the K(a) (approximately 6.0 x 10(4) M(-1)) was still much lower than for insoluble xylan (K(a) = approximately 1.0 x 10(6) M(-1)). These data demonstrate that the two family 2b CBMs of Cf Xyn11A act in synergy to bind acid swollen cellulose and xylan. We propose that the increased affinity of glycoside hydrolases for polysaccharides, through the synergistic interactions of CBMs, provides an explanation for the duplication of CBMs from the same family in some prokaryotic cellulases and xylanases.


Subject(s)
Peptide Fragments/metabolism , Polysaccharides/metabolism , Xylosidases/metabolism , Actinomycetales/enzymology , Actinomycetales/genetics , Amino Acid Motifs/genetics , Arginine/chemistry , Arginine/genetics , Binding Sites/genetics , Cellulose/metabolism , Drug Synergism , Endo-1,4-beta Xylanases , Ligands , Nuclear Magnetic Resonance, Biomolecular , Peptide Fragments/chemistry , Peptide Fragments/genetics , Protein Structure, Tertiary/genetics , Solubility , Tryptophan/chemistry , Tryptophan/genetics , Xylan Endo-1,3-beta-Xylosidase , Xylans/metabolism , Xylosidases/chemistry , Xylosidases/genetics
7.
Biochemistry ; 40(19): 5700-7, 2001 May 15.
Article in English | MEDLINE | ID: mdl-11341835

ABSTRACT

NMR studies of the internal family 2b carbohydrate binding module (CBM2b-1) of Cellulomonas fimi xylanase 11A have identified six polar residues and two aromatic residues that interact with its target ligand, xylan. To investigate the importance of the various interactions, free energy and enthalpy changes have been measured for the binding of xylan to native and mutant forms of CBM2b-1. The data show that the two aromatic residues, Trp 259 and Trp 291, play a critical role in the binding, and similarly that mutants N264A and T316A have no affinity for the xylose polymer. Interestingly, mutations E257A, Q288A, N292A, E257A/Q288A, E257A/N292A, and E257A/N292A/Q288A do not significantly diminish the affinity of CBM2b-1 for the xylose polymers, but do influence the thermodynamics driving the protein-carbohydrate interactions. These thermodynamic parameters have been interpreted in light of a fresh understanding of enthalpy-entropy compensation and show the following. (1) For proteins whose ligands are bound on an exposed surface, hydrogen bonding confers little specificity or affinity. It also displays little cooperativity. Most specificity and affinity derive from binding between the face of sugar rings and aromatic rings. (2) Loss of hydrogen bonding interactions leads to a redistribution of the remaining bonding interactions such that the entropic mobility of the ligand is maximized, at the expense (if necessary) of enthalpically favorable bonds. (3) Changes in entropy and enthalpy in the binding between polysaccharide and a range of mutants can be interpreted by considering changes in binding and flexibility, without any need to consider solvent reorganization.


Subject(s)
Xylans/chemistry , Xylans/metabolism , Xylosidases/metabolism , beta-Glucosidase/metabolism , Actinomycetales/enzymology , Actinomycetales/genetics , Amino Acid Motifs/genetics , Binding Sites/genetics , Calorimetry , Cellulose/chemistry , Cellulose/metabolism , Circular Dichroism , Endo-1,4-beta Xylanases , Hydrogen Bonding , Ligands , Mutagenesis, Site-Directed , Spectrometry, Fluorescence , Thermodynamics , Xylosidases/chemistry , Xylosidases/genetics , beta-Glucosidase/chemistry , beta-Glucosidase/genetics
8.
J Biol Chem ; 276(33): 31186-92, 2001 Aug 17.
Article in English | MEDLINE | ID: mdl-11382747

ABSTRACT

The crystal structure of Pseudomonas cellulosa mannanase 26A has been solved by multiple isomorphous replacement and refined at 1.85 A resolution to an R-factor of 0.182 (R-free = 0.211). The enzyme comprises (beta/alpha)(8)-barrel architecture with two catalytic glutamates at the ends of beta-strands 4 and 7 in precisely the same location as the corresponding glutamates in other 4/7-superfamily glycoside hydrolase enzymes (clan GH-A glycoside hydrolases). The family 26 glycoside hydrolases are therefore members of clan GH-A. Functional analyses of mannanase 26A, informed by the crystal structure of the enzyme, provided important insights into the role of residues close to the catalytic glutamates. These data showed that Trp-360 played a critical role in binding substrate at the -1 subsite, whereas Tyr-285 was important to the function of the nucleophile catalyst. His-211 in mannanase 26A does not have the same function as the equivalent asparagine in the other GH-A enzymes. The data also suggest that Trp-217 and Trp-162 are important for the activity of mannanase 26A against mannooligosaccharides but are less important for activity against polysaccharides.


Subject(s)
Mannosidases/chemistry , Pseudomonas/enzymology , Amino Acid Sequence , Catalysis , Crystallography , Mannans/metabolism , Mannosidases/metabolism , Molecular Sequence Data , Structure-Activity Relationship , beta-Mannosidase
9.
J Biol Chem ; 275(52): 41137-42, 2000 Dec 29.
Article in English | MEDLINE | ID: mdl-10973978

ABSTRACT

The interactions of proteins with polysaccharides play a key role in the microbial hydrolysis of cellulose and xylan, the most abundant organic molecules in the biosphere, and are thus pivotal to the recycling of photosynthetically fixed carbon. Enzymes that attack these recalcitrant polymers have a modular structure comprising catalytic modules and non-catalytic carbohydrate-binding modules (CBMs). The largest prokaryotic CBM family, CBM2, contains members that bind cellulose (CBM2a) and xylan (CBM2b), respectively. A possible explanation for the different ligand specificity of CBM2b is that one of the surface tryptophans involved in the protein-carbohydrate interaction is rotated by 90 degrees compared with its position in CBM2a (thus matching the structure of the binding site to the helical secondary structure of xylan), which may be promoted by a single amino acid difference between the two families. Here we show that by mutation of this single residue (Arg-262-->Gly), a CBM2b xylan-binding module completely loses its affinity for xylan and becomes a cellulose-binding module. The structural effect of the mutation has been revealed using NMR spectroscopy, which confirms that Trp-259 rotates 90 degrees to lie flat against the protein surface. Except for this one residue, the mutation only results in minor changes to the structure. The mutated protein interacts with cellulose using the same residues that the wild-type CBM2b uses to interact with xylan, suggesting that the recognition is of the secondary structure of the polysaccharide rather than any specific recognition of the absence or presence of functional groups.


Subject(s)
Carbohydrate Metabolism , Carrier Proteins/chemistry , Amino Acid Sequence , Binding Sites , Ligands , Magnetic Resonance Spectroscopy , Molecular Sequence Data , Oligosaccharides/metabolism , Xylans/metabolism
10.
Biochemistry ; 39(17): 5013-21, 2000 May 02.
Article in English | MEDLINE | ID: mdl-10819965

ABSTRACT

Many polysaccharide-degrading enzymes display a modular structure in which a catalytic module is attached to one or more noncatalytic modules. Several xylanases contain a module of previously unknown function (termed "X6" modules) that had been implicated in thermostability. We have investigated the properties of two such "thermostabilizing" modules, X6a and X6b from the Clostridium thermocellumxylanase Xyn10B. These modules, expressed either as discrete entities or as their natural fusions with the catalytic module, were assayed, and their capacity to bind various carbohydrates and potentiate hydrolytic activity was determined. The data showed that X6b, but not X6a, increased the activity of the enzyme against insoluble xylan and bound specifically to xylooligosaccharides and various xylans. In contrast, X6a exhibited no affinity for soluble or insoluble forms of xylan. Isothermal titration calorimetry revealed that the ligand-binding site of X6b accommodates approximately four xylose residues. The protein exhibited K(d) values in the low micromolar range for xylotetraose, xylopentaose, and xylohexaose; 24 microM for xylotriose; and 50 microM for xylobiose. Negative DeltaH and DeltaS values indicate that the interaction of X6b with xylooligosaccharides and xylan is driven by enthalpic forces. The three-dimensional structure of X6b has been solved by X-ray crystallography to a resolution of 2.1 A. The protein is a beta-sandwich that presents a tryptophan and two tyrosine residues on the walls of a shallow cleft that is likely to be the xylan-binding site. In view of the structural and carbohydrate-binding properties of X6b, it is proposed that this and related modules be re-assigned as family 22 carbohydrate-binding modules.


Subject(s)
Clostridium/enzymology , Xylosidases/chemistry , Base Sequence , Binding Sites , Carbohydrate Metabolism , Carbohydrates/chemistry , Clostridium/chemistry , Enzyme Stability , Molecular Sequence Data , Protein Conformation , Substrate Specificity , Temperature , Xylan Endo-1,3-beta-Xylosidase , Xylosidases/metabolism
12.
Biochem J ; 342 ( Pt 2): 473-80, 1999 Sep 01.
Article in English | MEDLINE | ID: mdl-10455036

ABSTRACT

Xylanase A (Pf Xyn10A), in common with several other Pseudomonas fluorescens subsp. cellulosa polysaccharidases, consists of a Type II cellulose-binding domain (CBD), a catalytic domain (Pf Xyn10A(CD)) and an internal domain that exhibits homology to Type X CBDs. The Type X CBD of Pf Xyn10A, expressed as a discrete entity (CBD(X)) or fused to the catalytic domain (Pf Xyn10A'), bound to amorphous and bacterial microcrystalline cellulose with a K(a) of 2.5 x 10(5) M(-1). CBD(X) exhibited no affinity for soluble forms of cellulose or cello-oligosaccharides, suggesting that the domain interacts with multiple cellulose chains in the insoluble forms of the polysaccharide. Pf Xyn10A' was 2-3 times more active against cellulose-hemicellulose complexes than Pf Xyn10A(CD); however, Pf Xyn10A' and Pf Xyn10A(CD) exhibited the same activity against soluble substrates. CBD(X) did not disrupt the structure of plant-cell-wall material or bacterial microcrystalline cellulose, and did not potentiate Pf Xyn10A(CD) when not covalently linked to the enzyme. There was no substantial difference in the affinity of full-length Pf Xyn10A and the enzyme's Type II CBD for cellulose. The activity of Pf Xyn10A against cellulose-hemicellulose complexes was similar to that of Pf Xyn10A', and a derivative of Pf Xyn10A in which the Type II CBD is linked to the Pf Xyn10A(CD) via a serine-rich linker sequence [Bolam, Cireula, McQueen-Mason, Simpson, Williamson, Rixon, Boraston, Hazlewood and Gilbert (1998) Biochem J. 331, 775-781]. These data indicate that CBD(X) is functional in Pf Xyn10A and that no synergy, either in ligand binding or in the potentiation of catalysis, is evident between the Type II and X CBDs of the xylanase.


Subject(s)
Pseudomonas fluorescens/enzymology , Xylosidases/chemistry , Xylosidases/metabolism , Base Sequence , Binding Sites , Cellulose/metabolism , DNA Primers/genetics , Endo-1,4-beta Xylanases , Escherichia coli/genetics , Kinetics , Magnetic Resonance Spectroscopy , Pseudomonas fluorescens/genetics , Recombinant Fusion Proteins/chemistry , Recombinant Fusion Proteins/genetics , Recombinant Fusion Proteins/metabolism , Substrate Specificity , Xylans/metabolism , Xylosidases/genetics
13.
Structure ; 7(7): 853-64, 1999 Jul 15.
Article in English | MEDLINE | ID: mdl-10425686

ABSTRACT

BACKGROUND: Many enzymes that digest polysaccharides contain separate polysaccharide-binding domains. Structures have been previously determined for a number of cellulose-binding domains (CBDs) from cellulases. RESULTS: The family IIb xylan-binding domain 1 (XBD1) from Cellulomonas fimi xylanase D is shown to bind xylan but not cellulose. Its structure is similar to that of the homologous family IIa CBD from C. fimi Cex, consisting of two four-stranded beta sheets that form a twisted 'beta sandwich'. The xylan-binding site is a groove made from two tryptophan residues that stack against the faces of the sugar rings, plus several hydrogen-bonding polar residues. CONCLUSIONS: The biggest difference between the family IIa and IIb domains is that in the former the solvent-exposed tryptophan sidechains are coplanar, whereas in the latter they are perpendicular, forming a twisted binding site. The binding sites are therefore complementary to the secondary structures of the ligands cellulose and xylan. XBD1 and CexCBD represent a striking example of two proteins that have high sequence similarity but a different function.


Subject(s)
Cellulose/metabolism , Xylans/metabolism , Xylosidases/chemistry , beta-Glucosidase/chemistry , Amino Acid Sequence , Base Sequence , Crystallography, X-Ray , DNA Primers , Endo-1,4-beta Xylanases , Ligands , Magnetic Resonance Spectroscopy , Models, Molecular , Molecular Sequence Data , Protein Structure, Secondary , Sequence Homology, Amino Acid , Substrate Specificity , Thermodynamics , Xylosidases/metabolism , beta-Glucosidase/metabolism
14.
Acta Crystallogr D Biol Crystallogr ; 54(Pt 1): 129-31, 1998 Jan 01.
Article in English | MEDLINE | ID: mdl-9761834

ABSTRACT

Crystals of an endo-beta-1,4-mannanase (1,4-beta-D-mannohydrolase, E. C. 3.2.1.78) from Pseudomonas fluorescens sub species cellulosa have been grown by the hanging-drop technique at 291 K over a period of one to two weeks to maximal dimensions of 0.17 x 0.17 x 0.25 mm. These crystals belong to the space group R32 (or R3) with cell dimensions of a = b = 155.4 and c = 250.8 A (hexagonal setting) and contain three (six) molecules in the asymmetric unit. The crystals diffract to at least 3.2 A using a laboratory source and are suitable for structure determination.


Subject(s)
Mannosidases/chemistry , Pseudomonas fluorescens/enzymology , Crystallization , Software , X-Ray Diffraction
15.
Biochem J ; 331 ( Pt 3): 775-81, 1998 May 01.
Article in English | MEDLINE | ID: mdl-9560304

ABSTRACT

To investigate the mode of action of cellulose-binding domains (CBDs), the Type II CBD from Pseudomonas fluorescens subsp. cellulosa xylanase A (XYLACBD) and cellulase E (CELECBD) were expressed as individual entities or fused to the catalytic domain of a Clostridium thermocellum endoglucanase (EGE). The two CBDs exhibited similar Ka values for bacterial microcrystalline cellulose (CELECBD, 1.62x10(6) M-1; XYLACBD, 1.83x10(6) M-1) and acid-swollen cellulose (CELECBD, 1.66x10(6) M-1; XYLACBD, 1.73x10(6) M-1). NMR spectra of XYLACBD titrated with cello-oligosaccharides showed that the environment of three tryptophan residues was affected when the CBD bound cellohexaose, cellopentaose or cellotetraose. The Ka values of the XYLACBD for C6, C5 and C4 cello-oligosaccharides were estimated to be 3.3x10(2), 1.4x10(2) and 4.0x10(1) M-1 respectively, suggesting that the CBD can accommodate at least six glucose molecules and has a much higher affinity for insoluble cellulose than soluble oligosaccharides. Fusion of either the CELECBD or XYLACBD to the catalytic domain of EGE potentiated the activity of the enzyme against insoluble forms of cellulose but not against carboxymethylcellulose. The increase in cellulase activity was not observed when the CBDs were incubated with the catalytic domain of either EGE or XYLA, with insoluble cellulose and a cellulose/hemicellulose complex respectively as the substrates. Pseudomonas CBDs did not induce the extension of isolated plant cell walls nor weaken cellulose paper strips in the same way as a class of plant cell wall proteins called expansins. The XYLACBD and CELECBD did not release small particles from the surface of cotton. The significance of these results in relation to the mode of action of Type II CBDs is discussed.


Subject(s)
Cellulase/chemistry , Cellulose/metabolism , Pseudomonas fluorescens/enzymology , Xylosidases/chemistry , Bacterial Proteins/chemistry , Binding Sites/genetics , Cellulase/genetics , Clostridium/enzymology , Endo-1,4-beta Xylanases , Kinetics , Magnetic Resonance Spectroscopy , Oligosaccharides/metabolism , Recombinant Fusion Proteins/genetics
16.
J Biotechnol ; 57(1-3): 59-69, 1997 Sep 16.
Article in English | MEDLINE | ID: mdl-9335166

ABSTRACT

To evaluate the role of the CBDs and linker sequences in Pseudomonas xylanase A (XYLA) and arabinofuranosidase C (XYLC), the catalytic activity of derivatives of these enzymes, lacking either the linker sequences or CBDs, was assessed. Removal of the CBDs or linker sequences did not affect the activity of either XYLA or XYLC against soluble arabinoxylan, while derivatives of XYLA, in which either the CBD or interdomain regions had been deleted, exhibited decreased activity against the xylan component of cellulose/hemicellulose complexes. Although a truncated derivative of XYLC (XYLC"'), lacking its CBD, was less active than the full-length enzyme against plant cell wall material containing highly substituted arabinoxylan, XYLC"' was more active than XYLC on complex substrates where the degree of substitution of arabinoxylan was very low. These data indicate that CBDs and linker sequences play an important role in the activity of hemicellulases against plant cell walls and other cellulose/hemicellulose complexes.


Subject(s)
Cellulose/metabolism , Glycoside Hydrolases/metabolism , Polysaccharides/metabolism , Binding Sites , Endo-1,4-beta Xylanases , Pseudomonas/enzymology , Xylosidases/metabolism
17.
Biochemistry ; 35(50): 16195-204, 1996 Dec 17.
Article in English | MEDLINE | ID: mdl-8973192

ABSTRACT

Mannanase A (MANA) from Pseudomonas fluorescens, a member of glycosyl hydrolase family 26, was hyperexpressed in Escherichia coli and purified to homogeneity. Analysis of the stereochemical course of mannotetraose hydrolysis by purified MANA showed that the configuration of the anomeric carbon was retained on cleavage of the middle glycosidic bond. These data suggest that the mannanase hydrolyzes mannooligosaccharides by a double-displacement general acid-base mechanism. By hydrophobic cluster analysis (HCA), two glutamate and two aspartate residues were shown to be conserved in all of the glycosyl hydrolase family 26 enzymes analyzed. In addition, HCA suggested that family 26 was related to the GH-A clan (families 1, 2, 5, 10, 30, 35, 39, and 42) of (alpha/beta)8-barrel glycosyl hydrolases, which led to the prediction that E320 and E212 constitute the catalytic nucleophile and acid-base residues, respectively. To investigate the role of these amino acids, site-directed mutagenesis was used to replace the two aspartates with alanine and glutamate, while the two conserved glutamates were changed to alanine and aspartate. The mutant enzymes were purified and their biochemical properties were analyzed. The data showed that neither the D-->A nor the D-->E mutation resulted in a dramatic decrease in enzyme activity, suggesting that the two aspartate residues did not play a pivotal role in catalysis. In contrast, modification of either of the glutamate residues to alanine caused a dramatic decrease in kcat against carob galactomannan, azo-carob galactomannan, mannotetraose and 2,4-dinitrophenyl beta-mannobioside (2,4-DNPM). The E320A mutation did not alter the apparent K(m) (K(m)) of MANA against these substrates, while E212A resulted in a 27-fold decrease in K(m) against 2,4-DNPM. Pre-steady-state kinetics of 2,4-DNPM hydrolysis by E212A showed that there was a rapid burst of 2,4-dinitrophenol release. Circular dichroism and fluorescence spectroscopy indicated that there were no significant differences between the structures of the mutant and wild-type forms of MANA. These data are consistent with E212 and E320 constituting the catalytic acid-base and nucleophile residues of MANA, respectively.


Subject(s)
Aspartic Acid , Glycoside Hydrolases/chemistry , Mannosidases/chemistry , Mannosidases/metabolism , Pseudomonas fluorescens/enzymology , Amino Acid Sequence , Base Sequence , Binding Sites , Catalysis , Cloning, Molecular , Conserved Sequence , DNA Primers , Escherichia coli , Glycoside Hydrolases/metabolism , Kinetics , Molecular Sequence Data , Mutagenesis, Site-Directed , Point Mutation , Protein Conformation , Recombinant Proteins/chemistry , Recombinant Proteins/metabolism , Sequence Homology, Amino Acid , Substrate Specificity , beta-Mannosidase
18.
J Thorac Cardiovasc Surg ; 105(5): 885-91, 1993 May.
Article in English | MEDLINE | ID: mdl-8487566

ABSTRACT

Plasma levels of fentanyl were analyzed in 12 infants undergoing extracorporeal membrane oxygenation who received a fentanyl bolus (5 to 10 micrograms/kg) followed by infusion at 1 to 6.3 micrograms/kg/hr. Fentanyl levels, averaging 11 samples/infant, were measured by radioimmunoassay (mean 19.7 +/- 35.7 ng/ml; n = 140). Eight of the infants, all with a primary diagnosis other than congenital diaphragmatic hernia, survived with relatively short (< 7 days) courses on extracorporeal membrane oxygenation; this group of infants did not develop tolerance to fentanyl and could be maintained on infusion rates of < 5 micrograms/kg/hr throughout. The four infants with congenital diaphragmatic hernia had longer extracorporeal membrane oxygenation runs and three did not survive; their plasma fentanyl levels were consistently higher and while the infusion rates were higher early on extracorporeal membrane oxygenation, they did not exceed 7 micrograms/kg/hr and actually decreased after 5 days on extracorporeal membrane oxygenation. Five infants (42%) received lorazepam in addition to fentanyl for at least one sampling time. The fentanyl infusion dose and plasma level were higher in the congenital diaphragmatic hernia nonsurvivors who did not receive lorazepam (p < 0.001). A decrease in fentanyl clearance correlated with renal dysfunction (p < 0.01). A bolus of fentanyl followed by infusion of relatively low doses (1 to 5 micrograms/kg/hr) provides adequate analgesia for infants on extracorporeal membrane oxygenation, particularly when it is supplemented with intravenous lorazepam whenever needed to control infant movement.


Subject(s)
Analgesia , Extracorporeal Membrane Oxygenation , Fentanyl/blood , Female , Fentanyl/administration & dosage , Hernia, Diaphragmatic/mortality , Hernias, Diaphragmatic, Congenital , Humans , Infant , Infant, Newborn , Infusions, Intravenous , Lorazepam/therapeutic use , Male , Prospective Studies , Radioimmunoassay , Time Factors
19.
Nebr Med J ; 77(2): 34-7, 1992 Feb.
Article in English | MEDLINE | ID: mdl-1574157

ABSTRACT

Home apnea monitoring is highly controversial. A system for determining which infants are at risk, who to monitor, how long to monitor and when to discontinue home monitors has been presented. This view is based on our clinical experience and review of the literature.


Subject(s)
Apnea/prevention & control , Home Care Services , Monitoring, Physiologic , Sudden Infant Death/prevention & control , Apnea/complications , Humans , Infant, Newborn , Monitoring, Physiologic/methods , Nebraska , Risk Factors , Sudden Infant Death/etiology
20.
J Clin Endocrinol Metab ; 73(5): 1062-6, 1991 Nov.
Article in English | MEDLINE | ID: mdl-1939520

ABSTRACT

A consecutive cohort of 87 infants (46 infants less than 37 weeks gestational age and 41 term infants greater than or equal to 37 weeks gestation) admitted to the Neonatal Intensive Care Unit (NICU) and a convenience cohort of 27 term well babies at the University of Nebraska Medical Center (Omaha, NE) were evaluated for plasma beta-endorphin (beta E) levels during the first 4 h after birth. Demographic data, maternal history, and respiratory status at the time of sampling as well as development of documented apneic episodes during the initial hospitalization were analyzed for all infants. All NICU infants had higher plasma beta E levels than the control infants. Premature infants had significantly higher neonatal plasma beta E levels than term infants in either the control or NICU groups, but the response was gender specific; premature males had higher plasma beta E than premature females (P = 0.008). Perinatal stress, including respiratory problems, was associated with the increase in plasma beta E, but prematurity and being male were significantly predictors of an elevated plasma beta E level. Immaturity in respiratory control, as evaluated by the development of documented apneic episodes during the infant's initial hospitalization, did not correlate with an elevated perinatal plasma beta E level.


Subject(s)
Apnea/blood , Infant, Newborn/blood , Infant, Premature/blood , Respiration , beta-Endorphin/blood , Apgar Score , Cohort Studies , Delivery, Obstetric , Female , Gestational Age , Humans , Intensive Care Units, Neonatal , Male , Pregnancy , Reference Values , Sex Characteristics
SELECTION OF CITATIONS
SEARCH DETAIL
...