Crystal structure of NAD+-dependent Peptoniphilus asaccharolyticus glutamate dehydrogenase reveals determinants of cofactor specificity.

PubWeight™: 0.83‹?›

🔗 View Article (PMID 22068154)

Published in J Struct Biol on October 31, 2011

Authors

Tânia Oliveira1, Santosh Panjikar, John B Carrigan, Muaawia Hamza, Michael A Sharkey, Paul C Engel, Amir R Khan

Author Affiliations

1: School of Biochemistry and Immunology, Trinity College Dublin, Dublin 2, Ireland.

Articles by these authors

On the routine use of soft X-rays in macromolecular crystallography. Part IV. Efficient determination of anomalous substructures in biomacromolecules using longer X-ray wavelengths. Acta Crystallogr D Biol Crystallogr (2007) 1.78

Preconfiguration of the antigen-binding site during affinity maturation of a broadly neutralizing influenza virus antibody. Proc Natl Acad Sci U S A (2012) 1.70

Myosin V transports secretory vesicles via a Rab GTPase cascade and interaction with the exocyst complex. Dev Cell (2011) 1.50

Strictosidine synthase: mechanism of a Pictet-Spengler catalyzing enzyme. J Am Chem Soc (2008) 1.50

Structural basis for recruitment of Rab6-interacting protein 1 to Golgi via a RUN domain. Structure (2009) 1.50

Structure-based engineering of strictosidine synthase: auxiliary for alkaloid libraries. Chem Biol (2007) 1.46

Automated technologies and novel techniques to accelerate protein crystallography for structural genomics. Proteomics (2008) 1.43

The structural basis of signal transduction for the response regulator PrrA from Mycobacterium tuberculosis. J Biol Chem (2006) 1.34

Crystal structure of rab11 in complex with rab11 family interacting protein 2. Structure (2006) 1.32

The structure of Rauvolfia serpentina strictosidine synthase is a novel six-bladed beta-propeller fold in plant proteins. Plant Cell (2006) 1.32

On the routine use of soft X-rays in macromolecular crystallography. Part III. The optimal data-collection wavelength. Acta Crystallogr D Biol Crystallogr (2005) 1.30

C4-dicarboxylates sensing mechanism revealed by the crystal structures of DctB sensor domain. J Mol Biol (2008) 1.28

Crystal structure of vinorine synthase, the first representative of the BAHD superfamily. J Biol Chem (2005) 1.26

On the molecular pathology of neurodegeneration in IMPDH1-based retinitis pigmentosa. Hum Mol Genet (2004) 1.24

Poxvirus K7 protein adopts a Bcl-2 fold: biochemical mapping of its interactions with human DEAD box RNA helicase DDX3. J Mol Biol (2008) 1.22

Rab11-FIP3 is critical for the structural integrity of the endosomal recycling compartment. Traffic (2007) 1.14

Protein camouflage in cytochrome c-calixarene complexes. Nat Chem (2012) 1.12

On the influence of the incident photon energy on the radiation damage in crystalline biological samples. J Synchrotron Radiat (2005) 1.07

Structure of the motor subunit of type I restriction-modification complex EcoR124I. Nat Struct Mol Biol (2008) 1.06

Structural insights into the mechanism of protein O-fucosylation. PLoS One (2011) 1.06

Cyanuric acid hydrolase: evolutionary innovation by structural concatenation. Mol Microbiol (2013) 1.06

Molecular architecture of strictosidine glucosidase: the gateway to the biosynthesis of the monoterpenoid indole alkaloid family. Plant Cell (2007) 1.05

Structural basis for parasite-specific functions of the divergent profilin of Plasmodium falciparum. Structure (2008) 1.05

Role of glutathione in cancer pathophysiology and therapeutic interventions. J Exp Ther Oncol (2012) 1.04

3D-Structure and function of strictosidine synthase--the key enzyme of monoterpenoid indole alkaloid biosynthesis. Plant Physiol Biochem (2008) 1.02

Structural and functional aspects of the sensor histidine kinase PrrB from Mycobacterium tuberculosis. Structure (2006) 1.02

Structural basis for targeting of human RNA helicase DDX3 by poxvirus protein K7. Structure (2009) 1.01

The BC component of ABC toxins is an RHS-repeat-containing protein encapsulation device. Nature (2013) 1.00

The crystal structure of the herpes simplex virus 1 ssDNA-binding protein suggests the structural basis for flexible, cooperative single-stranded DNA binding. J Biol Chem (2004) 1.00

Nonprocessive [2 + 2]e- off-loading reductase domains from mycobacterial nonribosomal peptide synthetases. Proc Natl Acad Sci U S A (2012) 0.98

Purification and detailed study of two clinically different human glucose 6-phosphate dehydrogenase variants, G6PD(Plymouth) and G6PD(Mahidol): Evidence for defective protein folding as the basis of disease. Mol Genet Metab (2007) 0.98

The three-dimensional structure of the extracellular adhesion domain of the sialic acid-binding adhesin SabA from Helicobacter pylori. J Biol Chem (2013) 0.96

Crystal structures of a poplar thioredoxin peroxidase that exhibits the structure of glutathione peroxidases: insights into redox-driven conformational changes. J Mol Biol (2007) 0.96

Insights into ubiquitin-conjugating enzyme/ co-activator interactions from the structure of the Pex4p:Pex22p complex. EMBO J (2011) 0.96

Recombinant human glucose-6-phosphate dehydrogenase. Evidence for a rapid-equilibrium random-order mechanism. Eur J Biochem (2002) 0.95

The Y42H mutation in medium-chain acyl-CoA dehydrogenase, which is prevalent in babies identified by MS/MS-based newborn screening, is temperature sensitive. Eur J Biochem (2004) 0.94

Identification and characterization of multiple novel Rab-myosin Va interactions. Mol Biol Cell (2013) 0.94

Marked decrease in specific activity contributes to disease phenotype in two human glucose 6-phosphate dehydrogenase mutants, G6PD(Union) and G6PD(Andalus). Hum Mutat (2005) 0.92

Structural basis for the oxidation of protein-bound sulfur by the sulfur cycle molybdohemo-enzyme sulfane dehydrogenase SoxCD. J Biol Chem (2010) 0.91

Functional properties of two mutants of human glucose 6-phosphate dehydrogenase, R393G and R393H, corresponding to the clinical variants G6PD Wisconsin and Nashville. Biochim Biophys Acta (2006) 0.91

What is the role of the second "structural" NADP+-binding site in human glucose 6-phosphate dehydrogenase? Protein Sci (2008) 0.91

The crystal structure of the CRISPR-associated protein Csn2 from Streptococcus agalactiae. J Struct Biol (2012) 0.90

Chloroplasts assemble the major subunit FaeG of Escherichia coli F4 (K88) fimbriae to strand-swapped dimers. J Mol Biol (2007) 0.89

High-resolution structure of NodZ fucosyltransferase involved in the biosynthesis of the nodulation factor. Acta Biochim Pol (2007) 0.88

The structure of a full-length response regulator from Mycobacterium tuberculosis in a stabilized three-dimensional domain-swapped, activated state. J Biol Chem (2007) 0.88

Clinical mutants of human glucose 6-phosphate dehydrogenase: impairment of NADP(+) binding affects both folding and stability. Biochim Biophys Acta (2009) 0.87

Structural aspects of Rab6-effector complexes. Biochem Soc Trans (2009) 0.87

Cloning, expression, purification, crystallization and preliminary X-ray diffraction analysis of DapB (Rv2773c) from Mycobacterium tuberculosis. Acta Crystallogr Sect F Struct Biol Cryst Commun (2005) 0.86

Structure of lambda CII: implications for recognition of direct-repeat DNA by an unusual tetrameric organization. Proc Natl Acad Sci U S A (2005) 0.85

Purification, crystallization and preliminary X-ray diffraction analysis of aspartate semialdehyde dehydrogenase (Rv3708c) from Mycobacterium tuberculosis. Acta Crystallogr Sect F Struct Biol Cryst Commun (2008) 0.85

Metal binding to porcine pancreatic elastase: calcium or not calcium. Acta Crystallogr D Biol Crystallogr (2002) 0.85

High-resolution structure of Bombyx mori lipoprotein 7: crystallographic determination of the identity of the protein and its potential role in detoxification. Acta Crystallogr D Biol Crystallogr (2012) 0.85

On the routine use of soft X-rays in macromolecular crystallography. Part II. Data-collection wavelength and scaling models. Acta Crystallogr D Biol Crystallogr (2003) 0.85

Putative dioxygen-binding sites and recognition of tigecycline and minocycline in the tetracycline-degrading monooxygenase TetX. Acta Crystallogr D Biol Crystallogr (2013) 0.84

Structural characterization of the multidomain regulatory protein Rv1364c from Mycobacterium tuberculosis. Structure (2011) 0.84

Purification, crystallization and preliminary X-ray diffraction studies of Rab11 in complex with Rab11-FIP2. Acta Crystallogr Sect F Struct Biol Cryst Commun (2006) 0.84

An NSAID-like compound, FT-9, preferentially inhibits gamma-secretase cleavage of the amyloid precursor protein compared to its effect on amyloid precursor-like protein 1. Biochemistry (2009) 0.84

Structure of NADP(+)-dependent glutamate dehydrogenase from Escherichia coli--reflections on the basis of coenzyme specificity in the family of glutamate dehydrogenases. FEBS J (2013) 0.84

Apparent negative co-operativity and substrate inhibition in overexpressed glutamate dehydrogenase from Escherichia coli. FEMS Microbiol Lett (2008) 0.84

Phenylalanine dehydrogenase mutants: efficient biocatalysts for synthesis of non-natural phenylalanine derivatives. J Biotechnol (2006) 0.83

Poxvirus A46 protein binds to TIR domain-containing Mal/TIRAP via an α-helical sub-domain. Mol Immunol (2011) 0.83

Two novel variants of human medium chain acyl-CoA dehydrogenase (MCAD). K364R, a folding mutation, and R256T, a catalytic-site mutation resulting in a well-folded but totally inactive protein. FEBS J (2005) 0.83

On the routine use of soft X-rays in macromolecular crystallography. Part V. Molecular replacement and anomalous scattering. Acta Crystallogr D Biol Crystallogr (2011) 0.83

Structural insights into dissimilatory sulfite reductases: structure of desulforubidin from desulfomicrobium norvegicum. Front Microbiol (2011) 0.83

Additional phase information from UV damage of selenomethionine labelled proteins. J Synchrotron Radiat (2011) 0.83

Single amino acid substitution in Bacillus sphaericus phenylalanine dehydrogenase dramatically increases its discrimination between phenylalanine and tyrosine substrates. Biochemistry (2002) 0.82

A catalytic mechanism revealed by the crystal structures of the imidazolonepropionase from Bacillus subtilis. J Biol Chem (2006) 0.82

Structural basis and enzymatic mechanism of the biosynthesis of C9- from C10-monoterpenoid indole alkaloids. Angew Chem Int Ed Engl (2009) 0.82

Structural and functional analysis of FIP2 binding to the endosome-localised Rab25 GTPase. Biochim Biophys Acta (2013) 0.82

The discovery of four distinct glutamate dehydrogenase genes in a strain of Halobacterium salinarum. Gene (2005) 0.81

Scaffold tailoring by a newly detected Pictet-Spenglerase activity of strictosidine synthase: from the common tryptoline skeleton to the rare piperazino-indole framework. J Am Chem Soc (2012) 0.81

Structures of alkaloid biosynthetic glucosidases decode substrate specificity. ACS Chem Biol (2011) 0.81

Nonspecific base recognition mediated by water bridges and hydrophobic stacking in ribonuclease I from Escherichia coli. Protein Sci (2008) 0.81

Structural analysis reveals DNA binding properties of Rv2827c, a hypothetical protein from Mycobacterium tuberculosis. J Struct Funct Genomics (2009) 0.81

Purification, crystallization and preliminary X-ray analysis of the HsdR subunit of the EcoR124I endonuclease from Escherichia coli. Acta Crystallogr Sect F Struct Biol Cryst Commun (2007) 0.81

Kinetic characterisation of recombinant Corynebacterium glutamicum NAD+-dependent LDH over-expressed in E. coli and its rescue of an lldD- phenotype in C. glutamicum: the issue of reversibility re-examined. Arch Microbiol (2011) 0.81

Modular coenzyme specificity: a domain-swopped chimera of glutamate dehydrogenase. Proteins (2009) 0.81

Structural insight in histo-blood group binding by the F18 fimbrial adhesin FedF. Mol Microbiol (2012) 0.81

Plasmodium falciparum glutamate dehydrogenase a is dispensable and not a drug target during erythrocytic development. Malar J (2011) 0.81

Susceptibility of Plasmodium falciparum to glutamate dehydrogenase inhibitors--a possible new antimalarial target. Mol Biochem Parasitol (2010) 0.81

Expression, purification, crystallization and preliminary X-ray analysis of perakine reductase, a new member of the aldo-keto reductase enzyme superfamily from higher plants. Acta Crystallogr Sect F Struct Biol Cryst Commun (2006) 0.81

Prospects for robust biocatalysis: engineering of novel specificity in a halophilic amino acid dehydrogenase. Extremophiles (2012) 0.80

Probing the determinants of coenzyme specificity in Peptostreptococcus asaccharolyticus glutamate dehydrogenase by site-directed mutagenesis. FEBS J (2007) 0.80

Poxviral protein A52 stimulates p38 mitogen-activated protein kinase (MAPK) activation by causing tumor necrosis factor receptor-associated factor 6 (TRAF6) self-association leading to transforming growth factor β-activated kinase 1 (TAK1) recruitment. J Biol Chem (2013) 0.80

A comparison of two novel alcohol dehydrogenase enzymes (ADH1 and ADH2) from the extreme halophile Haloferax volcanii. Appl Microbiol Biotechnol (2012) 0.80

Glutamate dehydrogenase of Halobacterium salinarum: evidence that the gene sequence currently assigned to the NADP+-dependent enzyme is in fact that of the NAD+-dependent glutamate dehydrogenase. FEMS Microbiol Lett (2002) 0.80

A thermally sensitive loop in clostridial glutamate dehydrogenase detected by limited proteolysis. J Biol Chem (2002) 0.79

A lyophilized red grape pomace containing proanthocyanidin-rich dietary fiber induces genetic and metabolic alterations in colon mucosa of female C57BL/6J mice. J Nutr (2011) 0.79

Structural biology in plant natural product biosynthesis--architecture of enzymes from monoterpenoid indole and tropane alkaloid biosynthesis. Nat Prod Rep (2007) 0.79

An optimised system for refolding of human glucose 6-phosphate dehydrogenase. BMC Biotechnol (2009) 0.79

The X-ray structure of the N-terminal domain of PILB from Neisseria meningitidis reveals a thioredoxin-fold. J Mol Biol (2006) 0.79

Heterologous expression, purification, crystallization and preliminary X-ray analysis of raucaffricine glucosidase, a plant enzyme specifically involved in Rauvolfia alkaloid biosynthesis. Acta Crystallogr Sect F Struct Biol Cryst Commun (2006) 0.79

Re-engineering the discrimination between the oxidized coenzymes NAD+ and NADP+ in clostridial glutamate dehydrogenase and a thorough reappraisal of the coenzyme specificity of the wild-type enzyme. FEBS J (2011) 0.79

Efficient screening for new amino acid dehydrogenase activity: directed evolution of Bacillus sphaericus phenylalanine dehydrogenase towards activity with an unsaturated non-natural amino acid. J Biotechnol (2009) 0.79

Enantioselective synthesis of non-natural amino acids using phenylalanine dehydrogenases modified by site-directed mutagenesis. Org Biomol Chem (2004) 0.78

Crystallization of an engineered RUN domain of Rab6-interacting protein 1/DENND5. Acta Crystallogr Sect F Struct Biol Cryst Commun (2011) 0.78

Structure of the C-terminal domain of nsp4 from feline coronavirus. Acta Crystallogr D Biol Crystallogr (2009) 0.78

In-house UV radiation-damage-induced phasing of selenomethionine-labeled protein structures. J Struct Biol (2012) 0.78

Engineered dehydrogenase biocatalysts for non-natural amino acids: efficient isolation of the D-enantiomer from racemic mixtures. Org Biomol Chem (2008) 0.78