The structural basis of the catalytic mechanism and regulation of glucose-1-phosphate thymidylyltransferase (RmlA)

EMBO Journal

Volumn 19, Issue 24, 2000, Pages 6652-6663

  Blankenfeldt, Wulf ^a   Asuncion, Miryam ^a   Lam, Joseph S ^b   Naismith, James H ^a  

^a UNIVERSITY OF ST ANDREWS   (United Kingdom)

^b UNIVERSITY OF GUELPH   (Canada)

Author keywords

Drug design; Nucleotidyltransferase; Pseudomonas aeruginosa; Pyrophosphorylase; Rhamnose

Indexed keywords

BACTERIAL ENZYME; GLUCOSE 1 PHOSPHATE THYMIDYLTRANSFERASE; MEMBRANE PROTEIN; NUCLEOTIDYLTRANSFERASE; RHAMNOSE; THYMIDINE DERIVATIVE; THYMIDINE DIPHOSPHATE; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL CELL WALL; CARBOHYDRATE SYNTHESIS; CATALYSIS; COMPLEX FORMATION; CONTROLLED STUDY; DIMERIZATION; DRUG DESIGN; DRUG TARGETING; ENZYME STRUCTURE; NONHUMAN; PRIORITY JOURNAL; PROTEIN DOMAIN; PSEUDOMONAS AERUGINOSA; REGULATORY MECHANISM; STRUCTURE ACTIVITY RELATION;

AMINO ACID SEQUENCE; ANIMALS; BINDING SITES; CAENORHABDITIS ELEGANS; CATALYSIS; CLONING, MOLECULAR; CRYSTALLOGRAPHY, X-RAY; ESCHERICHIA COLI; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTAGENESIS, SITE-DIRECTED; NUCLEOSIDE DIPHOSPHATE SUGARS; NUCLEOTIDYLTRANSFERASES; PROTEIN STRUCTURE, SECONDARY; PROTEIN SUBUNITS; PSEUDOMONAS AERUGINOSA; RECOMBINANT PROTEINS; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID; THYMINE NUCLEOTIDES;

BACTERIA (MICROORGANISMS); PSEUDOMONAS; PSEUDOMONAS AERUGINOSA;

EID: 0034671801     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/19.24.6652     Document Type: Article

References (57)

1. Overexpression, purification, crystallisation and preliminary structural study of dTDP-4,6-glucose dehydratase (RmlB) the second enzyme of the dTDP-rhamnose synthesis pathway, from Salmonella entrica serovar Typhimurim
2. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
3. Allosteric sites of the large subunit of the spinach leaf ADPglucose pyrophosphorylase
4. Adenosine 5′-diphosphate-glucose pyrophosphorylase from potato tuber. Significance of the N terminus of the small subunit for catalytic properties and heat stability
5. ADP-glucose pyrophosphorylase from potato tubers. Site-directed mutagenesis studies of the regulatory sites
6. Control aspects of uridine 5′-diphosphate glucose and thymidine 5′-diphosphate glucose synthesis by microbial enzymes
7. Crystallization and preliminary X-ray diffraction analysis of the catalytic subunit of ADP-glucose pyrophosphorylase from potato tuber
8. The purification, crystallisation and preliminary structural characterisation of glucose-1-phosphate thymidylyltransferase (RmlA), the first enzyme of the dTDP-L-rhamnose synthesis pathway from Pseudomonas aeruginosa
9. Crystal structure of the bifunctional N-acetylglucosamine 1-phosphate uridyltransferase from Escherichia coli: A paradigm for the related pyrophosphorylase superfamily
10. Crystallography and NMR system: A new software suite for macromolecular structure determination
11. Structure of the nucleotide-diphospho-sugar transferase, SpsA from Bacillus subtilis, in native and nucleotide-complexed forms
12. Crystal structure of dTDP-4-keto-6-deoxy-D-hexulose 3,5-epimerase from Methanobacterium thermoautotrophicum complexed with dTDP
13. The CCP4 suite: Programs for protein crystallography
14. Recognition of multiple effects of ethambutol on metabolism of mycobacterial cell envelope
15. Preparation of selenomethionyl proteins for phase determination
16. An extensively modified version of MolScript that includes greatly enhanced coloring capabilities
17. Overexpression, purification, crystallisation and preliminary structural study of dTDP-6-deoxy-lyxo-4-reductase (RmlD) the fourth enzyme of the dTDP-rhanose synthesis pathway, from Salmonella entrica serovar Typhimurim
18. RmlC, the third enzyme of dTDP-L-rhamnose pathway, is a new class of epimerase
19. ESPript: Analysis of multiple sequence alignments in PostScript
20. Characterization of dTDP-4-dehydrorhamnose 3,5-epimerase and dTDP-4-dehydrorhamnose reductase, required for dTDP-L-rhamnose biosynthesis in Salmonella enterica serovar Typhimurium LT2
21. Aspartic acid 413 is important for the normal allosteric functioning of ADP-glucose pyrophosphorylase
22. The structural basis for pyrophophatase catalysis
23. Mutagenesis of a catalytic residue of ADP-glucose pyrophosphorylase from Escherichia coli
24. Protein structure comparison by alignment of distance matrices
25. Regulatory and structural properties of the cyanobacterial ADP-glucose pyrophosphorylase
26. Characterization of the kinetic, regulatory, and structural properties of ADP-glucose pyrophosphorylase from Chlamydomonas reinhardtii
27. Improved methods for building protein models in electron-density maps and the location of errors in these models
28. Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
29. PROCHECK: A program to check the stereochemical quality of protein structures
30. Purification, characterization and HPLC assay of Salmonella glucose-1-phosphate thymidylyl-transferase from the cloned rfbA gene
31. Determination of the pathway for rhamnose biosynthesis in mycobacteria: Cloning, sequencing and expression of the mycobacterium tuberculosis gene encoding α-D-glucose-1-phosphate thymidylyltransferase
32. Evidence for the nature of the link between the arabinogalactan and peptidoglycan of mycobacterial cell walls
33. The nucleotide specificity and feedback control of thymidine diphosphate D-glucose pyrophosphorylase
34. Concanavalin A distorts the GlcNAc b1-2 man linkage of the pentasaccharide core upon binding
35. Crystallization and preliminary diffraction data of Escherichia coli ADP glucose pyrophosphorylase
36. Refinement of macromolecular structures by the maximum-likelihood method
37. A continuous spectrophotometric assay for argininosuccinate synthetase based on pyrophosphate formation
38. CATH-a hierarchic classification of protein domain structures
39. Isolation and characterization of the pyridoxal-P allosteric activator site and the ADP-glucose protected pyridoxal-P binding site of Escherichia coli B ADP-glucose synthase
40. The kinetic mechanism of adenosine diphosphoglucose pyrophosphorylase from Rhodospirillum rubrum
41. Structural investigation of the antibiotic and ATP-binding sites in kanamycin nucleotidyltransferase
42. Automated protein model building combined with iterative structure refinement
43. Regulation of the biosynthesis and the degradation of starch
44. Bacterial glycogen synthesis and its regulation
45. Biology and molecular biology of starch synthesis and its regulation
46. Physiology, biochemistry and genetics of bacterial glycogen synthesis
47. Cloning of cDNA for the γ-subunit of mammalian translation initiation factor 2B, the guanine nucleotide-exchange factor for eukaryotic initiation factor 2
48. Involvement of the rml locus in core oligosaccharide and O polysaccharide assembly in Pseudomonas aeruginosa
49. Continuous and discontinuous domains: An algorithm for the automatic generation of reliable protein domain definitions
50. Protein Data Bank (PDB): Database of three-dimensional structural information of biological macromolecules
51. Automated MAD and MIR structure solution
52. Liver alcohol dehydrogenase. II. Kinetics of the compound of horse-liver alcohol dehydrogenase and reduced diphospho pyridene nucleotide
53. The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
54. LIGPLOT: A program to generate schematic diagrams of protein-ligand interactions
55. MOLREP: An Automated Program for Molecular Replacement