Crystal structures of a meta-cleavage product hydrolase from Pseudomonas fluorescens IP01 (CumD) complexed with cleavage products

Protein Science

Volumn 11, Issue 9, 2002, Pages 2184-2195

  Fushinobu, Shinya ^a   Saku, Takashi ^a   Hidaka, Masafumi ^a   Jun, So Young ^a   Nojiri, Hideaki ^a   Yamane, Hisakazu ^a   Shoun, Hirofumi ^a   Omori, Toshio ^a   Wakagi, Takayoshi ^a  

^a UNIVERSITY OF TOKYO   (Japan)

Author keywords

hydrolase; ketolase; Competitive inhibition; Cumene degradation; PCB; Structure function relationship; Substrate specificity; X ray crystallography

Indexed keywords

2 HYDROXY 6 OXO 7 METHYLOCTA 2,4 DIENOATE HYDROLASE; ACETIC ACID; CARBOXYL GROUP; CARBOXYLIC ACID DERIVATIVE; CUMENE; HYDROLASE; ISOBUTYRIC ACID; UNCLASSIFIED DRUG; PROTEIN SUBUNIT;

ARTICLE; COMPLEX FORMATION; CRYSTAL STRUCTURE; ENZYME ACTIVE SITE; ENZYME DEGRADATION; ENZYME SPECIFICITY; ENZYME STRUCTURE; HYDROGEN BOND; HYDROLYSIS; NONHUMAN; PRIORITY JOURNAL; PSEUDOMONAS FLUORESCENS; RHODOCOCCUS; AMINO ACID SEQUENCE; BINDING SITE; CHEMICAL STRUCTURE; CHEMISTRY; ENZYMOLOGY; METABOLISM; MOLECULAR GENETICS; PROTEIN CONFORMATION; SEQUENCE ALIGNMENT; X RAY CRYSTALLOGRAPHY;

AMINO ACID SEQUENCE; BINDING SITES; CRYSTALLOGRAPHY, X-RAY; HYDROLASES; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MOLECULAR STRUCTURE; PROTEIN CONFORMATION; PROTEIN SUBUNITS; PSEUDOMONAS FLUORESCENS; SEQUENCE ALIGNMENT; SUBSTRATE SPECIFICITY; SUPPORT, NON-U.S. GOV'T;

BACTERIA (MICROORGANISMS); NEGIBACTERIA; PSEUDOMONAS; PSEUDOMONAS FLUORESCENS; RHODOCOCCUS; RHODOCOCCUS SP.;

EID: 0036708001     PISSN: 09618368     EISSN: None     Source Type: Journal    
DOI: 10.1110/ps.0209602     Document Type: Article

References (51)

1. Cloning, nucleotide sequence, and characterization of the genes encoding enzymes involved in the degradation of cumene to 2-hydroxy-6-oxo-7-methylocta-2,4-dienoic acid in Pseudomonas fluorescens IP01
2. Influence of chlorine substitution pattern on the degradation of polychlorinated biphenyls by eight bacterial strains
3. Recent changes to RasMol, recombining the variants
4. Polycyclic aromatic hydrocarbons in soils and recent sediments
5. Crystallography and NMR system: A new software suite for macromolecular structure determination
6. Toluene degradation pathway from Pseudomonas putida Fl: Substrate specificity and gene induction by 1-substituted benzenes
7. SPOCK: Real-time collaborative molecular modeling
8. Biochemistry of aromatic hydrocarbon degradation in Pseudomonads
9. Isopropylbenzene catabolic pathway in Pseudomonas putida RE204: Nucleotide sequence analysis of the ipb operon and neighboring DNA from pRE4
10. Catalytic mechanism of a C-C hydrolase enzyme: Evidence for a gem-diol intermediate, not an acyl enzyme
11. Cloning of a gene cluster encoding biphenyl and chlorobiphenyl degradation in Pseudomonas pseudoalcaligenes
12. Effect of chlorine substitution on the bacterial metabolism of various polychlorinated biphenyls
13. Gene components responsible for discrete substrate specificity in the metabolism of biphenyl (bph operon) and toluene (tod operon)
14. ESPript: Multiple sequence alignments in PostScript
15. Analysis of cumene (isopropylbenzene) degradation genes from Pseudomonas fluorescens IPO1
16. Cloning and nucleotide sequences of the genes involved in the meta-cleavage pathway of cumene degradation in Pseudomonasflourescens IP01
17. Of barn owls and bankers: A lush variety of α/β hydrolases
18. Pre-steady-state kinetic analysis of 2-hydroxy-6-keto-nona-2,4-diene-1,9-dioic acid 5,6-hydrolase: Kinetic evidence for enol/keto tautomerization
19. Identification of a serine hydrolase which cleaves the alicyclic ring of tetralin
20. Sedimentary polycyclic aromatic hydrocarbons: The historical record
21. Improved methods for building protein models in electron density maps and the location of errors in these models
22. Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
23. Priority pollutants, I: A perspective view
24. MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures
25. Purification, characterization, and stereochemical analysis of a C-C hydrolase: 2-Hydroxy-6-keto-nona-2,4-diene-1,9-dioic acid 5,6-hydrolase
26. XtalView/Xfit: A versatile program for manipulating atomic coordinates and electron density
27. Location and sequence of the todF gene encoding 2-hydroxy-6-oxohepta-2,4-dienoate hydrolase in Pseudomonas putida Fl
28. Raster3D: Photorealistic molecular graphics
29. Crystal structure of 2-hydroxy-6-oxo-6-phenyihexa-2,4dienoic acid (HPDA) hydrolase (BphD enzyme) from the Rhodococcus sp. strain RHAI of the PCB degradation pathway
30. α/β-Hydrolase fold enzymes: The family keeps growing
31. AMORE: An automated package for molecular replacement
32. The α/β hydrolase fold
33. Purification and some properties of a 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoic acid hydrolyzing enzyme from Pseudomonas cruciviae S93BI involved in the degradation of biphenyl
34. Processing of X-ray diffraction data collected in oscilation mode
35. β-ketolases: Forgotten hydrophobic enzymes?
36. The Rossmann Fourier autoindexing algorithm in MOS-FLM
37. Purification, characterization, and steady-state kinetics of a meta-cleavage compound hydrolase from Pseudomonas fluoescens IPOL
38. Identification of a serine hydrolase as a key determinant in the microbial degradation of polychlorinated biphenyls
39. Purification and preliminary characterization of a serine hydrolase involved in the microbial degradation of polychlorinated biphenyls
40. Comparative specificities of two evolutionarily divergent hydrolases involved in microbial degradation of polychlorinated biphenyls
41. Conversion of chlorobiphenyls into phenyihexadienoates and benzoates by the enzymes of the upper pathway for polychlorobiphenyl degradation encoded by the bph locus of Pseudomonas sp. strain LB400
42. An algorithm for automatic indexing of oscillation images using Fourier analysis
43. The CLUSTAL_X windows interface: Flexible strategies for multiple alignment aided by quality analysis tools
44. Designing microorganisms for the treatment of toxic wastes
45. MOLREP: An automated program for molecular replacement
46. Molecular mechanisms of genetic adaptation to xenobiotic compounds
47. LIGPLOT: A proygram to generate schematic diagrams of protein-ligand interactions
48. Two nearly identical aromatic compound hydrolase genes in a strong polychlorinated biphenyl degrader, Rhodococcus sp. strain RHA1
49. Aromatic hydrocarbon degradation: A molecular approach