The crystal structure of human PAPS synthetase 1 reveals asymmetry in substrate binding

Journal of Molecular Biology

Volumn 347, Issue 3, 2005, Pages 623-635

  Harjes, Stefan ^a,b   Bayer, Peter ^a,b   Scheidig, Axel J ^c  

^a MAX PLANCK INSTITUTE OF MOLECULAR PHYSIOLOGY   (Germany)

^b Interdisciplinary Center for Magnetic Resonance (IZMR)   (Germany)

^c SAARLAND UNIVERSITY   (Germany)

Author keywords

Adenosine phosphosulfate; Asymmetric homodimer; P loop; Phosphoadenosine phosphosulfate

Indexed keywords

ADENOSINE 3' PHOSPHATE 5' PHOSPHOSULFATE; ADENOSINE DIPHOSPHATE; ADENYLYLSULFATE KINASE; SYNTHETASE;

ARTICLE; ASYMMETRIC SYNTHESIS; BINDING AFFINITY; CITRIC ACID CYCLE; COMPLEX FORMATION; CONFORMATIONAL TRANSITION; CONTROLLED STUDY; CORRELATION ANALYSIS; CRYSTAL STRUCTURE; DIMERIZATION; ENZYME ASSAY; ENZYME SUBSTRATE COMPLEX; HUMAN; MOLECULAR BIOLOGY; MOLECULAR INTERACTION; PRIORITY JOURNAL; REACTION ANALYSIS; SOLVATION; STRUCTURE ANALYSIS;

EID: 14744300141     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2005.01.005     Document Type: Article

References (36)

1. H. Choe, W. Li, P. Wright, N. Vasilieva, M. Venturi, and C. Huang Tyrosine sulfation of human antibodies contributes to recognition of the CCR5 binding region of HIV-1 gp120 Cell 114 2003 161 170
2. C. Falany Enzymology of human cytosolic sulfotransferases FASEB J. 11 1997 206 216
3. C. Klaassen, and J. Boles The importance of 3′-phosphoadenosine 5′-phosphosulfate (PAPS) in the regulation of sulfation FASEB J. 11 1997 404 418
4. M. Faiyaz ul Haque, L. King, D. Krakow, R. Cantor, M. Rusiniak, and R. Swank Mutations in orthologous genes in human spondyloepimetaphyseal dysplasia and the brachymorphic mouse Nature Genet. 20 1998 157 162
5. T. Ullrich, M. Blaesse, and R. Huber Crystal structure of ATP sulfurylase from Saccharomyces cerevisiae, a key enzyme in sulfate activation EMBO J. 20 2001 316 329
6. I. MacRae, I. Segel, and A. Fisher Crystal structure of ATP sulfurylase from Penicillium chrysogenum: insights into the allosteric regulation of sulfate assimilation Biochemistry 40 2001 6795 6804
7. I. MacRae, I. Segel, and A. Fisher Allosteric inhibition via R-state destabilization in ATP sulfurylase from Penicillium chrysogenum Nature Struct. Biol. 9 2002 945 949
8. I. MacRae, I. Segel, and A. Fischer Crystal structure of adenosine 5′-phosphosulfate kinase from Penicillium chrysogenum Biochemistry 39 2000 1613 1621
9. E. Lansdon, I. Segel, and A. Fischer Ligand-induced structural changes in adenosine 5′-phosphosulfate kinase from Penicillium chrysogenum Biochemistry 41 2002 13672 13680
10. S. Lyle, D. Ozeran, J. Stanczak, J. Westley, and N. Schwartz Intermediate channeling between atp sulfurylase and adenosine 5′-phosphosulfate kinase from rat chondrosarcoma Biochemistry 33 1994 6822 6827
11. E. Rosenthal, and T. Leustek A multifunctional Urechis caupo protein, PAPS synthetase, has both ATP sulfurylase and APS kinase activities Gene 165 1995 243 248
12. H. Fuda, C. Shimizu, Y. Lee, H. Akita, and C. Strott Characterization and expression of human bifunctional 3′-phophoadenosine 5′- phosphosulfate synthase isoforms Biochem. J. 365 2002 497 504
13. S. Harjes, A. Scheidig, and P. Bayer Expression, purification and crystallization of human 3′-phospho-adenosine-5′-phosphosulfate synthetase 1 Acta Crystallog. sect. D 60 2004 350 352
14. E. Lansdon, A. Fischer, and I. Segel Human 3′-phosphoadenosine 5′-phosphosulfate synthetase (isoform 1, brain): kinetic properties of the adenosine triphosphate sulfurylase and adenosine 5′-phosphosulfate kinase domains Biochemistry 43 2004 4356 4365
15. F. Bernstein, T. Koetzle, G. Williams, E. Meyer Jr., and M. Brice The protein data bank: a computer-based archival file for macromolecular structures J. Mol. Biol. 112 1977 535 542
16. L. Holm, and C. Sander Protein structure comparison by alignment of distance matices J. Mol. Biol. 233 1993 123 138
17. C. Hasemann, E. Istvan, K. Uyeda, and J. Deisenhofer The crystal structure of the bifunctional enzyme 6-phosphofructo-2-kinase/fructose-2,6- bisphosphatase reveals distinct domain homologies Structure 4 1996 1017 1029
18. K. Venkatachalam, H. Fuda, E. Koonin, and C. Strott Site-selected mutagenesis of a conserved nucleotide binding HXGH motif located in the ATP sulfurylase domain of human bifunctional 3′-phosphoadenosine-5′- phosphosulfate synthetase J. Biol. Chem. 274 1999 2601 2604
19. A. Deyrup, S. Krishnan, B. Singh, and N. Schwartz Activity and stability of recombinant bifunctional rearranged and monofunctional domains of ATP-sulfurylase and adenosine 5′-phosphosulfate kinase J. Biol. Chem. 274 1999 10751 10757
20. I. MacRae, A. Rose, and I. Segel Adenosine 5′-phosphosulfate kinase from Penicillium chrysogenum J. Biol. Chem. 273 1998 28583 28589
21. A. Deyrup, S. Krishnan, B. Cockburn, and N. Schwartz Deletion and site-directed mutagenesis of the ATP-binding motif in the bifunctional murine ATP-sulfurylase/adenosine 5′-phosphosulfate kinase enzyme J. Biol. Chem. 273 1998 9450 9456
22. R. Laskowski, M. MacArthur, and D.M.J. Thornton Procheck - a program to check the stereochemical quality of protein structures J. Appl. Crystallog. 26 1993 283 291
23. B. Singh, and N. Schwartz Identification and functional characterization of the novel BM-motif in the murine phosphoadenosine phosphosulfate (PAPS) synthetase J. Biol. Chem. 278 2003 71 75
24. T. Schneider, and G. Sheldrik Substructure solution with SHELXD Acta Crystallog. sect. D 58 2002 1771 1779
25. A. Vagin, and A. Teplyakov Molrep: an automated program for molecular replacement J. Appl. Crystallog. 30 1997 1022 1025
26. N. Guex, and M. Peitsch SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling Electrophoresis 18 1997 27142723
27. A.T. Brünger, P.D. Adams, G.M. Clore, W.L. DeLano, P. Gros, and R.W. Grosse-Kunstleve Crystallography and NMR system: a new software suite for macromolecular structure determination Acta Crystallog. sect. D 54 1998 905 921
28. D. McRee Xtalview/Xfit - a versatile program to manipulate atomic coordinates and electron density J. Struct. Biol. 125 1999 156 165
29. A. Perrakis, R. Morris, and V. Lamzin Automated protein model building combined with iterative structure refinement Nature Struct. Biol. 6 1999 458 463
30. G. Murshudov, A.A. Vagin, and E.J. Dodson Refinement of macromolecular structures by the maximum-likelihood method Acta Crystallog. sect. D 53 1997 240 255
31. CCP4 CCP4 suite: programs for protein crystallography Acta Crystallog. sect. D 50 1994 760 763
32. K. Meagher, L. Redman, and H. Carlson Development of polyphosphate parameters for use with the amber force field J. Comput. Chem. 24 2003 1016 1025
33. W. Kabsch Automatic processing of rotation diffraction data from crystals of initially unknown symmetry and cell constants J. Appl. Crystallog. 26 1993 795 800
34. K. Venkatachalam, H. Akita, and C. Strott Molecular cloning, expression, and characterization of human bifunctional 3′-phosphoadenosine 5′-phosphosulfate synthase and its functional domains J. Biol. Chem. 273 1998 19311 19320
35. W. Kabsch, and C. Sander Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features Biopolymers 22 1983 2577 2637
36. P. Gouet, E. Courcelle, D. Stuart, and F. Metoz ESPript: multiple sequence alignments in postscript Bioinformatics 15 1999 305 308