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A magic triangle for experimental phasing of macromolecules.

Beck T, Krasauskas A, Gruene T, Sheldrick GM
Acta Crystallogr D Biol Crystallogr 64 1179-82 (2008)
Related entries: 3e3d, 3e3t

Cited: 27 times
EuropePMC logo PMID: 19020357

Abstract

Obtaining phase information for the solution of macromolecular structures is still one of the bottlenecks in X-ray crystallography. 5-Amino-2,4,6-triiodoisophthalic acid (I3C), in which three covalently bound iodines form an equilateral triangle, was incorporated into proteins in order to obtain phases by single-wavelength anomalous dispersion (SAD). An improved binding capability compared with simple heavy-metal ions, ready availability, improved recognition of potential heavy-atom sites and low toxicity make I3C particularly suitable for experimental phasing.

Reviews citing this publication (2)

  1. SAD phasing: History, current impact and future opportunities. Rose JP, Wang BC. Arch. Biochem. Biophys. 602 80-94 (2016)
  2. Heavy Atom Detergent/Lipid Combined X-ray Crystallography for Elucidating the Structure-Function Relationships of Membrane Proteins. Hanashima S, Nakane T, Mizohata E. Membranes (Basel) 11 823 (2021)

Articles citing this publication (25)

  1. SAD phasing using iodide ions in a high-throughput structural genomics environment. Abendroth J, Gardberg AS, Robinson JI, Christensen JS, Staker BL, Myler PJ, Stewart LJ, Edwards TE. J. Struct. Funct. Genomics 12 83-95 (2011)
  2. Dimerization of plant defensin NaD1 enhances its antifungal activity. Lay FT, Mills GD, Poon IK, Cowieson NP, Kirby N, Baxter AA, van der Weerden NL, Dogovski C, Perugini MA, Anderson MA, Kvansakul M, Hulett MD. J. Biol. Chem. 287 19961-19972 (2012)
  3. Crystal structure of the outer membrane protein RcsF, a new substrate for the periplasmic protein-disulfide isomerase DsbC. Leverrier P, Declercq JP, Denoncin K, Vertommen D, Hiniker A, Cho SH, Collet JF. J. Biol. Chem. 286 16734-16742 (2011)
  4. Structures of the human poly (ADP-ribose) glycohydrolase catalytic domain confirm catalytic mechanism and explain inhibition by ADP-HPD derivatives. Tucker JA, Bennett N, Brassington C, Durant ST, Hassall G, Holdgate G, McAlister M, Nissink JW, Truman C, Watson M. PLoS ONE 7 e50889 (2012)
  5. Assembly of Multi-tRNA Synthetase Complex via Heterotetrameric Glutathione Transferase-homology Domains. Cho HY, Maeng SJ, Cho HJ, Choi YS, Chung JM, Lee S, Kim HK, Kim JH, Eom CY, Kim YG, Guo M, Jung HS, Kang BS, Kim S. J. Biol. Chem. 290 29313-29328 (2015)
  6. Stereochemical determinants of C-terminal specificity in PDZ peptide-binding domains: a novel contribution of the carboxylate-binding loop. Amacher JF, Cushing PR, Bahl CD, Beck T, Madden DR. J. Biol. Chem. 288 5114-5126 (2013)
  7. Halogen-enriched fragment libraries as chemical probes for harnessing halogen bonding in fragment-based lead discovery. Zimmermann MO, Lange A, Wilcken R, Cieslik MB, Exner TE, Joerger AC, Koch P, Boeckler FM. Future Med Chem 6 617-639 (2014)
  8. Structural insights into the T6SS effector protein Tse3 and the Tse3-Tsi3 complex from Pseudomonas aeruginosa reveal a calcium-dependent membrane-binding mechanism. Lu D, Shang G, Zhang H, Yu Q, Cong X, Yuan J, He F, Zhu C, Zhao Y, Yin K, Chen Y, Hu J, Zhang X, Yuan Z, Xu S, Hu W, Cang H, Gu L. Mol. Microbiol. 92 1092-1112 (2014)
  9. Crystal structure of a lipoxygenase from Cyanothece sp. may reveal novel features for substrate acquisition. Newie J, Andreou A, Neumann P, Einsle O, Feussner I, Ficner R. J. Lipid Res. 57 276-287 (2016)
  10. Structural Insight into African Swine Fever Virus A179L-Mediated Inhibition of Apoptosis. Banjara S, Caria S, Dixon LK, Hinds MG, Kvansakul M. J. Virol. 91 (2017)
  11. The atypical response regulator protein ChxR has structural characteristics and dimer interface interactions that are unique within the OmpR/PhoB subfamily. Hickey JM, Lovell S, Battaile KP, Hu L, Middaugh CR, Hefty PS. J. Biol. Chem. 286 32606-32616 (2011)
  12. Membrane protein structure determination by SAD, SIR, or SIRAS phasing in serial femtosecond crystallography using an iododetergent. Nakane T, Hanashima S, Suzuki M, Saiki H, Hayashi T, Kakinouchi K, Sugiyama S, Kawatake S, Matsuoka S, Matsumori N, Nango E, Kobayashi J, Shimamura T, Kimura K, Mori C, Kunishima N, Sugahara M, Takakyu Y, Inoue S, Masuda T, Hosaka T, Tono K, Joti Y, Kameshima T, Hatsui T, Yabashi M, Inoue T, Nureki O, Iwata S, Murata M, Mizohata E. Proc. Natl. Acad. Sci. U.S.A. 113 13039-13044 (2016)
  13. Functional insights from the crystal structure of the N-terminal domain of the prototypical toll receptor. Gangloff M, Arnot CJ, Lewis M, Gay NJ. Structure 21 143-153 (2013)
  14. X-ray vs. NMR structure of N-terminal domain of δ-subunit of RNA polymerase. Demo G, Papoušková V, Komárek J, Kadeřávek P, Otrusinová O, Srb P, Rabatinová A, Krásný L, Žídek L, Sklenář V, Wimmerová M. J. Struct. Biol. 187 174-186 (2014)
  15. A complement to the modern crystallographer's toolbox: caged gadolinium complexes with versatile binding modes. Stelter M, Molina R, Jeudy S, Kahn R, Abergel C, Hermoso JA. Acta Crystallogr D Biol Crystallogr 70 1506-1516 (2014)
  16. An asymmetric sheath controls flagellar supercoiling and motility in the leptospira spirochete. Gibson KH, Trajtenberg F, Wunder EA, Brady MR, San Martin F, Mechaly A, Shang Z, Liu J, Picardeau M, Ko A, Buschiazzo A, Sindelar CV. Elife 9 (2020)
  17. Structure of the Toll/Interleukin-1 Receptor (TIR) Domain of the B-cell Adaptor That Links Phosphoinositide Metabolism with the Negative Regulation of the Toll-like Receptor (TLR) Signalosome. Halabi S, Sekine E, Verstak B, Gay NJ, Moncrieffe MC. J. Biol. Chem. 292 652-660 (2017)
  18. Ligand Incorporation into Protein Microcrystals for MicroED by On-Grid Soaking. Martynowycz MW, Gonen T. Structure 29 88-95.e2 (2021)
  19. Simplified heavy-atom derivatization of protein structures via co-crystallization with the MAD tetragon tetrabromoterephthalic acid. Truong JQ, Nguyen S, Bruning JB, Shearwin KE. Acta Crystallogr F Struct Biol Commun 77 156-162 (2021)
  20. Crystalline protein scaffolds as a defined environment for the synthesis of bioinorganic materials. Künzle M, Lach M, Beck T. Dalton Trans 47 10382-10387 (2018)
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