Structure of the 3.3MDa, in vitro assembled, hubless bacteriophage T4 baseplate

Journal of Structural Biology

Volumn 187, Issue 2, 2014, Pages 95-102

  Yap, Moh Lan ^a   Klose, Thomas ^a   Plevka, Pavel ^a   Aksyuk, Anastasia ^a   Zhang, Xinzheng ^a   Arisaka, Fumio ^b   Rossmann, Michael G ^a  

^a PURDUE UNIVERSITY   (United States)

^b TOKYO INSTITUTE OF TECHNOLOGY   (Japan)

Author keywords

Bacteriophage T4; Baseplate; Low resolution; X ray crystallography

Indexed keywords

3,4 METHYLENEDIOXYAMPHETAMINE; GLYCOPROTEIN; GLYCOPROTEIN GP 10; GLYCOPROTEIN GP 100; GLYCOPROTEIN GP 11; GLYCOPROTEIN GP 12; GLYCOPROTEIN GP 27; GLYCOPROTEIN GP 5; GLYCOPROTEIN GP 6; GLYCOPROTEIN GP 8; GLYCOPROTEIN GP 9; UNCLASSIFIED DRUG; GLYCOPROTEIN 8, BACTERIOPHAGE T4; VIRUS PROTEIN;

ARTICLE; BACTERIOPHAGE T4; CONTROLLED STUDY; CRYSTAL STRUCTURE; ELECTRON MICROSCOPY; ESCHERICHIA COLI; GENE PRODUCT; HOST CELL; IN VITRO STUDY; NONHUMAN; PRIORITY JOURNAL; PROTEIN EXPRESSION; PROTEIN PURIFICATION; SIGNAL NOISE RATIO; STRUCTURE ANALYSIS; X RAY CRYSTALLOGRAPHY; CHEMISTRY; ENTEROBACTERIA PHAGE T4; GENETICS; PROTEIN CONFORMATION; PROTEIN QUATERNARY STRUCTURE; PROTEIN TERTIARY STRUCTURE; VIRION;

ESCHERICHIA COLI;

BACTERIOPHAGE T4; CRYSTALLOGRAPHY, X-RAY; ESCHERICHIA COLI; GLYCOPROTEINS; PROTEIN CONFORMATION; PROTEIN STRUCTURE, QUATERNARY; PROTEIN STRUCTURE, TERTIARY; VIRAL PROTEINS; VIRION;

EID: 84905279784     PISSN: 10478477     EISSN: 10958657     Source Type: Journal    
DOI: 10.1016/j.jsb.2014.06.008     Document Type: Article

References (27)

1. Aksyuk A.A., Leiman P.G., Shneider M.M., Mesyanzhinov V.V., Rossmann M.G. The structure of gene product 6 of bacteriophage T4, the hinge-pin of the baseplate. Structure 2009, 17:800-808.
2. Argos P., Rossmann M.G. Determining heavy-atom positions using non-crystallographic symmetry. Acta Crystallogr. A 1974, 30:672-677.
3. Collaborative Computational Project N. The CCP4 suite: programs for protein crystallography. Acta Crystallogr. D Biol. Crystallogr. 1994, 50:760-763.
4. Crowther R.A., Lenk E.V., Kikuchi Y., King J. Molecular reorganization in the hexagon to star transition of the baseplate of bacteriophage T4. J. Mol. Biol. 1977, 116:489-523.
5. Cullis A.F., Muirhead H., Perutz M.F., Rossmann M.G., North A.C.T. The structure of haemoglobin. VIII. A three-dimensional Fourier synthesis at 5.5Å resolution: determination of the phase angles. Proc. R. Soc. Lond. 1961, A265:15-38.
6. DePonte D.P., Weierstall U., Schmidt K., Warner J., Spence J.C.H., Doak R.B. Gas dynamic virtual nozzle for generation of microscopic droplet streams. J. Phys. D: Appl. Phys. 2008, 41:195505.
7. Hattne J., Echols N., Tran R., Kern J., Gildea R.J., Brewster A.S., Alonso-Mori R., Glockner C., Hellmich J., Laksmono H., Sierra R.G., Lassalle-Kaiser B., Lampe A., Han G., Gul S., DiFiore D., Milathianaki D., Fry A.R., Miahnahri A., White W.E., Schafer D.W., Seibert M.M., Koglin J.E., Sokaras D., Weng T.C., Sellberg J., Latimer M.J., Glatzel P., Zwart P.H., Grosse-Kunstleve R.W., Bogan M.J., Messerschmidt M., Williams G.J., Boutet S., Messinger J., Zouni A., Yano J., Bergmann U., Yachandra V.K., Adams P.D., Sauter N.K. Accurate macromolecular structures using minimal measurements from X-ray free-electron lasers. Nat. Methods 2014, 11:545-548.
8. Jones T.A. A set of averaging programs. Molecular Replacement 1992, 91-105. SERC Daresbury Laboratory, Warrington. E.J. Dodson, S. Gover, W. Wolf (Eds.).
9. Karam J.D. Molecular Biology of Bacteriophage T4 1994, American Society for Microbiology, Washington, D.C.
10. Kikuchi Y., King J. Genetic control of bacteriophage T4 baseplate morphogenesis. I. Sequential assembly of the major precursor, in vivo and in vitro. J. Mol. Biol. 1975, 99:645-672.
11. Kikuchi Y., King J. Genetic control of bacteriophage T4 baseplate morphogenesis. II. Mutants unable to form the central part of the baseplate. J. Mol. Biol. 1975, 99:673-694.
12. Kikuchi Y., King J. Genetic control of bacteriophage T4 baseplate morphogenesis. III. Formation of the central plug and overall assembly pathway. J. Mol. Biol. 1975, 99:695-716.
13. Kleywegt G.J., Jones T.A. Halloween masks and bones. From First Map to Final Model 1994, 59-66. SERC Daresbury Laboratory, Daresbury, Warrington, U.K. S. Bailey, R. Hubbard, D. Waller (Eds.).
14. Kleywegt G.J., Jones T.A. XdlMAPMAN and xdlDATAMAN - programs for reformatting, analysis and manipulation of biomacromolecular electron-density maps and reflection data sets. Acta Crystallogr. D Biol. Crystallogr. 1996, 52:826-828.
15. Kleywegt G.J., Jones T.A. Software for handling macromolecular envelopes. Acta Crystallogr. D 1999, 55:941-944.
16. Kostyuchenko V.A., Leiman P.G., Chipman P.R., Kanamaru S., van Raaij M.J., Arisaka F., Mesyanzhinov V.V., Rossmann M.G. Three-dimensional structure of bacteriophage T4 baseplate. Nat. Struct. Biol. 2003, 10:688-693.
17. Kostyuchenko V.A., Chipman P.R., Leiman P.G., Arisaka F., Mesyanzhinov V.V., Rossmann M.G. The tail structure of bacteriophage T4 and its mechanism of contraction. Nat. Struct. Mol. Biol. 2005, 12:810-813.
18. Leiman P.G., Shneider M.M., Kostyuchenko V.A., Chipman P.R., Mesyanzhinov V.V., Rossmann M.G. Structure and location of gene product 8 in the bacteriophage T4 baseplate. J. Mol. Biol. 2003, 328:821-823.
19. Leiman P.G., Chipman P.R., Kostyuchenko V.A., Mesyanzhinov V.V., Rossmann M.G. Three-dimensional rearrangement of proteins in the tail of bacteriophage T4 on infection of its host. Cell 2004, 118:419-429.
20. Leiman P.G., Shneider M.M., Mesyanzhinov V.V., Rossmann M.G. Evolution of bacteriophage tails: structure of T4 gene product 10. J. Mol. Biol. 2006, 358:912-921.
21. McCoy A.J., Grosse-Kunstleve R.W., Adams P.D., Winn M.D., Storoni L.C., Read R.J. Phaser crystallographic software. J. Appl. Crystallogr. 2007, 40:658-674.
22. Otwinowski Z., Minor W. [20] Processing of X-ray diffraction data collected in oscillation mode. Methods in Enzymology Macromolecular Crystallography Part A 1997, 307-326. Academic Press. C.W. Carter, R.M. Sweet (Eds.).
23. Rossmann M.G., Blow D.M. The refinement of structures partially determined by the isomorphous replacement method. Acta Crystallogr. 1961, 14:641-647.
24. Rossmann M.G., Blow D.M. The detection of sub-units within the crystallographic asymmetric unit. Acta Crystallogr. 1962, 15:24-31.
25. Rossmann M.G., Bernal R., Pletnev S.V. Combining electron microscopic with X-ray crystallographic structures. J. Struct. Biol. 2001, 136:190-200.
26. Tong L., Rossmann M.G. The locked rotation function. Acta Crystallogr. A 1990, 46:783-792.
27. Yap M.L., Mio K., Leiman P.G., Kanamaru S., Arisaka F. The baseplate wedges of bacteriophage T4 spontaneously assemble into hubless baseplate-like structure in vitro. J. Mol. Biol. 2010, 395:349-360.