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Publications-alkaradaghi

Publications
1. Tverdislov, V.A., El Karadaghi, S., Martsenyuk, O.V., Gerasimova, E.N. (1980).
Lipoproteins of the blood plasma as modifiers of ionic permeability of artificial lipid membranes. Biophysika (Moscow) 25, 841-847.
2. Tverdislov, V.A., Martsenyuk, O.V., El Karadaghi, S., Perova, N.V.,
Gerasimova, E.N. (1982). Peculiarities of interactions of human plasma lipoproteins from patients with ischemic heart disease with bilayer lipid
membranes. Biophysika (Moscow) 27, 161-162.
3. Yuzhakov, V.I., El Karadaghi, S., Martsenyuk, O.V., Levshin, L.V., Tverdislov,
V.A. (1982). Spectroscopic investigation of the interaction of ANS and TNS with human plasma lipoproteins. J. Prikl. Spectrosc. 37, 771-776.
4. Belaya, M.L., El Karadaghi, S., Gorshkova, I.N., Tverdislov, V.A., (1983).
Interaction between plasma lipoproteins and bilayer lipid membranes. The role of surface charge. Biophysika (Moscow) 28, 254-259.
5. El Karadaghi, S., Ruuge, E.K., Tverdislov, V.A., Yuzhakov, V.I., Gorshkova,
I.N. (1983). Localisation of tryptophanyl residues in the low density lipoproteins of human plasma according to fluorescence paramagnetic quenching data.
Biophysika (Moscow) 28, 343-344.
6. Shimane, Ch., Pasechnik, V.I., Tverdislov, V.A., Kovaleva, N.S., Perova, N.V., El Karadaghi, S, Kharitonenkov, I.G., Martsenyuk, O.V. (1984). Change of
electrical and elastic-viscous properties of bilayer lipid membranes upon their
interaction with proteins and lipoproteins. Biophysica (Moscow) 29, 419-423.
7. Vatsiakov, B.I., Kharitonenkov, I.G., Rusiaev, B.A., Tverdislov, V.A., El
Karadaghi, S. & Feodorov, A.M. (1985). Investigation of the interaction of a
new anti-virus drug 2-(1'-aminoethyl)-bicyclo (2.2.1.) heptane hydrochloride with
model lipid membranes. Vest. Akad. Nauk BSSR, 4, 55-58.
8. Feodorov, A.N., El Karadaghi, S., Rusyaev, I.N., Kharitonenkov, I.G.,
Tverdislov, V.A., Yaroslavtseva, N.G. (1988). Study of the molecular mechanism of the antiviral affect of 2-(1'-aminoethyl)-bicyclo (2.2.1.) heptane hydrochloride. Vopr. Virusologii 4, 403-407.
9. Kharitonenkov, I.G., El Karadaghi, S., Feodorov, A.N., Zakomirdin, Y.A.,
Tverdislov, V.A. (1988). The effect of rimantadine and amantadine on the interaction of influenza virus proteins with model lipid membranes. Vopr. Virusologii, 1, 22-26.
10. Kharitonenkov, I.G., El Karadaghi, S., Bucher, D.J., Zakomirdin, J.A.,
Tverdislov, V.A. (1981). Interaction of influenza virus proteins with planar lipid
bilayers: a model for virion assembly. Biochem. Biophys. Res. Commun. 102,
11. El Karadaghi, S., Zakomirdin, J.A., Shimane, Ch., Bucher, D.J., Tverdislov,
V.A., Kharitonenkov, I.G. (1984). Interaction of influenza virus proteins with planar lipid membranes. I. Characterisation of their adsorption and incorporation into lipid bilayers. Biochem. Biophys. Acta 778, 269-275.
12. Tverdislov, V.A., El Karadaghi, S., Bucher, D.J., Zakomirdin, J.A.,
Kharitonenkov, I.G. (1984). Interaction of influenza virus proteins with planar lipid bilayers. II. Effects of rimantadine and amantadine. Biochem. Biophys. Acta 778, 276-280.
13. Tverdislov, V.A., El Karadaghi, S., Kharitonenkov, I.G., Glaser, R., Donath, E.
(1986). Interaction of antivirus agents rimantadine and amantadine with lipid bilayer membranes and the influence on the curvature of human red cells. Gen. Physiol. Biophys. 5, 61-75.
14. Al-Karadaghi, S., Wang, D.N., Hovmöller, S. (1988). Three-dimensional
structure of the crystalline surface layer from Aeromonas hydrophila. J. Ultrastructure Molec. Struc. Res. 101, 92-97.
15. Cedergren, E.S., Larsson, G., Hofman, I., Törnros, K.W., Al Karadaghi, S., Nyman, P-O. (1988). Crystallization and preliminary investigation of single crystals of deoxyuridine triphosphate nucleotidohydrolase from Escherichia Coli. Proteins 4, 71-75.
16. Al-Karadaghi, S., Cedergren-Zeppezauer, E.S., Hovmöller, S., Kyriakos, P.,
Terri, H., Dauter, Z. & Wilson, K. (1994). Refined crystal structure of alcohol dehydrogenase-NADH complex at 1.8 Å resolution. Acta Cryst. D50, 793-807.
17. Al-Karadaghi, S., Cedergren-Zeppezauer, E.S., Dauter, Z. & Wilson, K. (1995).
Refined crystal structure of Cu(II)-substituted alcohol dehydrogenase at 2.1 Å resolution. Acta Cryst. D51, 805-813.
18. Ævarsson, A., Brazhnikov, E., Garber, M., Zheltonosova, J., Chirgadze, Yu., Al
Karadaghi, S., Svensson, L.A., & Liljas, A. (1994). Three-dimensional structure
of the ribosomal translocase: elongation factor G from Thermus thermophilus.
EMBO J. 13, 3669-3677.
19. Davydova, N.L., Gryaznova, O.I., Maschenko, O.V., Vysotskaya, V.S., Jonsson, B.-H., Al-Karadaghi, S., Liljas, A. & Garber, M.B. (1995). Ribosomal protein
L22 from Thermus thermothilus: sequencing, overexpression and crystallization.
FEBS Lett. 369, 229-232.
20. Liljas, A., Ævarsson, A., Al-Karadaghi, S., Garber, M., Zheltonosova, J., &
Brazhnikov, E. (1995). Crystallographic studies of elongation factor G. Biochem. Cell Biol. 73, 1209-1216.
21. Hansson, M. & Al-Karadaghi, S. (1995). Purification, crystallisation and
preliminary X-ray analyses of Bacillus subtilis ferrochelatase. Proteins 23, 607-
22. Nikonov, S., Nevskaya, N., Eliseikina, I., Fomenkova, N., Nikulin, A., Ossina, N., Garber, M., Jonsson, B-H., Briand, C., Al-Karadaghi, S., Svensson, A.,
Ævarsson, A. & Liljas, A. (1996). Crystal structure of the RNA binding ribosomal
protein L1 from Thermus thermophilus. EMBO J. 15, 1350-1359.
23. Al-Karadaghi, S., Ævarsson, A., Garber, M., Zheltonosova, J & Liljas, A.
(1996). The structure of elongation factor G in complex with GDP: conformational flexibility and nucleotide exchange. Structure 4, 555-565.
24. Garber, M.B., et al., & Liljas, A., Ævarsson, A. & Al Karadaghi, S. (1996).
Crystallization and structural studies of components of the protein synthesis system from Thermus thermophilus. J. Cryst. Growth 168, 301-307.
25. Unge, J., Al-Karadaghi, S., Eliseikina, I., Jonsson, B.-H., Nikonov, S., Garber,
M. & Liljas, A. (1997). A mutant form of the ribosomal protein L1 reveals conformational flexibility. FEBS Let. 411, 53-59.
26. Al-Karadaghi, S., Hansson, M., Nikonov, S., Jönsson, B., Hederstdet, L. (1997).
Crystal structure of ferrochelatase - the terminal enzyme in heme biosynthesis. Structure 5, 1501-1510.
27. Nevskaya, N., Tishchenko, S., Nikulin, A., Al-Karadaghi, S., Liljas, A.,
Ehresmann, B., Ehresmann, C., Garber M. & Nikonov S.(1998). Crystal structure of ribosomal protein S8 from Thermus termophilus reveals a high degree of structural conservation of a specific RNA binding site. J. Mol. Biol. 279, 233-244.
28. Unge, J., Åberg, A., Al-Karadaghi, S., Nikulin, A., Nikonov, S., Davydova, N.,
Nevskaja, N., Garber, M. & Liljas, A. (1998). Crystal structure of ribosomal protein L22 from Thermus thermophilus: insights into the mechanism of
erythromycin resistance. Structure 6, 1577-1586.
29. Ursby, T. Adinolfi, B.S., Al-Karadaghi, S., De Vendittis, E. & Buccini, V.
(1999). Iron superoxide dismutase from the archaeon Sulfolobus sulfataricus : Analysis of structure and thermostability. J. Mol. Bio. 286, 189-205.
30. Willows, R., Hansson, M., Beale, S.I. & Al-Karadaghi, S. (1999). Crystallisation
and preliminary X-ray analysis of the Rhodobacter capsulatus magnesium chelatase BchI subunit. Acta Crystallogr. D55, 689-690.
31. Selmer, M., Al-Karadaghi, S., Kaji, A., Liljas A. (1999). Crystallisation and
preliminary X-ray analysis of Thermatoga mritima ribosome recycling factor., Acta Crystallogr. D55, 2049-2050.
32. Selmer, M., Al-Karadaghi, S., Hirokawa, G., Kaji, A. & Liljas, A. (1999).
Crystal structure of Thermatoga mritima ribosome recycling factor: A tRNA mimic. Science 286, 2349-2352.
33. Lecerof, D., Fodje, M., Hansson, A., Hansson, M. & Al-Karadaghi, S. (2000).
Structural and mechanistic basis for porphyrin metallation by ferrochelatase. J. Mol. Biol. 297, 221-232.
34. Nevskaya, N., Tischenko, S., Fedorov, R., Al-Karadaghi, S., Liljas, A., Kraft, A.,
Piendl, W., Garber, M., Nikonov, S. 2000. Archaeal ribosomal protein L1: the structure provides new insights into RNA binding of the L1 protein family. Structure 8, 363-371.
35. Fedorov, R. V., Meshcheryakov, V. A., Gongadze, G. M., Fomenkova, N. P., Nevskaya, N. A., Selmer, M., Laurberg, M., Kristensen, O., Al-Karadaghi, S.,
Liljas, A., Garber, M. and Nikonov, S. (2001). Structure of ribosomal protein TL5 complexed with RNA provides new insights into the CTC family of stress
proteins. Acta Crystallogr D Biol Crystallogr. 57, 968-976.
36. Fodje, M., Hansson, A., Hansson, M., Olsen, J. G., Gough, S., Willows, R. D.& Al-Karadaghi, S. (2001). Interplay between an AAA module and an integrin I
domain may regulate the function of magnesium chelatase. J. Mol. Biol. 311, 111-
37. Fodje, M & Al-Karadaghi, S. (2002). Occurrence, conformational features and
amino acid propensities for the π-helix. Prot. Eng. 15, 353-358.
38. Olsson, U., Billberg, A., Sjovall, S., Al-Karadaghi, S. & Hansson, M. (2002). In
vivo and in vitro studies of Bacillus subtilis ferrochelatase mutants suggest substrate channeling in the heme biosynthesis pathway. J. Bacteriol. 184, 4018-
4024.
39. Karlberg, T., Lecerof, D., Gora, M., Labbe-Bois R., Hansson, M. & Al-
Karadaghi, S. (2002). Metal binding to Saccharomyces cerevisiae ferrochelatase.
Biochemistry 41, 13499-506.
40. Lecerof, D., Fodje, M., León, R.A., Olsson, U., Hansson, A., Sigfridsson, E., Ryde, U, Hansson, M. & Al-Karadaghi, S. (2003). Metal binding to Bacillus
subtilis
ferrochelatase and interaction between metal binding sites. J. Biol. Inorg.
Chem. 8, 452-458.
41. Willows, R. D., Hansson, A., Birch, D., Al-Karadaghi, S. & Hansson, M. (2004).
EM single particle analysis of the ATP dependent BchI complex of magnesium
chelatase: An AAA+ hexamer. J. Struc. Biol., 146, 227–233.
42. Lundell, A., Olin, A.I., Mörgelin, M., Al-Karadaghi, S., Aspberg, A.& Logan,
D.T. (2004) Crystal structure of the complex between the aggrecan C-type lectin
domain and three fibronectin type III repeats from tenascin-R. Structure 12, 1495-
43. Shipovskov, S., Karlberg, T., Fodje, M., Hansson, M., Reimann, C.T. & Al-
Karadaghi, S. (2005). Metallation of the transition-state inhibitor N-methyl
mesoporphyrin by ferrochelatase: implications for the catalytic reaction
mechanism. J. Mol. Biol. 352, 1081-1090.
44. Dufe, V.T., Luersen, K., Eschbach, M.L., Haider, N., Karlberg, T., Walter, R.D. & Al-Karadaghi, S. (2005). Cloning, expression, characterisation and three-
dimensional structure determination of Caenorhabditis elegans spermidine
synthase. FEBS Let. 579, 6037-6043.
45. Brodelius. M., Hiraiwa, M., Marttila, S., Al Karadaghi, S., Picaud, S. and E.
Brodelius, P. E. (2005). Immunolocalization of the saposin-like insert of plant aspartic proteinases exhibiting saposin C activity. Expression in young flower
tissues and in barley seeds. Phys. Plantarum 125, 405–418.
46. Norrman, M., Ståhl, K., Schluckebier, G. & Al-Karadaghi S. (2006)
Characterisation of insulin microcrystals by use of x-ray powder diffraction and
multivariate data analysis. J. Appl. Crystallogr. 39, 391–400.
47. Schagerlöf, U., Wilson, G., Hebert, H., Al-Karadaghi, S., & Hägerhäll, C.
(2006). Transmembrane topology of FRO2, a ferric chelate reductase from Arabidopsis thaliana. Plant Mol. Biol. 62, 215-221.
48. Karlberg, T., Schagerlöf, U., Gakh, O., Park, S., Ryde, U., Lindahl, M., Leath, K., Garman, E., Isaya, G. & Al-Karadaghi, S. (2006). Structure of frataxin
oligomers: A novel molecular design for the delivery and storage of iron. Structure 14, 1535-15646.
49. Sirijovski, N, Olsson, U, Lundqvist, J, Al-Karadaghi, S, Willows, RD &
Hansson M. (2006). ATPase activity associated with the magnesium chelatase H-
subunit of the chlorophyll biosynthetic pathway is an artifact. Biochem J. 400,
50. Axelsson, E., Lundqvist, J., Sawicki, A., Nilsson, S., Schröder, I., Al-Karadaghi,
S., Willows, R.D. and Hansson, M. (2006). Recessivity and dominance in barley xantha-g mutants deficient in magnesium chelatase subunit D, an AAA-protein involved in chlorophyll biosynthesis. Plant Cell 18, 3606-3616.
51. Hansson, M.D., Karlberg, T., Rahardja, M.A., Al-Karadaghi, S. & Hansson M.
(2007). Amino acid residues H183 and Glu264 of Bacillus subtilis ferrochelatase direct and facilitate insertion of metal into protoporphyrin IX. Biochemistry, 46,
87-94.
52. Tamu Dufe, V., Ingner, D, Heby, O., Khomutov, A.R., Persson, L. & Al-
Karadaghi, S. (2007). A structural insight into the inhibition of human and
Leishmania donovani ornithine decarboxylases by 3-aminooxy-1-aminopropane. Biochem. J. 405, 261-268.
53. Tamu Dufe, V., Wei Qui, Muller, I., Hui, R., Walter, R.D. & Al-Karadaghi, S. (2007). Crystal structure of Plasmodium falciparum spermidine synthase in complex with the substrate decarboxylated S-adenosylmethionine and the potent inhibitors 4MCHA and AdoDATO. J. Mol. Biol. 373, 167–177.
54. Elmlund, H., Lundqvist, J., Al-Karadaghi, S., Hansson, M., Hebert, H. &
Lindahl, M. (2008). A cryo-EM single-particle ab initio reconstruction method visualizes secondary structure elements in the Mg-chelatase ID-complex. J. Mol.
Biol
. 375, 934-947.
55. Sirijovski, N, Lundqvist, J., Rosenbäck, M., Al-Karadaghi, S., Willows, R.D. &
Hansson, M. (2008). A 3D substrate-binding model of the chlorophyll biosynthesis enzyme magnesium chelatase. J. Biol. Chem. 283,11652-11660.
56. Karlberg, T., Yengo, R., Johansson, R., Thorvaldsen, H.O., Hansson, M.D., Hansson M. & Al-Karadaghi, S. (2008). Porphyrin binding and distortion and
substrate specificity in the ferrochelatase reaction: The role of active site residues. J. Mol. Biol. 378, 1074–1083.
57. Schagerlöf, U., Elmlund, H., Gakh, O., Nordlund, G., Hebert, H., Lindahl, M., Isaya, G. and Al-Karadaghi, S. (2008). Structural basis of the iron storage
function of frataxin from single-particle reconstruction of iron-loaded oligomer.
Biochemistry 47, 4948-4954.
58. Walse, B., Tamu Dufe, V., Svensson, B., Fritzson, I., Dahlberg, L., Khairoullina, A., Wellmar, U. & Al-Karadaghi, S. (2008). The structures of apo- and inhibitor
bound human dihydroorotate dehydrogenase reveal conformational flexibility within the inhibitor binding site. Biochemistry 47, 8929-8936.
59. Lundqvist, J., Helmlund, D., Heldt, D., Deery, E., Söderberg, C., Hansson, M., Warren, M. & Al-Karadaghi, S. (2009). The AAA+ motor complex of subunits
CobS and CobT of cobaltochelatase visualised by single particle electron
microscopy. J Struct Biol. 167, 227-234.
60. Fritzson I., Svensson B., Al-Karadaghi S., Walse B., Wellmar U, Nilsson U.J.,
da Graça Thrige D., Jönsson S. (2010). Inhibition of human DHODH by 4- hydroxycoumarins, fenamic acids, and N-(alkylcarbonyl)anthranilic acids identified by structure-guided fragment selection. Chem. Med Chem. 5, 608-617.
61. Lundqvist, J., Elmlund, H., Peterson Wulff, R., Berglund, L., Elmlund, D., Emanuelsson, C., Hebert, H., Willows, R.D., Hansson, M., Lindahl, M. and Al-
Karadaghi, S. (2010). ATP-induced conformational dynamics in the AAA+
motor unit of magnesium chelatase. Structure 18, 354-365.
62. Hansson M.D., Karlberg T., Söderberg C.A., Rajan S., Warren M.J., Al-
Karadaghi S., Rigby S.E. and Hansson M. (2011). Bacterial ferrochelatase turns
human: Tyr13 determines the apparent metal specificity of Bacillus subtilis ferrochelatase. J Biol Inorg Chem. 16, 235-242.
63. Williams M, Sprenger J, Human E, Al-Karadaghi S, Persson L, Louw AI,
Birkholtz LM. (2011). Biochemical characterisation and novel classification of monofunctional S-adenosylmethionine decarboxylase of Plasmodium falciparum. Mol Biochem Parasitol. 2011 Jul 22. [Epub ahead of print] 64. Söderberg C.A.G., Shkumatov A.V., Rajan S., Gakh O., Svergun D.I., Isaya G. and Al-Karadaghi S. (2011). Oligomerization propensity and flexibility of yeast
frataxin studied by X-ray crystallography and small angle x-ray scattering Conference proceedings (peer reviewed):
65. Al-Karadaghi, S., Davydova, N., Eliseikina, I., Garber, M., Liljas, A., Nevskaya,
N., Nikonov, S. & Tischenko, S. (2000). Ribosomal components and their structural transitions on and of the ribosome. In: The Ribosome: Structure, Function, Antibiotics, and Cellular Interactions (Eds. Garrett,R.A.; Douthwaite,S.R.; Liljas,A.; Matheson,T; Moore,P.B.; Noller,H.F.), p. 65-72,
66. Liljas, A., Kristensen, O., Laurberg, M., Al-Karadaghi, S., Gudkov, A.,
Martemyanov, K., Hughes, D., Nagaev, I. (2000). The states, conformational dynamics and fusidic acid resistant mutants of EF-G. In: The Ribosome: Structure, Function, Antibiotics, and Cellular Interactions (Eds. Garrett,R.A.; Douthwaite,S.R.; Liljas,A.; Matheson,T; Moore,P.B.; Noller,H.F.), p. 359-365, ASM Press, Washington, D.C. Review articles:
67. Liljas, A., Al-Karadaghi, S. (1997). Structural aspects of protein synthesis.
68. Al-Karadaghi, S., Kristensen, O. & Liljas, A. (2000). A decade of progress in
understanding the structural basis of protein synthesis. Prog. Biophys. Molec. Biol. 73, 167-193.
69. Al-Karadaghi, S., Franco, R., Hansson, M., Shelnutt, J.A., Isaya, G. and Ferreira,
G.C. (2006). Chelatases: distort to select? TIBS 31,135-142.
70. Hunter GA, Al-Karadaghi S, Ferreira GC. (2011). Ferrochelatase: The
convergence of the porphyrin biosynthesis and iron transport pathways. J Porphyr Phthalocyanines 15, 350-356.
71. Franco R, Al-Karadaghi S, Ferreira GC. (2011). Resonance Raman spectroscopic examination of ferrochelatase-induced porphyrin distortion. J Porphyr Phthalocyanines 15, 357-363.
Book review:
72. Al-Karadaghi, S. (2006). Structural Aspects of Protein Synthesis. Acta Crystallogr D Biol Crystallogr. 62, 1101.

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ALGAS E ESPONJAS: UMA FONTE DE SUBSTÂNCIAS COM ATIVIDADE ANTIVIRAL Odinéia do S. Pamplona*1; Bruno F. dos Santos2; Suzi M. Ribeiro3; Lísia M. Gestinari1; Maria Teresa V. Email: odineia@ufam.edu.br Instituições: *Universidade Federal do Amazonas (UFAM), Instituto de Ciências Exatas e Tecnologia (ICET); 1 Núcleo em Ecologia e Desenvolvimento Sócio-Ambiental de Macaé/Univers

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