Staff at EMBL

Dr. Victor Lamzin

Deputy Head of Outstation and Senior Scientist
Lamzin Group

EMBL Hamburg c/o DESY, Notkestraße 85, 22603 Hamburg, Germany

Biography

PhD 1987, Moscow State University, Russia.
Scientist, Inst. Biochemistry, Russian Academy of Sciences, Moscow, until 1991.
Postdoctoral research at EMBL Hamburg until 1995; Staff Scientist until 1997.
Group Leader and Deputy Head of EMBL Hamburg since 1997.

Publications

X-ray diffraction study of the complex of the enzyme SAICAR synthase with the reaction product Urusova, DV; Levdikov, VM; Antonyuk, SV; Grebenko, AI; Lamzin, VS; Melik-Adamyan, VR. Crystallography Reports October 2006 51(5)

Internal motion in protein crystal structures. Schmidt, A. & Lamzin, V.S. Protein Sci. 2010 May;19(5):944-53. PubMed

Quantitive evaluation of macromolecular crystallization experiments using
1,8-ANS fluorescence Watts, D., Müller-Dieckmann, J., Tsakanova, G., Lamzin, V.S. and
Groves, M. R. Acta Cryst. 2010 (D66) 901-990

On the combination of molecular replacement and single-wavelength anomalous diffraction phasing for automated structure determination. Panjikar, S., Parthasarathy, V., Lamzin, V.S., Weiss, M.S. & Tucker, P.A. Acta Crystallogr D Biol Crystallogr. 2009 Oct;65(Pt 10):1089-97. Epub 2009Sep 16. PubMed

High-resolution structural analysis of a novel octaheme cytochrome c nitrite reductase from the haloalkaliphilic bacterium Thioalkalivibrio nitratireducens. Polyakov, K.M., Boyko, K.M., Tikhonova, T.V., Slutsky, A., Antipov, A.N., Zvyagilskaya, R.A., Popov, A.N., Bourenkov, G.P., Lamzin, V.S. & Popov, V.O. J Mol Biol. 2009 Jun 26;389(5):846-62. Epub 2009 Apr 23. PubMed

Structure of native laccase from Trametes hirsuta at 1.8 A resolution. Polyakov, K.M., Fedorova, T.V., Stepanova, E.V., Cherkashin, E.A., Kurzeev, S.A., Strokopytov, B.V., Lamzin, V.S. & Koroleva, O.V. Acta Crystallogr D Biol Crystallogr. 2009 Jun;65(Pt 6):611-7. Epub 2009May 15. PubMed

Crystal identification and classification. Jordanova, R., Lamzin, V.S. & Groves, M. In Horizons in World Physics: Vol. 262, Astrophysics and Condensed Matter (Hardwell, T.G. ed.), 2009, pp. 175-193, Nova Science Publishers Inc.

Atomic resolution crystal structures and quantum chemistry meet to reveal subtleties of hydroxynitrile lyase catalysis. Schmidt, A., Gruber, K., Kratky, C. & Lamzin, V.S. J Biol Chem. 2008 Aug 1;283(31):21827-36. Epub 2008 Jun 4. PubMed

Pattern-recognition-based detection of planar objects in three-dimensional electron-density maps. Hattne, J. & Lamzin, V.S. Acta Crystallogr D Biol Crystallogr. 2008 Aug;64(Pt 8):834-42. Epub 2008Jul 17. PubMed

A knowledge-driven approach for crystallographic protein model completion. Joosten, K., Cohen, S.X., Emsley, P., Mooij, W., Lamzin, V.S. & Perrakis, A. Acta Crystallogr D Biol Crystallogr. 2008 Apr;64(Pt 4):416-24. Epub 2008Mar 19. PubMed

ARP/wARP and molecular replacement: the next generation. Cohen, S.X., Ben Jelloul, M., Long, F., Vagin, A., Knipscheer, P., Lebbink, J., Sixma, T.K., Lamzin, V.S., Murshudov, G.N. & Perrakis, A. Acta Crystallogr D Biol Crystallogr. 2008 Jan;64(Pt 1):49-60. Epub 2007Dec 5. PubMed

Automated macromolecular model building for X-ray crystallography using ARP/wARP version 7. Langer, G., Cohen, S.X., Lamzin, V.S. & Perrakis, A. Nat Protoc. 2008;3(7):1171-9. PubMed

From atoms to proteins. Schmidt, A. & Lamzin, V.S. Cell Mol Life Sci. 2007 Aug;64(15):1959-69. PubMed

High-resolution structures of formate dehydrogenase from Candida boidinii. Schirwitz, K., Schmidt, A. & Lamzin, V.S. Protein Sci. 2007 Jun;16(6):1146-56. PubMed

Structural evidence for a ligand coordination switch in liver alcohol dehydrogenase. Meijers, R., Adolph, H.W., Dauter, Z., Wilson, K.S., Lamzin, V.S. & Cedergren-Zeppezauer, E.S. Biochemistry. 2007 May 8;46(18):5446-54. Epub 2007 Apr 13. PubMed

Assessment of automatic ligand building in ARP/wARP. Evrard, G.X., Langer, G.G., Perrakis, A. & Lamzin, V.S. Acta Crystallogr D Biol Crystallogr. 2007 Jan;63(Pt 1):108-17. Epub 2006Dec 13. PubMed

Automated detection and centring of cryocooled protein crystals. Pothineni, S.B., Strutz, T. & Lamzin, V.S. Acta Crystallogr D Biol Crystallogr. 2006 Nov;62(Pt 11):1358-68. Epub 2006Oct 18. PubMed

X-ray structural studies of the fungal laccase from Cerrena maxima. Lyashenko, A.V., Bento, I., Zaitsev, V.N., Zhukhlistova, N.E., Zhukova, Y.N., Gabdoulkhakov, A.G., Morgunova, E.Y., Voelter, W., Kachalova, G.S., Stepanova, E.V., Koroleva, O.V., Lamzin, V.S., Tishkov, V.I., Betzel, C., Lindley, P.F. & Mikhailov, A.M. J Biol Inorg Chem. 2006 Nov;11(8):963-73. Epub 2006 Aug 30. PubMed

Purification, crystallization and preliminary X-ray study of the fungal laccase from Cerrena maxima. Lyashenko, A.V., Zhukhlistova, N.E., Gabdoulkhakov, A.G., Zhukova, Y.N., Voelter, W., Zaitsev, V.N., Bento, I., Stepanova, E.V., Kachalova, G.S., Koroleva, O.V., Cherkashyn, E.A., Tishkov, V.I., Lamzin, V.S., Schirwitz, K., Morgunova, E.Y., Betzel, C., Lindley, P.F. & Mikhailov, A.M. Acta Crystallograph Sect F Struct Biol Cryst Commun. 2006 Oct 1;62(Pt10):954-7. Epub 2006 Sep 19. PubMed

How to avoid premature decay of your macromolecular crystal: a quick soak for long life. Kauffmann, B., Weiss, M.S., Lamzin, V.S. & Schmidt, A. Structure. 2006 Jul;14(7):1099-105. PubMed

Crystallization and preliminary X-ray analysis of cytochrome c nitrite reductase from Thioalkalivibrio nitratireducens. Boyko, K.M., Polyakov, K.M., Tikhonova, T.V., Slutsky, A., Antipov, A.N., Zvyagilskaya, R.A., Bourenkov, G.P., Popov, A.N., Lamzin, V.S. & Popov, V.O. Acta Crystallograph Sect F Struct Biol Cryst Commun. 2006 Mar 1;62(Pt3):215-7. Epub 2006 Feb 10. PubMed

Extraction of functional motion in trypsin crystal structures. Schmidt, A. & Lamzin, V.S. Acta Crystallogr D Biol Crystallogr 2005 Aug;61(Pt 8):1132-9. Epub 2005Jul 20. PubMed

Auto-Rickshaw: an automated crystal structure determination platform as an efficient tool for the validation of an X-ray diffraction experiment. Panjikar, S., Parthasarathy, V., Lamzin, V.S., Weiss, M.S. & Tucker, P.A. Acta Crystallogr D Biol Crystallogr 2005 Apr;61(Pt 4):449-57. Epub 2005Mar 24. PubMed

Modelling bound ligands in protein crystal structures. Zwart, P.H., Langer, G.G. & Lamzin, V.S. Acta Crystallogr D Biol Crystallogr 2004 Dec;60(Pt 12 Pt 1):2230-9. Epub2004 Nov 26. PubMed

Towards complete validated models in the next generation of ARP/wARP. Cohen, S.X., Morris, R.J., Fernandez, F.J., Ben Jelloul, M., Kakaris, M., Parthasarathy, V., Lamzin, V.S., Kleywegt, G.J. & Perrakis, A. Acta Crystallogr D Biol Crystallogr 2004 Dec;60(Pt 12 Pt 1):2222-9. Epub2004 Nov 26. PubMed

The crystal structure of glutamyl endopeptidase from Bacillus intermedius reveals a structural link between zymogen activation and charge compensation. Meijers, R., Blagova, E.V., Levdikov, V.M., Rudenskaya, G.N., Chestukhina, G.G., Akimkina, T.V., Kostrov, S.V., Lamzin, V.S. & Kuranova, I.P. Biochemistry 2004 Mar 16;43(10):2784-91. PubMed

The influence of positional errors on the Debye effects. Zwart, P.H. & Lamzin, V.S. Acta Crystallogr D Biol Crystallogr 2004 Feb;60(Pt 2):220-6. Epub 2004 Jan23. PubMed

Breaking good resolutions with ARP/wARP. Morris, R.J., Zwart, P.H., Cohen, S., Fernandez, F.J., Kakaris, M., Kirillova, O., Vonrhein, C., Perrakis, A., & and Lamzin, V.S. J. Synchrotron Rad. 2004 11 56-59

Distance distributions and electron-density characteristics of protein models. Zwart, P.H. & Lamzin, V.S. Acta Cryst. 2003 D59 2104?2113

Crystallization and preliminary X-ray analysis of a four-copper laccase from Coriolus hirsutus. Pegasova, T.V., Zwart, P., Koroleva, O.V., Stepanova, E.V., Rebrikov, D.V. & Lamzin, V.S. Acta Cryst. 2003 D59 1459-1461

ARP/wARP and automatic interpretation of protein electron density maps. Morris, R.J., Perrakis, A. & Lamzin, V.S. Methods Enzymol. 2003;374:229-44. PubMed

Veni, vidi, vici - atomic resolution unravelling the mysteries of protein function. Schmidt, A. & Lamzin, V.S. Curr Opin Struct Biol 2002 Dec;12(6):698-703. PubMed

Advantages of high-resolution phasing: MAD to atomic resolution. Schmidt, A., Gonzalez, A., Morris, R.J., Costabel, M., Alzari, P.M. & Lamzin, V.S. Acta Crystallogr D Biol Crystallogr 2002 Sep;58(Pt 9):1433-41. PubMed

Atomic resolution data reveal flexibility in the structure of RNase Sa. Sevcik, J., Lamzin, V.S., Dauter, Z. & Wilson, K.S. Acta Crystallogr D Biol Crystallogr 2002 Aug;58(Pt 8):1307-13. PubMed

ARP/wARP's model-building algorithms. I. The main chain. Morris, R.J., Perrakis, A. & Lamzin, V.S. Acta Crystallogr D Biol Crystallogr 2002 Jun;58(Pt 6 Pt 2):968-75. PubMed

Domain closure, substrate specificity and catalysis of D-lactate dehydrogenase from Lactobacillus bulgaricus. Razeto, A., Kochhar, S., Hottinger, H., Dauter, M., Wilson, K.S. & Lamzin, V.S. J Mol Biol 2002 Apr 19;318(1):109-19. PubMed

Atomic resolution structures of ribonuclease A at six pH values. Berisio, R., Sica, F., Lamzin, V.S., Wilson, K.S., Zagari, A. & Mazzarella, L. Acta Crystallogr D Biol Crystallogr 2002 Mar;58(Pt 3):441-50. PubMed

Site-directed mutagenesis of the essential arginine of the formate dehydrogenase active centre. Galkin, A.G., Kutsenko, A.S., Bajulina, N.P., Esipova, N.G., Lamzin, V.S., Mesentsev, A.V., Shelukho, D.V., Tikhonova, T.V., Tishkov, V.I., Ustinnikova, T.B. & Popov, V.O. Biochim Biophys Acta 2002 Jan 31;1594(1):136-49. PubMed

The structures of Escherichia coli inorganic pyrophosphatase complexed with Ca(2+) or CaPP(i) at atomic resolution and their mechanistic implications. Samygina, V.R., Popov, A.N., Rodina, E.V., Vorobyeva, N.N., Lamzin, V.S., Polyakov, K.M., Kurilova, S.A., Nazarova, T.I. & Avaeva, S.M. J Mol Biol 2001 Nov 30;314(3):633-45. PubMed

ARP/wARP and molecular replacement. Perrakis, A., Harkiolaki, M., Wilson, K.S. & Lamzin, V.S. Acta Crystallogr D Biol Crystallogr 2001 Oct;57(Pt 10):1445-50. PubMed

On the enzymatic activation of NADH. Meijers, R., Morris, R.J., Adolph, H.W., Merli, A., Lamzin, V.S. & Cedergren-Zeppezauer, E.S. J Biol Chem 2001 Mar 23;276(12):9316-21. PubMed

Crystal structure of manganese catalase from Lactobacillus plantarum. Barynin, V.V., Whittaker, M.M., Antonyuk, S.V., Lamzin, V.S., Harrison, P.M., Artymiuk, P.J. & Whittaker, J.W. Structure 2001 (9) 725-738

Apotheosis, not apocalypse: methods in protein crystallography. Lamzin, V.S., Perrakis, A., Bricogne, G., Jiang, J., Swaminathan, S. & Sussman, J.L. Acta Crystallogr D Biol Crystallogr 2000 Nov;56(# (Pt 11)):1510-1 PubMed

Current state of automated crystallographic data analysis. Lamzin, V.S. & Perrakis, A. Nat Struct Biol 2000 Nov;7 Suppl:978-81 PubMed

Improving the X-ray resolution by reversible flash-cooling combined with concentration screening, as exemplified with PPase. Samygina, V.R., Antonyuk, S.V., Lamzin, V.S. & Popov, A.N. Acta Crystallogr D Biol Crystallogr 2000 May;56 ( Pt 5):595-603 PubMed

Roles of his205, his296, his303 and Asp259 in catalysis by NAD+-specific D-lactate dehydrogenase. Kochhar, S., Lamzin, V.S., Razeto, A., Delley, M., Hottinger, H. & Germond, J.E. Eur J Biochem 2000 Mar;267(6):1633-9 PubMed

Three-dimensional structure of the Catalase from Thermus Thermophilus at 1 ? resolution. Antonyuk, S.V., Melik-Adamyan, V.R., Popov, A.N., Lamzin, V.S., Hempstead, P.D., Harrison, P.M., Artymyuk, P.J. & Barynin, V.V. Crystallography Reports 2000 45 111-122

Protein titration in the crystal state. Berisio, R., Lamzin, V.S., Sica, F., Wilson, K.S., Zagari, A. & Mazzarella, L. J Mol Biol 1999 Oct 1;292(4):845-54 PubMed

Crystal structure of the EF-hand parvalbumin at atomic resolution (0.91 A) and at low temperature (100 K). Evidence for conformational multistates within the hydrophobic core. Declercq, J.P., Evrard, C., Lamzin, V. & Parello, J. Protein Sci 1999 Oct;8(10):2194-204 PubMed

Experimental observation of bonding electrons in proteins. Lamzin, V.S., Morris, R.J., Dauter, Z., Wilson, K.S. & Teeter, M.M. J Biol Chem 1999 Jul 23;274(30):20753-5 PubMed

Automated protein model building combined with iterative structure refinement. Perrakis, A., Morris, R. & Lamzin, V.S. Nat Struct Biol 1999 May;6(5):458-63 PubMed

Molecular, crystal and solution structure of a beta-cyclodextrin complex with the bromide salt of 2-(3- dimethylaminopropyl)tricyclo[3.3.1.1(3,7)]decan-2-ol, a potent antimicrobial drug. Perrakis, A., Antoniadou-Vyza, E., Tsitsa, P., Lamzin, V.S., Wilson, K.S. & Hamodrakas, S.J. Carbohydr Res 1999 Apr 30;317(1-4):19-28 PubMed

Refinement of triclinic hen egg-white lysozyme at atomic resolution. Walsh, M.A., Schneider, T.R., Sieker, L.C., Dauter, Z., Lamzin, V.S. & Wilson, K.S. Acta Crystallogr D Biol Crystallogr 1998 Jul 1 54 ( Pt 4) 522-546 PubMed

Validation tools: can they indicate the information content of macromolecular crystal structures? Dodson, E.J., Davies, G.J., Lamzin, V.S., Murshudov, G.N. & Wilson, K.S. Structure 1998 Jun 15 6(6) 685-690 PubMed

Protein crystal growth in the advanced protein crystallization facility on the LMS mission: a comparison of Sulfolobus solfataricus alcohol dehydrogenase crystals grown on the ground and in microgravity. Esposito, L., Sica, F., Sorrentino, G., Berisio, R., Carotenuto, L., Giordano, A., Raia, C.A., Rossi, M., Lamzin, V.S., Wilson, K.S. & Zagari, A. Acta Crystallogr D Biol Crystallogr 1998 May 1 54 ( Pt 3) 386-390 PubMed

The structure of SAICAR synthase: an enzyme in the de novo pathway of purine nucleotide biosynthesis. Levdikov, V.M., Barynin, V.V., Grebenko, A.I., Melik-Adamyan, W.R., Lamzin, V.S. & Wilson, K.S. Structure 1998 Mar 15 6(3) 363-376 PubMed

Conserved supersecondary structural motif in NAD-dependent dehydrogenases. Kutzenko, A.S., Lamzin, V.S. & Popov, V.O. FEBS Lett 1998 Feb 13 423(1) 105-109 PubMed

Accelerated X-ray structure elucidation of a 36 kDa muramidase/transglycosylase using wARP. Van Asselt, E.J., Perrakis, A., Kalk, K.H., Lamzin, V.S. & Dijkstra, B.W. Acta Crystallogr D Biol Crystallogr 1998 Jan 1 54 (Pt 1) 58-73 PubMed

Who checks the checkers? Four validation tools applied to eight atomic resolution structures. Wilson, K.S., Butterworth, S., Dauter, Z., Lamzin, V.S., Walsh, M., Wodak, S., Pontius, J., Richelle, J., Vaguine, A., Sander, C., Hooft, R.W.W., Vriend, G., Thornton, J.M., Laskowski, R.A., MacArthur, M.W., Dodson, E.J., Murshudov, G., Oldfield, T.J., Kaptein, R. & Rullmann, J.A.C. J Mol Biol 276 1998 Feb 20 276 417-436 PubMed

The 1.8 A crystal structure of the dimeric peroxisomal 3-ketoacyl-CoA thiolase of Saccharomyces cerevisiae: implications for substrate binding and reaction mechanism. Mathieu, M., Modis, Y., Zeelen, J.P., Engel, C.K., Abagyan, R.A., Ahlberg, A., Rasmussen, B., Lamzin, V.S., Kunau, W.H. & Wierenga, R.K. J Mol Biol 1997 Oct 31 273(3) 714-728 PubMed

The benefits of atomic resolution. Dauter, Z., Lamzin, V.S. & Wilson, K.S. Curr Opin Struct Biol 1997 Oct 7(5) 681-688 PubMed

Automated refinement for protein crystallography. Lamzin, V.S. & Wilson, K.S. IN: Methods in Enzymology. Carter Jr., C.W. & Sweet, R.M. eds. 277, 269-305

X-ray structure of yeast inorganic pyrophosphatase complexed with manganese and phosphate. Harutyunyan, E.H., Kuranova, I.P., Vainshtein, B.K., Hohne, W.E., Lamzin, V.S., Dauter, Z., Teplyakov, A.V. & Wilson, K.S. Eur J Biochem 1996 Jul 1;239(1):220-8 PubMed