Laboratory of Molecular Biophysics Laboratory Journal 2001 Publications

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Publications

The role of the Src homology 3-Src homology 2 interface in the regulation of Src kinases.
S.T. AROLD, T.S. ULMER, T.D. MULHERN, J.M..WERNER, J.E. LADBURY, I.D. CAMPBELL & M.E. NOBLE (2001)
J.Biol.Chem, 276, 17199-17205

A DNA-porphyrin minor-groove complex at atomic resolution: The structural consequences of porphyrin ruffling.
M. BENNETT, A.KRAH, F. WIEN, E.GARMAN, R.MCKENNA, M. SANDERSON, & S.NEIDLE. (2000)
PNAS 97, 9476 - 9481

Channel gating: twist to open.
P.C. BIGGIN & M.S.P. SANSOM (2001)
Curr. Biol. 11:R364-R366

Potassium and sodium ions in a potassium channel studied by molecular dynamics simulations.
P.C.BIGGIN, G.R. SMITH, I.H. SHRIVASTAVA, S. CHOE & M.S.P. SANSOM (2001)
Biochem. Biophys. Acta 1510:1-9

A Historical Perspective. How the structure of lysozyme was actually determined.
C.C.F. BLAKE, R.H. FENN, L.N. JOHNSON, D.F. KOENIG, G.A. MAIR, A.C.T. NORTH, J.W.H. OLDHAM, D.C. PHILLIPS, R.J. POLJAK, V.R. SARMA & C.A. VERNON (2001)
International Tables for Crystallography (Edited by M.G. Rossmann & E. Arnold) Vol F, 745-772.

Functional and structural differences between the prion protein from two alleles prnp^a and prnp^b of mouse.
D.R.BROWN, I.K.IORDANOVA, B-S.WONG, C.VÉNIEN-BRYAN, F. HAFIZ, L.L.GLASSMITH, M-S SY, P.GAMBETTI, I. JONES, C. CLIVE & S.J.HASWELL (2000)
Eur.J. Biochem. 267 2452-2459.

The structure of the HIV-1 Vpu ion channel: modelling and simulation studies.
F.S. CORDES, A. KUKOL, L.R. FORREST, I.T. ARKIN, M.S.P. SANSOM & W.B. FISCHER (2001)
Biochim. Biophys. Acta 1512:291-298

An Examination of the Role of Asp-177 in the His-Asp Catalytic Dyad of Leuconostoc mesenteroides Glucose 6-Phosphate Dehydrogenase: X-ray Structure and pH Dependence of Kinetic Parameters of the D177N Mutant Enzyme.
M. S. COSGROVE, S.GOVER, C.E. NAYLOR, L.VANDEPUTTE-RUTTEN, M.J. ADAMS, AND H. R.LEVY (2000)
Biochemisry, 39, 15002-15011

Inhibitor binding to active and inactive CDK2. The crystal structure of CDK2-cyclin A/indirubin-5-sulphonate.
T.G. DAVIES, P. TUNNAH, L. MEIJER, D. MARKO, G. EISENBRAND, J.A. ENDICOTT & M.E.NOBLE (2001)
Structure, 9, 389-397

Crystal structure of GerE, the ultimate transcriptional regulator of spore formation in Bacillus subtilis.
V.M.A. DUCROS, R.J. LEWIS, C.S. VERMA, E.J. DODSON, G. LEONARD, J.P. TURKENBURG, MURSHUDOV. A.J. WILKINSON & J.A. BRANNIGAN (2001)
Journal of Molecular Biology. 306, 757-769

Specificity of murine lupus anti-DNA monoclonal antibodies: A model for the different stimuli that drive their production.
E.R. EIVAZOVA, J.M. MCDONNELL, B.J. SUTTON & N.A. STAINES (2000)
Immunology 101:371-377

Cyclin/CDK (cyclin-dependent kinase).
J.A. ENDICOTT & M.E.M. NOBLE
Encyclopaedia of Genetics, Ed-in-Chief S. Brenner and J. Miller. Academic press (in press)

Amantadine blocks channel activity of the transmembrane segment of the NB protein from influenza B.
W.B. FISCHER, M. PITKEATHLY & M.S.P. SANSOM, (2001)
Eur. Biophys. J. (in press)

Macromolecular Cryo-crystallography.
E.F. GARMAN, D.TURK AND L.JOHNSON (EDS)
in Methods in Macromolecular Crystallography, Nato Science Series. IOS Press 2001. Pages 15-25

A new approach to pharmacophore mapping and QSAR analysis using Inductive Logic Programming. Application to Thermolysin inhibitors and Glycogen Phosphorylase b inhibitors.
N. GENESTE, K.A. WATSON, B. ALSBERG, R.D. KING (2001)
J. Med. Chem. In press.

Conformation of the isolated C3 domain of IgE and its complex with the high affinity receptor FcRI.
A.J. HENRY, J.M. MCDONNELL, R. GHIRLANDO, B.J. SUTTON AND H.J GOULD (2000)
Biochemistry 39:7406-7413

Structure of a slow processing precursor penicillin acylase from Escherichia coli reveals the linker peptide blocking the active site cleft.
L. HEWITT, V. KASCHE, K. LUMMER, R.J. LEWIS, G.N. MURSHUDOV, C.S. VERMA, DODSON, G. G. & WILSON, K. S. (2000)
Journal of Molecular Biology 302, 887-898.

The structural basis for control by phosphorylation.
L.N. JOHNSON & R.J. LEWIS (2001)
Chemical reviews, 101, 2209-2242

Structural basis for substrate recognition and control in protein kinases.
L.N. JOHNSON (2001)
In Data Mining in Structural Biology (Ed I. Schlichting, U. Egner) Ernst Schering Research Workshop 34. Springer Verlag, Berlin

The origin and control of pandemic influenza.
G. LAVER & E.F. GARMAN (2001)
Perspective, Science (in press)

Xenopus phospho-CDK7/cyclin H expressed in baculoviral infected insect cells is phosphorylated on Ser170 and Thr76.
A.M. LAWRIE, P. TITO, H. HERNANDEZ, N.R. BROWN, C.V. ROBINSON, J.A. ENDICOTT, M.E.M. NOBLE, & L.N. JOHNSON (2001)
Protein Expression and Purification (in press)

Two-dimensional crystallization of a membrane protein on a detergent-resistant lipid monolayer.
L.LEBEAU, F. LACH, C.VÉNIEN-BRYAN, A. RENAULT, J. DIETRICH, W.KÜHLBRANDT, J. THOMAS, M.PALMGREN & C. MIOSKOWSKI (2001)
J. Mol. Biol. 308 639-647.

Synchrotron radiation diffraction from two-dimensional protein crystals at the air/water interface.
P.F. LENNE, B. BERGE, A. RENAULT, C. ZAKRI, C. VÉNIEN-BRYAN, S.COURTY, F. BALAVOINE, O.KONOVALOV, A.BRISSON, G.GÜBEL & J.F.LEGRAND (2000)
Biophys. J. 79 496-500.

Molecular analysis of the epidermal growth factor like short consensus repeat domain mediated protein-protein interactions: dissection of the CD97-CD55 complex.
H-H LIN, M. STACEY, C. SAXBY, V. KNOTT, Y. CHAUDHRY, D. EVANS, S. GORDON, A. MCKBNIGHT, P. HANDFORD & S. LEA (2001)
Journal of Biological Chemistry, 276, 24160-24169

The trans-activation domain of the sporulation response regulator Spo0A, revealed by X-ray crystallography.
R.J. LEWIS, S.KRZYWDA, J.A. BRANNIGAN, J. TURKENBURG, K. MUCHOVA, E.J. DODSON, I. BARAK, & A.J. WILKINSON, A. J. (2000)
Molecular Microbiology, 38, 198-212.

Lessons and questions from the structure of the Spo0A activation domain: response.
R.J. LEWIS, J.A. BRANNIGAN, L. BARAK & A.J.WILKINSON (2001)
Trends in Microbiology, 9, 150-151.

Surface plasmon resonance towards an understanding of the mechanisms of biological molecular recognition.
J.M. MCDONNELL (2001)
Current Opinion in Chemical Biology, 5, 572-577

The structure of the IgE C2 domain and its role in stabilizing the complex with its high-affinity receptor.
J.M. MCDONNELL, R. CALVERT, R.L. BEAVIL, A.J. BEAVIL, A.J. HENRY, B.J. SUTTON, H.J. GOULD & D. COWBURN (2001)
Nature Struct. Biol. 8:437-441

NADP+ and NAD+ binding to the dual coenzyme specific enzyme Leuconostoc mesenteroides glucose 6-phosphate dehydrogenase: different interdomain hinge angles are seen in different binary and ternary complexes.
C.E. NAYLOR, S. GOVER, A.K. BASAK, M.S. COSGROVE, H. R. LEVY & M.J. ADAMS (2001)
Acta Cryst, D57, 635-648

Modelling Heating Effects in Cryocooled Protein Crystals.
J. NICHOLSON, C. NAVE. K. FAYZ, B. FELL AND E. GARMAN.
Nuc.Instr. Meth. (in press)

Structure-based design of CDK inhibitors.
D. PRATT, T.G. DAVIES, M.E.M. NOBLE, L.N. JOHNSON & J.A. ENDICOTT (2001)
TRN Reviews (in press)

Electrostatics studies and molecular dynamics simulations of a homology model of the Shaker K⁺ channel pore.
K.M. RANATUNGA, R.D. LAW, G.R. SMITH & M.S.P. SANSOM (2001)
Eur. Biophys. J. 30: 295-303.

Sidechain ionisation states in a potassium channel.
K.M. RANATUNGA, I.H. SHRIVASTAVA, G.R. SMITH & M.S.P. SANSOM (2001)
Biophys. J. 80:1210-1219

Membrane proteins: Aquaporins - channels without ions.
M.S.P. SANSOM & R.J. LAW (2001)
Curr. Biol. 11:R71-R73

Molecular contacts in the transmembrane c-subunit oligomer of F-ATPases identified by tryptophan substitution mutagenesis.
C. SCHNICK, L.R. FORREST, M.S.P.SANSOM, & G. GROTH (2001)
Biochim. Biophys. Acta 1459:49-60

Crystallisation and preliminary X-ray analysis of the sporulation factor SpoIIAA in both its native and phosphorylated forms.
P.R. SEAVERS, R.J. LEWIS, J.A. BRANNIGAN, & A.WILKINSON, (2001)
Acta Crystallographica D57, 292-295.

Structure of the Bacillus cell fate determinant SpoIIAA in phosphorylated and unphosphorylated forms.
P.R. SEAVERS, R.J. LEWIS, J.A. BRANNIGAN, K.H.G. VERSCHUEREN, G.N. MURSHUDOV & A.J. WILKINSON (2001)
Structure 9, 605-614

Phospho-protein/protein interactions revealed by the crystal structure of Kinase Associated Phosphatase (KAP) in complex with CDK2.
H. SONG, N. HANLON, N.R. BROWN., M.E. NOBLE, L.N. JOHNSON & D. BARFORD, (2001)
Molecular Cell 7, 615-626.

The 1.8Å Resolution Structure of Pig Muscle 3-Phosphoglycerate Kinase with Bound MgADP and 3-Phosphoglycerate in Open Conformation: New insight into the Role of the Nucleotide in Domain Closure.
A.N. SZILAGYI, M.GHOSH, E.GARMAN & M.VAS (2001)
J.Mol.Biol. 306, 499-511.

Voltage-dependent insertion of alamethicin at phospholipid/water and octane/water interfaces.
D.P. TIELEMAN, H.J.C. BERENDSEN & M.S.P. SANSOM. (2001)
Biophys. J. 80, 331-346

Simulation Approaches to Ion Channel Structure-Function Relationships.
D.P.TIELEMAN, P.C. BIGGIN, G.R. SMITH & M.S.P. SANSOM (2001)
Quart. Rev. Biophys. (in press)

Molecular dynamics simulations of antimicrobial peptides: from membrane binding to transmembrane channels.
D.P. TIELEMAN & M.S.P. SANSOM, (2001)
Intnl. J. Quant. Chem. 83, 166-179.

Proline-induced hinges in transmembrane helices: possible roles in ion channel gating.
D.P. TIELEMAN, I.H. SHRIVASTAVA, M.B. ULMSCHNEIDER & M.S.P. SANSOM (2001)
Proteins: Struct. Func. Genet. 44, 63-72

Amino acid distributions in integral membrane protein structures.
M.B. ULMSCHNEIDER & M.S.P. SANSOM,(2001)
Biochim. Biophys. Acta 1512, 1-14

Fluorescence resonance energy transfer (FRET) applications using Green Fluorescent Protein: Energy transfer to the endogenous chromophores of phycobililisome light-harvesting complexes.
J.J. VAN THOR & K.J. HELLINGWERF (2001)
In Green Fluorescent protein: Methods and Protocols. B. W. Hicks ed. Methods in Molecular Biology. The Humana Press (in press)

Light-induced proton release and proton uptake reactions in the cyanobacterial phytochrome Cph1.
J. J. VAN THOR, B. BORUCKI, W. CRIELAARD, H. OTTO, T. LAMPARTER, J.HUGHES, K.J. HELLINGWERF, & M. P. HEYN (2001)
Biochemistry 40, 11460-11471

Projection structure of a transcriptional regulator, HupR determined by electron cryo-microscopy.
C. VÉNIEN-BRYAN, G. SCHERTLER, E. THOUVENIN & S. COURTY (2000)
J. Mol. Biol. 296 863-871.

Delineation of the Roles of Amino Acids Involved in the Catalytic Functions of Leuconostoc mesenteroides Glucose 6-Phosphate Dehydrogenase.
V. VOUGHT, T.CICCONE, M. H. DAVINO, L. FAIRBAIRN, Y.LIN, M.S. COSGROVE, M. J. ADAMS, AND H.R. LEVY (2000)
Biochemistry 39, 15012 -15021.

Copper refolding of Normal Prion Protein.
B-S.WONG, C.VÉNIEN-BRYAN, A.WILLIAMSON, R. BURTON, P.GAMBETTI, M-S SY, D.BROWN & I. JONES (2000)
Bioch.and Bioph.Res. Com. 276 1217-1224.

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