The Best of Online

Bioinformatics / Structural Genomics

Recent Structural Results

Theoretical Considerations

Drug Design and Crystallography

Ribbons, Ribbons, Ribbons

See CV for other publications


Bioinformatics/Structural Genomics

The paper in PDF format (2601396 bytes)
M Carson (2007) Electron density fitting and structure validation. Macromolecular Crystallography: conventional and high-throughput methods, MR Sanderson and JV Skelly, eds, Oxford University Press.

The paper in PDF format (1057369 bytes)
M Carson, DH Johnson, H McDonald, C Brouillette and LJ DeLucas (2007) His-tag impact on structure. Acta Cryst D63:295-301.


Structural Genomics of Caenorhabditis elegans

Home page.

Can of Worms database summary and query.

Structures solved.

The SGCE Bioinformatics Team: (mc, Jun Tsao, David Johnson)

The paper in PDF format (653686 bytes)
CH Luan, S Qiu, JB Finley, M Carson, RJ Gray, W Huang, D Johnson, J Tsao, J Reboul, P Vaglio, DE Hill, M Vidal, LJ DeLucas and M Luo (2004) High-Throughput Expression of C. elegans Proteins. Genome Research 14:2102-2110.

The paper in PDF format (653686 bytes)
WB Arendall III, W Tempel, JS Richardson, W Zhou, S Wang, IW Davis, ZJ Lu, JP Rose, WM Carson, M Luo, DC Richardson and BC Wang (2005) A test of enhancing model accuracy in high-throughput crystallography. J. of Structural and Functional Genomics 6:1-11.


Recent Structural Results

The paper in PDF format (1112996 bytes)
N Schormann, B Pal, O Senkovich, M Carson, A Howard, C Smith, L DeLucasa, D Chattopadhyay (2005) Crystal structure of Trypanosoma cruzi pteridine reductase 2 in complex with a substrate and an inhibitor J. Struct. Biol. 152:64-75.

The paper in PDF format (1143339 bytes)
MS Kumar, M Carson, MM Hussain, and HMK Murthy (2002) Structures of Apolipoprotein A-II and a Lipid-Surrogate Complex Provide Insights into Apolipoprotein-Lipid Interactions. Biochemistry 41:11681-11691.

The paper in PDF format (1132345 bytes)
CD Smith, M Carson, AM Friedman, MM Skinner, L DeLucas, L Chantalat, L Weiss, T Shirasawa and DChattopadhyay (2002) Crystal Structure of Human L-Isoaspartyl-O-Methyltransferase with S-Adenosyl Homocysteine at 1.5A Resolution and Modeling of an Isoaspartyl Containing Peptide at the Active Site. Protein Science 11:625-635.

Cover image and the paper in PDF format (1587605 bytes)
D Chattopadhyay, G Langsley, M Carson, R Recacha, L. DeLucas and CD Smith (2000) Structure of the nucleotide-binding domain of Plasmodium falciparum Rab6 in the GDP-bound form. Acta Cryst.D56:937-944.

The paper in PDF format (1332534 bytes)
H Jing, Y Xu, M Carson, D Moore, KJ Macon, JE Volanakis and SVL Narayana (2000) New Structural Motifs on the Chymotrypsin Fold and Their Potential Roles in Complement Factor B. EMBO Journal. 19:164-173.

Cover image and the paper in PDF format (904870 bytes)
CCS Deivanayagam, M Carson, A Thotakura, SVL Narayana and RS Chodavarapu (2000) The Crystal Structure of FKBP12.6 in Complex with Rapamycin. Acta Cryst D55:1785-1791.

The paper in PDF format (336391 bytes)
CCS Deivanayagam, RL Rich, M Carson, RT Owens, S Danthuluri, T Bice, M Hook and SVL Narayana (2000) Novel Fold and Assembly of the Repetitive B Region of the Staphylococcus aureus Collagen-binding Surface Protein. Structure 8:67-78.

The paper in PDF format
RL Rich, CCS Deivanayagam, RT Owens, M Carson, A Hook, D Moore, VWC Yang, SVL Narayana and M Hook (1999) Trench-shaped Binding Sites Promote Multiple Classes of Interactions between Collagen and the Adherence Receptors, alpha-1 beta-1 Integrin and S.aureus Cna MSCRAMM. J.Biol.Chem. 274:24906-24913.

The paper in PDF format (not yet)
R Recacha, M Carson, MJ Costanzo, B Maryanoff, LJ DeLucas and D Chattopadhyay (1999) Structure of the RWJ-51084-Bovine Pancreatic beta-Trypsin Complex at 1.8A. Acta Cryst. D55:1785-1791.

Cool pictures from paper
J. Symersky, J.M. Patti, M. Carson, M. Teale, D. Moore, L. Jin, L.J. DeLucas, M. Hook and S.V.L. Narayana (1997) The Collagen-binding Domain of Staphylococcus aureus Adhesin. Nature Struc. Biol. 4:833-838.

Cool pictures from paper
Lin,G., Chattopadhyay, D., Maki, M., Wang, K.K.W., Carson, M., Jin, L.,Yuen, P., Takano, E., Hatanaka, M., DeLucas, L.J. and Narayana, S.V.L.(1997) Crystal Structure of Calcium Bound Domain VI of Calpain at 1.9A Resolution and its Role in Enzyme Assembly, Regulation, and Inhibitor Binding. Nature Struc. Biol. 4:539-547


Theoretical Considerations

The paper online
M. Carson (1996) Wavelets and Molecular Structure J. Computer-Aided Molecular Design 10:273-283.

The paper online
M. Carson and Z. Yang (1994) DNurbs: DNA modeled with NURBS. J.Mol.Graphics 12:178-184.

The paper online
J.S. Beckman, M. Carson, C.D. Smith and W.H. Koppenol (1993) ALS, SOD and peroxynitrite. Nature 364:584.

Synopsis and key figures
J.G. Dohlman, A. Lupas and M.Carson (1993) Long charge-rich alpha-helices in systemic autoantigens. Biochem.Biophys.Res.Comm. 195:686-696.


Drug Design and Crystallography

The paper online
C.E. Bugg , W.M. Carson and J.A. Montgomery (1993) Drugs by Design. Scientific American 269:92-98.

Cool figure and discussion
R.S. Rowland, M. Carson and C.E. Bugg (1990) Applications of Crystallographic Databases in Molecular Design. in Design of Antiviral Agents, Academic Press.

The paper online
M. Carson, T.W. Buckner, Z. Yang, S.V.L. Narayana and C.E. Bugg (1994) Error Detection in Crystallographic Models. Acta Cryst. D50:900-909.

The paper online
M. Carson, C.E. Bugg, L.J. DeLucas and S.V.L. Narayana (1994) Structure of a Novel Serine Protease Compared to Homology Models. Acta Cryst. D50:889-899.

Key figures and synopsis
S.V.L. Narayana, M. Carson, O. El-Kabbani, J.M. Kilpatrick, D. Moore, X. Chen, C.E. Bugg, J.E. Volanakis and L.J. DeLucas (1994) Structure of Human Factor D, a Complement System Protein at 2.0A Resolution. J.Mol.Biol. 235:695-708.

Best figure and synopsis
P. Bossart-Whitaker, M. Carson, Y.S. Babu, C.D. Smith, W.G. Laver and G.M.Air (1993) Three-Dimensional Structure of Influenza A N9 Neuraminidase and its Complex with the Inhibitor 2-deoxy 2,3-dehydro-N-acetyl Neuraminic Acid. J.Mol.Biol. 232:1069-1083.

The paper online
S.E. Ealick, W.J. Cook, S. Vijay-Kumar, M. Carson, T.L. Nagabhushan, P.P. Trotta and C.E. Bugg (1991) Three-Dimensional Structure of Recombinant Human Interferon-gamma. Science 252:698-702.


Ribbons, Ribbons, Ribbons

The paper online
M. Carson (1997) Ribbons. Methods in Enzymology 277:493-505 Macromolecular Crystallography, R.M. Sweet and C.W. Carter, eds, Academic Press.

The poster online
M. Carson (1994) Ribbons++. J.Mol.Graphics 12:67.

The paper online
M. Carson (1991) Ribbons 2.0. J.Appl.Cryst. 24:958-961.

Cool unpublished work and figures
M. Carson and C.E. Bugg (1988) Protein Crystal Graphics. Abstract G2, Proceedings of the Annual Meeting of the American Crystallographic Association.

Summary and best figures
M. Carson (1987). Ribbon Models of Macromolecules. J.Mol.Graphics 5:103-106.

Algorithm and best figure
M. Carson and C.E. Bugg (1986) Algorithm for Ribbon Models of Proteins. J.Mol.Graphics 4:121-122.