Role for NMR in Structural Genomics

Overview

Journal J Struct Funct Genomics

Specialty Genetics

Date 2003 Jul 3

PMID 12836706

Citations 15

Authors

Michael A Kennedy

Gaetano T Montelione

Cheryl H Arrowsmith

John L Markley

Affiliations

Soon will be listed here.

Abstract

The 2nd EMSL Workshop on Structural Genomics was held on 28th and 29th July 2000 at the Environmental Molecular Sciences Laboratory at the Department of Energy's Pacific Northwest National Laboratory in Richland, WA. The workshop focused on four topics: 1. The role for NMR in structural and functional genomics; 2. The technical challenges NMR faces for structural and functional genomics; 3. The potential need for a national NMR center for structural and functional genomics in the United States; and 4. Organization of the NMR community. This report summarizes the workshop proceedings and conclusions reached regarding the role of NMR in the emerging fields of structural and functional genomics.

Citing Articles

CAP modifies the structure of a model protein from thermophilic bacteria: mechanisms of CAP-mediated inactivation.

Attri P, Han J, Choi S, Choi E, Bogaerts A, Lee W Sci Rep. 2018; 8(1):10218.

PMID: 29977069 PMC: 6033864. DOI: 10.1038/s41598-018-28600-w.

Probing the Folding-Unfolding Transition of a Thermophilic Protein, MTH1880.

Kim H, Kim S, Jung Y, Han J, Yun J, Chang I PLoS One. 2016; 11(1):e0145853.

PMID: 26766214 PMC: 4713090. DOI: 10.1371/journal.pone.0145853.

Maximum Entropy Spectral Reconstruction of Non-Uniformly Sampled Data.

Mobli M, Hoch J Concepts Magn Reson Part A Bridg Educ Res. 2011; 32A(6):436-448.

PMID: 21562616 PMC: 3090151. DOI: 10.1002/cmr.a.20126.

Lessons from structural genomics.

Terwilliger T, Stuart D, Yokoyama S Annu Rev Biophys. 2009; 38:371-83.

PMID: 19416074 PMC: 2847842. DOI: 10.1146/annurev.biophys.050708.133740.

Enhanced bacterial protein expression during auto-induction obtained by alteration of lac repressor dosage and medium composition.

Blommel P, Becker K, Duvnjak P, Fox B Biotechnol Prog. 2007; 23(3):585-98.

PMID: 17506520 PMC: 2747370. DOI: 10.1021/bp070011x.

References

Zuiderweg E . Mapping protein-protein interactions in solution by NMR spectroscopy. Biochemistry. 2002; 41(1):1-7. DOI: 10.1021/bi011870b. View

Edwards A, Arrowsmith C, Christendat D, Dharamsi A, Friesen J, Greenblatt J . Protein production: feeding the crystallographers and NMR spectroscopists. Nat Struct Biol. 2000; 7 Suppl:970-2. DOI: 10.1038/80751. View

Wright P, Dyson H . Intrinsically unstructured proteins: re-assessing the protein structure-function paradigm. J Mol Biol. 1999; 293(2):321-31. DOI: 10.1006/jmbi.1999.3110. View

Christendat D, Yee A, Dharamsi A, Kluger Y, Savchenko A, Cort J . Structural proteomics of an archaeon. Nat Struct Biol. 2000; 7(10):903-9. DOI: 10.1038/82823. View

Ghose R, Fushman D, Cowburn D . Determination of the rotational diffusion tensor of macromolecules in solution from nmr relaxation data with a combination of exact and approximate methods--application to the determination of interdomain orientation in multidomain proteins. J Magn Reson. 2001; 149(2):204-17. DOI: 10.1006/jmre.2001.2295. View

Zimmerman D, Kulikowski C, Huang Y, Feng W, Tashiro M, Shimotakahara S . Automated analysis of protein NMR assignments using methods from artificial intelligence. J Mol Biol. 1997; 269(4):592-610. DOI: 10.1006/jmbi.1997.1052. View

Sali A . 100,000 protein structures for the biologist. Nat Struct Biol. 1998; 5(12):1029-32. DOI: 10.1038/4136. View

Daughdrill G, Hanely L, Dahlquist F . The C-terminal half of the anti-sigma factor FlgM contains a dynamic equilibrium solution structure favoring helical conformations. Biochemistry. 1998; 37(4):1076-82. DOI: 10.1021/bi971952t. View

Linge J, ODonoghue S, Nilges M . Automated assignment of ambiguous nuclear overhauser effects with ARIA. Methods Enzymol. 2001; 339:71-90. DOI: 10.1016/s0076-6879(01)39310-2. View

10.

Venters R, Farmer 2nd B, Fierke C, SPICER L . Characterizing the use of perdeuteration in NMR studies of large proteins: 13C, 15N and 1H assignments of human carbonic anhydrase II. J Mol Biol. 1996; 264(5):1101-16. DOI: 10.1006/jmbi.1996.0699. View

11.

Campbell I, Downing A . NMR of modular proteins. Nat Struct Biol. 1998; 5 Suppl:496-9. DOI: 10.1038/733. View

12.

Montelione G, Anderson S . Structural genomics: keystone for a Human Proteome Project. Nat Struct Biol. 1999; 6(1):11-2. DOI: 10.1038/4878. View

13.

Heinemann U . Structural genomics in Europe: slow start, strong finish?. Nat Struct Biol. 2000; 7 Suppl:940-2. DOI: 10.1038/80707. View

14.

Andrin C, Corbett E, Johnson S, Dabrowska M, Campbell I, Eggleton P . Expression and purification of mammalian calreticulin in Pichia pastoris. Protein Expr Purif. 2000; 20(2):207-15. DOI: 10.1006/prep.2000.1291. View

15.

Wang J, Lemaster D, Markley J . Two-dimensional NMR studies of staphylococcal nuclease. 1. Sequence-specific assignments of hydrogen-1 signals and solution structure of the nuclease H124L-thymidine 3',5'-bisphosphate-Ca2+ ternary complex. Biochemistry. 1990; 29(1):88-101. DOI: 10.1021/bi00453a011. View

16.

Frishman D, Mewes H . Genome-based structural biology. Prog Biophys Mol Biol. 1999; 72(1):1-17. DOI: 10.1016/s0079-6107(98)00057-1. View

17.

Romero P, Obradovic Z, Li X, Garner E, Brown C, Dunker A . Sequence complexity of disordered protein. Proteins. 2000; 42(1):38-48. DOI: 10.1002/1097-0134(20010101)42:1<38::aid-prot50>3.0.co;2-3. View

18.

Burley S, Almo S, Bonanno J, Capel M, Chance M, Gaasterland T . Structural genomics: beyond the human genome project. Nat Genet. 1999; 23(2):151-7. DOI: 10.1038/13783. View

19.

Gaasterland T . Structural genomics: bioinformatics in the driver's seat. Nat Biotechnol. 1998; 16(7):625-7. DOI: 10.1038/nbt0798-625. View

20.

Yokoyama S, Hirota H, Kigawa T, Yabuki T, Shirouzu M, Terada T . Structural genomics projects in Japan. Nat Struct Biol. 2000; 7 Suppl:943-5. DOI: 10.1038/80712. View