Overview of structural genomics: from structure to function - PubMed

Review

Overview of structural genomics: from structure to function

Chao Zhang et al. Curr Opin Chem Biol. 2003 Feb.

Abstract

The unprecedented increase in the number of new protein sequences arising from genomics and proteomics highlights directly the need for methods to rapidly and reliably determine the molecular and cellular functions of these proteins. One such approach, structural genomics, aims to delineate the total repertoire of protein folds, thereby providing three-dimensional portraits for all proteins in a living organism and to infer molecular functions of the proteins. The goal of obtaining protein structures on a genomic scale has motivated the development of high-throughput technologies for macromolecular structure determination, which have begun to produce structures at a greater rate than previously possible. These new structures have revealed many unexpected functional and evolution relationships that were hidden at the sequence level.

Similar articles

• Structure-based functional inference in structural genomics.

  Kim SH, Shin DH, Choi IG, Schulze-Gahmen U, Chen S, Kim R. Kim SH, et al. J Struct Funct Genomics. 2003;4(2-3):129-35. doi: 10.1023/a:1026200610644. J Struct Funct Genomics. 2003. PMID: 14649297 Review.

• Structure-based inference of molecular functions of proteins of unknown function from Berkeley Structural Genomics Center.

  Shin DH, Hou J, Chandonia JM, Das D, Choi IG, Kim R, Kim SH. Shin DH, et al. J Struct Funct Genomics. 2007 Sep;8(2-3):99-105. doi: 10.1007/s10969-007-9025-4. Epub 2007 Sep 2. J Struct Funct Genomics. 2007. PMID: 17764033 Review.

• Protein structure prediction and analysis as a tool for functional genomics.

  Baker EN, Arcus VL, Lott JS. Baker EN, et al. Appl Bioinformatics. 2003;2(3 Suppl):S3-10. Appl Bioinformatics. 2003. PMID: 15130810

• SUPFAM--a database of potential protein superfamily relationships derived by comparing sequence-based and structure-based families: implications for structural genomics and function annotation in genomes.

  Pandit SB, Gosar D, Abhiman S, Sujatha S, Dixit SS, Mhatre NS, Sowdhamini R, Srinivasan N. Pandit SB, et al. Nucleic Acids Res. 2002 Jan 1;30(1):289-93. doi: 10.1093/nar/30.1.289. Nucleic Acids Res. 2002. PMID: 11752317 Free PMC article.

• Structure-based functional discovery of proteins: structural proteomics.

  Jung JW, Lee W. Jung JW, et al. J Biochem Mol Biol. 2004 Jan 31;37(1):28-34. doi: 10.5483/bmbrep.2004.37.1.028. J Biochem Mol Biol. 2004. PMID: 14761300 Review.

Cited by

• Structural basis for the toxic activity of MafB2 from maf genomic island 2 (MGI-2) in N. meningitidis B16B6.

  Park SH, Jeong SJ, Ha SC. Park SH, et al. Sci Rep. 2023 Feb 27;13(1):3365. doi: 10.1038/s41598-023-30528-9. Sci Rep. 2023. PMID: 36849501 Free PMC article.

• Structural similarity to bridge sequence space: finding new families on the bridges.

  Shah PK, Aloy P, Bork P, Russell RB. Shah PK, et al. Protein Sci. 2005 May;14(5):1305-14. doi: 10.1110/ps.041187405. Protein Sci. 2005. PMID: 15840833 Free PMC article.

• Structure-based functional identification of a novel heme-binding protein from Thermus thermophilus HB8.

  Ebihara A, Okamoto A, Kousumi Y, Yamamoto H, Masui R, Ueyama N, Yokoyama S, Kuramitsu S. Ebihara A, et al. J Struct Funct Genomics. 2005;6(1):21-32. doi: 10.1007/s10969-005-1103-x. J Struct Funct Genomics. 2005. PMID: 15965735

• Predicting protein function by machine learning on amino acid sequences--a critical evaluation.

  Al-Shahib A, Breitling R, Gilbert DR. Al-Shahib A, et al. BMC Genomics. 2007 Mar 20;8:78. doi: 10.1186/1471-2164-8-78. BMC Genomics. 2007. PMID: 17374164 Free PMC article.

• Solution structure of a novel calcium binding protein, MTH1880, from Methanobacterium thermoautotrophicum.

  Lee CH, Jung JW, Yee A, Arrowsmith CH, Lee W. Lee CH, et al. Protein Sci. 2004 Apr;13(4):1148-54. doi: 10.1110/ps.03472104. Protein Sci. 2004. PMID: 15044740 Free PMC article.

Publication types

MeSH terms

Substances

LinkOut - more resources

• Full Text Sources

  • Elsevier Science

• Other Literature Sources

  • The Lens - Patent Citations Database