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Literature DB >> 11104008

From structure to function: approaches and limitations.

J M Thornton¹, A E Todd, D Milburn, N Borkakoti, C A Orengo.

Abstract

This review presents a summary of current approaches to extract functional information from structural data on proteins and their complexes. While structural homologs may reveal possible biochemical functions (which may be hidden at the sequence level), elucidating the exact biological role of a protein in vivo will only be possible by including other results, such as data on expression and localization.

Mesh：

Substances：
Proteins

Year: 2000 PMID： 11104008 DOI： 10.1038/80784

Source DB: PubMed Journal: Nat Struct Biol ISSN： 1072-8368

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Cited

57 in total

1. 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.

Authors: Shashi B Pandit; Dilip Gosar; S Abhiman; S Sujatha; Sayali S Dixit; Natasha S Mhatre; R Sowdhamini; N Srinivasan
Journal: Nucleic Acids Res Date: 2002-01-01 Impact factor: 16.971

2. Annotation transfer for genomics: measuring functional divergence in multi-domain proteins.

Authors: H Hegyi; M Gerstein
Journal: Genome Res Date: 2001-10 Impact factor: 9.043

3. Homology modelling and structural analysis of human arylamine N-acetyltransferase NAT1: evidence for the conservation of a cysteine protease catalytic domain and an active-site loop.

Authors: F Rodrigues-Lima; C Deloménie; G H Goodfellow; D M Grant; J M Dupret
Journal: Biochem J Date: 2001-06-01 Impact factor: 3.857

From structure to function: approaches and limitations.

1. 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.

2. Annotation transfer for genomics: measuring functional divergence in multi-domain proteins.

3. Homology modelling and structural analysis of human arylamine N-acetyltransferase NAT1: evidence for the conservation of a cysteine protease catalytic domain and an active-site loop.

4. MAMMOTH (matching molecular models obtained from theory): an automated method for model comparison.

5. From protein structure to biochemical function?

6. Parameter optimized surfaces (POPS): analysis of key interactions and conformational changes in the ribosome.

7. Annotation in three dimensions. PINTS: Patterns in Non-homologous Tertiary Structures.

8. Identification of protein biochemical functions by similarity search using the molecular surface database eF-site.

Review 9. Target selection and determination of function in structural genomics.

10. The PFP and ESG protein function prediction methods in 2014: effect of database updates and ensemble approaches.