Literature DB >> 8535234

Structural similarity between the pleckstrin homology domain and verotoxin: the problem of measuring and evaluating structural similarity.

C A Orengo1, M B Swindells, A D Michie, M J Zvelebil, P C Driscoll, M D Waterfield, J M Thornton.   

Abstract

An unexpected structural similarity is described between the pleckstrin homology (PH) domain and verotoxin. This similarity has escaped detection primarily due to the differences in topology that exist between the two proteins. By comparing this result with two previously reported similarities for the PH domain, one with the lipocalins and another with the FK506 binding protein, we discuss the problems of measuring and assessing structural similarities.

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Year:  1995        PMID： 8535234      PMCID： PMC2142992          DOI： 10.1002/pro.5560041003

Source DB:  PubMed          Journal:  Protein Sci        ISSN： 0961-8368            Impact factor:   6.725


  20 in total

1.  Multiple protein sequence alignment from tertiary structure comparison: assignment of global and residue confidence levels.

Authors:  R B Russell; G J Barton
Journal:  Proteins       Date:  1992-10

2.  Fast structure alignment for protein databank searching.

Authors:  C A Orengo; N P Brown; W R Taylor
Journal:  Proteins       Date:  1992-10

3.  Common spatial arrangements of backbone fragments in homologous and non-homologous proteins.

Authors:  N N Alexandrov; K Takahashi; N Go
Journal:  J Mol Biol       Date:  1992-05-05       Impact factor: 5.469

4.  Exploring structural homology of proteins.

Authors:  M G Rossmann; P Argos
Journal:  J Mol Biol       Date:  1976-07-25       Impact factor: 5.469

5.  Visualization of structural similarity in proteins.

Authors:  F Rippmann; W R Taylor
Journal:  J Mol Graph       Date:  1991-09

6.  Definition of general topological equivalence in protein structures. A procedure involving comparison of properties and relationships through simulated annealing and dynamic programming.

Authors:  A Sali; T L Blundell
Journal:  J Mol Biol       Date:  1990-03-20       Impact factor: 5.469

7.  Protein structure alignment.

Authors:  W R Taylor; C A Orengo
Journal:  J Mol Biol       Date:  1989-07-05       Impact factor: 5.469

8.  Crystal structure of the pleckstrin homology domain from dynamin.

Authors:  D Timm; K Salim; I Gout; L Guruprasad; M Waterfield; T Blundell
Journal:  Nat Struct Biol       Date:  1994-11

9.  Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features.

Authors:  W Kabsch; C Sander
Journal:  Biopolymers       Date:  1983-12       Impact factor: 2.505

10.  OB(oligonucleotide/oligosaccharide binding)-fold: common structural and functional solution for non-homologous sequences.

Authors:  A G Murzin
Journal:  EMBO J       Date:  1993-03       Impact factor: 11.598
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  5 in total

Review 1.  Classification of protein folds.

Authors:  Robert B Russell
Journal:  Mol Biotechnol       Date:  2002-01       Impact factor: 2.695

2.  The case for a common ancestor: kinesin and myosin motor proteins and G proteins.

Authors:  F J Kull; R D Vale; R J Fletterick
Journal:  J Muscle Res Cell Motil       Date:  1998-11       Impact factor: 2.698

3.  Comprehensive assessment of automatic structural alignment against a manual standard, the scop classification of proteins.

Authors:  M Gerstein; M Levitt
Journal:  Protein Sci       Date:  1998-02       Impact factor: 6.725

4.  Classification of protein folds.

Authors:  Robert B Russell
Journal:  Mol Biotechnol       Date:  2007-07       Impact factor: 2.860

5.  Using HHsearch to tackle proteins of unknown function: A pilot study with PH domains.

Authors:  David R Fidler; Sarah E Murphy; Katherine Courtis; Pantelis Antonoudiou; Rana El-Tohamy; Jonathan Ient; Timothy P Levine
Journal:  Traffic       Date:  2016-10-09       Impact factor: 6.215
  5 in total

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