Literature DB >> 20685692

A moment invariant for evaluating the chirality of three-dimensional objects.

Johan Hattne1, Victor S Lamzin.   

Abstract

Chirality is an important feature of three-dimensional objects and a key concept in chemistry, biology and many other disciplines. However, it has been difficult to quantify, largely owing to computational complications. Here we present a general chirality measure, called the chiral invariant (CI), which is applicable to any three-dimensional object containing a large amount of data. The CI distinguishes the hand of the object and quantifies the degree of its handedness. It is invariant to the translation, rotation and scale of the object, and tolerant to a modest amount of noise in the experimental data. The invariant is expressed in terms of moments and can be computed in almost no time. Because of its universality and computational efficiency, the CI is suitable for a wide range of pattern-recognition problems. We demonstrate its applicability to molecular atomic models and their electron density maps. We show that the occurrence of the conformations of the macromolecular polypeptide backbone is related to the value of the CI of the constituting peptide fragments. We also illustrate how the CI can be used to assess the quality of a crystallographic electron density map.

Mesh:

Substances:

Year:  2010        PMID: 20685692      PMCID: PMC3024826          DOI: 10.1098/rsif.2010.0297

Source DB:  PubMed          Journal:  J R Soc Interface        ISSN: 1742-5662            Impact factor:   4.118


  19 in total

1.  Structure validation by Calpha geometry: phi,psi and Cbeta deviation.

Authors:  Simon C Lovell; Ian W Davis; W Bryan Arendall; Paul I W de Bakker; J Michael Word; Michael G Prisant; Jane S Richardson; David C Richardson
Journal:  Proteins       Date:  2003-02-15

2.  FDA's policy statement for the development of new stereoisomeric drugs.

Authors: 
Journal:  Chirality       Date:  1992       Impact factor: 2.437

3.  The hierarchy of chirality.

Authors:  Kalman Schulgasser; Allan Witztum
Journal:  J Theor Biol       Date:  2004-09-21       Impact factor: 2.691

4.  Spiralling upward.

Authors:  Kalman Schulgasser; Allan Witztum
Journal:  J Theor Biol       Date:  2004-09-21       Impact factor: 2.691

5.  Chemical communication in scarab beetles: reciprocal behavioral agonist-antagonist activities of chiral pheromones.

Authors:  W S Leal
Journal:  Proc Natl Acad Sci U S A       Date:  1996-10-29       Impact factor: 11.205

6.  Structure of an enantiomeric protein, D-monellin at 1.8 A resolution.

Authors:  L W Hung; M Kohmura; Y Ariyoshi; S H Kim
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  1998-07-01

7.  The structure of a centrosymmetric protein crystal.

Authors:  L E Zawadzke; J M Berg
Journal:  Proteins       Date:  1993-07

8.  Serine racemase: a glial enzyme synthesizing D-serine to regulate glutamate-N-methyl-D-aspartate neurotransmission.

Authors:  H Wolosker; S Blackshaw; S H Snyder
Journal:  Proc Natl Acad Sci U S A       Date:  1999-11-09       Impact factor: 11.205

9.  Structural differences in D and L-monellin in the crystals of racemic mixture.

Authors:  L W Hung; M Kohmura; Y Ariyoshi; S H Kim
Journal:  J Mol Biol       Date:  1999-01-08       Impact factor: 5.469

10.  Structure determination of racemic trichogin A IV using centrosymmetric crystals.

Authors:  C Toniolo; C Peggion; M Crisma; F Formaggio; X Shui; D S Eggleston
Journal:  Nat Struct Biol       Date:  1994-12
View more
  3 in total

1.  Automatic recognition of ligands in electron density by machine learning.

Authors:  Marcin Kowiel; Dariusz Brzezinski; Przemyslaw J Porebski; Ivan G Shabalin; Mariusz Jaskolski; Wladek Minor
Journal:  Bioinformatics       Date:  2019-02-01       Impact factor: 6.937

2.  Recognizing and validating ligands with CheckMyBlob.

Authors:  Dariusz Brzezinski; Przemyslaw J Porebski; Marcin Kowiel; Joanna M Macnar; Wladek Minor
Journal:  Nucleic Acids Res       Date:  2021-07-02       Impact factor: 16.971

3.  Automated identification of crystallographic ligands using sparse-density representations.

Authors:  C G Carolan; V S Lamzin
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2014-06-29
  3 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.