Protein structure alignment using a genetic algorithm. (Q30326372)

18 June 2017

title

Protein structure alignment using a genetic algorithm. (English)

1 reference

18 June 2017

Szustakowski JD

1

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18 June 2017

Weng Z

series ordinal

2

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18 June 2017

language of work or name

English

0 references

publication date

1 March 2000

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18 June 2017

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18 June 2017

volume

38

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18 June 2017

issue

4

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18 June 2017

page(s)

428-440

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Structure of haemoglobin: a three-dimensional Fourier synthesis at 5.5-A. resolution, obtained by X-ray analysis

18 June 2017

cites work

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Structural classification of proteins: new superfamilies

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

How far divergent evolution goes in proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

SCOP: a Structural Classification of Proteins database.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

The CATH Database provides insights into protein structure/function relationships.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Protein folds and families: sequence and structure alignments

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Protein structure alignment

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Molecular structure matching by simulated annealing. III. The incorporation of null correspondences into the matching problem.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Detection of common three-dimensional substructures in proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

An efficient automated computer vision based technique for detection of three dimensional structural motifs in proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Fast structure alignment for protein databank searching

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Identification of tertiary structure resemblance in proteins using a maximal common subgraph isomorphism algorithm.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Protein structure comparison by alignment of distance matrices

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Structural superposition of proteins with unknown alignment and detection of topological similarity using a six-dimensional search algorithm

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Improved genetic algorithm-based protein structure comparisons: pairwise and multiple superpositions

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Mapping the protein universe

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Finding local structural similarities among families of unrelated protein structures: a generic non-linear alignment algorithm

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Fast and simple Monte Carlo algorithm for side chain optimization in proteins: application to model building by homology

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Protein structure alignment by incremental combinatorial extension (CE) of the optimal path

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Threading a database of protein cores

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Optimum superimposition of protein structures: ambiguities and implications.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Structural origins of high-affinity biotin binding to streptavidin

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Three-dimensional structure of the tetragonal crystal form of egg-white avidin in its functional complex with biotin at 2.7 A resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

2.0 A crystal structure of a four-domain segment of human fibronectin encompassing the RGD loop and synergy region

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Volume changes in protein evolution.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Comparative modeling methods: application to the family of the mammalian serine proteases

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

The crystal structure of human deoxyhaemoglobin at 1.74 A resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Structure of erythrocruorin in different ligand states refined at 1·4 Å resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Refinement of a molecular model for lamprey hemoglobin from Petromyzon marinus

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Crystal structures of recombinant human dihydrofolate reductase complexed with folate and 5-deazafolate

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Crystal structure of chicken liver dihydrofolate reductase complexed with NADP+ and biopterin

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Solvent structure in crystals of trypsin determined by X-ray and neutron diffraction

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

The atomic structure of crystalline porcine pancreatic elastase at 2.5 Å resolution: Comparisons with the structure of α-chymotrypsin

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

The structure of rat mast cell protease II at 1.9-A resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Refined crystal structure of Streptomyces griseus trypsin at 1.7 A resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Rat submaxillary gland serine protease, tonin. Structure solution and refinement at 1.8 A resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Conformational substates in enzyme mechanism: the 120 K structure of alpha-lytic protease at 1.5 A resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Crystal structure of human trypsin 1: unexpected phosphorylation of Tyr151

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Structural analysis of Sindbis virus capsid mutants involving assembly and catalysis

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Structure of Sindbis virus core protein reveals a chymotrypsin-like serine proteinase and the organization of the virion

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Structure of pvu II DNA-(cytosine N4) methyltransferase, an example of domain permutation and protein fold assignment

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Differential binding of S-adenosylmethionine S-adenosylhomocysteine and Sinefungin to the adenine-specific DNA methyltransferase M.TaqI

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

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

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Raster3D: photorealistic molecular graphics

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Universal catalytic domain structure of AdoMet-dependent methyltransferases.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Structural comparisons among the short-chain helical cytokines

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Determinants of a protein fold. Unique features of the globin amino acid sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Evolution of proteins formed by beta-sheets. II. The core of the immunoglobulin domains

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Structure of crystalline -chymotrypsin. V. The atomic structure of tosyl- -chymotrypsin at 2 A resolution

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

Refined 2.5 A X-ray crystal structure of the complex formed by porcine kallikrein A and the bovine pancreatic trypsin inhibitor. Crystallization, Patterson search, structure determination, refinement, structure and comparison with its [...]

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1 reference

https://api.crossref.org/works/10.1002%2F%28SICI%291097-0134%2820000301%2938%3A4%3C428%3A%3AAID-PROT8%3E3.0.CO%3B2-N

10.1002/(SICI)1097-0134(20000301)38:4<428::AID-PROT8>3.0.CO;2-N

21 January 2018

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DOI

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18 June 2017

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