Conformation-independent structural comparison of macromolecules with ProSMART (Q41895691)

13 October 2017

Conformation-independent structural comparison of macromolecules with ProSMART (English)

1 reference

13 October 2017

1 reference

Robert A Nicholls

0 references

Marcus Fischer

0 references

Stuart McNicholas

1 reference

PMC publication ID

4157452

13 October 2017

Garib N Murshudov

series ordinal

1 reference

13 October 2017

29 August 2014

1 reference

Acta Crystallographica Section D: Biological Crystallography

13 October 2017

1 reference

13 October 2017

1 reference

13 October 2017

Pt 9

1 reference

13 October 2017

2487-2499

1 reference

SCEDS: protein fragments for molecular replacement in Phaser

13 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Low-resolution refinement tools in REFMAC5.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Presenting your structures: the CCP4mg molecular-graphics software

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

REFMAC5 for the refinement of macromolecular crystal structures

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Overview of the CCP4 suite and current developments

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Protein structure alignment based on internal coordinates

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Re-refinement from deposited X-ray data can deliver improved models for most PDB entries

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Fr-TM-align: a new protein structural alignment method based on fragment alignments and the TM-score

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Alignment of protein structures in the presence of domain motions

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Detecting folding motifs and similarities in protein structures

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Matt: local flexibility aids protein multiple structure alignment.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Protein structural similarity search by Ramachandran codes

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

MatAlign: precise protein structure comparison by matrix alignment

5 June 2018

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

5 June 2018

https://api.crossref.org/works/10.1107%2FS1399004714016241

Using an alignment of fragment strings for comparing protein structures.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

CUPSAT: prediction of protein stability upon point mutations.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

MUSTANG: a multiple structural alignment algorithm

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Optimal description of a protein structure in terms of multiple groups undergoing TLS motion

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

FAST: a novel protein structure alignment algorithm.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Domain identification by iterative analysis of error-scaled difference distance matrices

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Flexible structure alignment by chaining aligned fragment pairs allowing twists

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

MASS: multiple structural alignment by secondary structures

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

A graphical user interface to the CCP4 program suite

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

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

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Fold-recognition detects an error in the Protein Data Bank

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

5 June 2018

The Protein Data Bank

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Protein structure alignment using environmental profiles.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Protein structure comparison using the markov transition model of evolution.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Protein structure alignment using a genetic algorithm.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Fast detection of common geometric substructure in proteins.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

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

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Systematic analysis of domain motions in proteins from conformational change: New results on citrate synthase and T4 lysozyme

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Hierarchical protein structure superposition using both secondary structure and atomic representations

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

A surface of minimum area metric for the structural comparison of proteins

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Protein structure comparison by alignment of distance matrices

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Significance of root-mean-square deviation in comparing three-dimensional structures of globular proteins

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

A general method applicable to the search for similarities in the amino acid sequence of two proteins

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Protein structure alignment

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Basic local alignment search tool

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

One thousand families for the molecular biologist

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

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

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Amino acid substitution matrices from protein blocks

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

Flexible protein alignment and hinge detection

18 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

A procedure for determining rigid body transformation parameters

18 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157452

A discussion of the solution for the best rotation to relate two sets of vectors

18 August 2018

1 reference

https://api.crossref.org/works/10.1107%2FS1399004714016241

Rapid comparison of protein structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS1399004714016241

A Comparative Study of Several Dynamic Time-Warping Algorithms for Connected-Word Recognition

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS1399004714016241

Spherically averaged phased translation function and its application to the search for molecules and fragments in electron-density maps

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS1399004714016241

Retraction of "Structure of MsbA from Vibrio cholera: a multidrug resistance ABC transporter homolog in a closed conformation" [J. Mol. Biol. (2003) 330 419-430]

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25195761

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Enhanced fold recognition using efficient short fragment clustering

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25195761

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Using iterative dynamic programming to obtain accurate pairwise and multiple alignments of protein structures

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25195761

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1107/S1399004714016241

1 reference

13 October 2017

1 reference

PMC publication ID

4157452

13 October 2017

PubMed publication ID

25195761

1 reference

PMC publication ID

4157452