(Q35153537)

6 August 2017

title

Biological insights from topology independent comparison of protein 3D structures (English)

1 reference

6 August 2017

Minh N Nguyen

1

1 reference

6 August 2017

M S Madhusudhan

series ordinal

2

1 reference

6 August 2017

language of work or name

English

0 references

publication date

19 May 2011

1 reference

6 August 2017

published in

Nucleic Acids Research

1 reference

6 August 2017

volume

39

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6 August 2017

issue

14

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6 August 2017

page(s)

e94

1 reference

Creative Commons Attribution-NonCommercial 3.0 Unported

6 August 2017

copyright license

start time

5 October 2016

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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Protein structure alignment considering phenotypic plasticity.

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13 July 2018

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13 July 2018

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Data growth and its impact on the SCOP database: new developments

13 July 2018

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13 July 2018

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13 July 2018

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Structure of the multidrug ABC transporter Sav1866 from Staphylococcus aureus in complex with AMP-PNP

13 July 2018

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Using an alignment of fragment strings for comparing protein structures.

13 July 2018

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SISYPHUS--structural alignments for proteins with non-trivial relationships

13 July 2018

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TOPOFIT-DB, a database of protein structural alignments based on the TOPOFIT method

13 July 2018

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The ARTS web server for aligning RNA tertiary structures

13 July 2018

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MUSTANG: a multiple structural alignment algorithm.

13 July 2018

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13 July 2018

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Comprehensive evaluation of protein structure alignment methods: scoring by geometric measures.

13 July 2018

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13 July 2018

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Structural alignment of proteins by a novel TOPOFIT method, as a superimposition of common volumes at a topomax point

13 July 2018

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FATCAT: a web server for flexible structure comparison and structure similarity searching

13 July 2018

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A new, structurally nonredundant, diverse data set of protein-protein interfaces and its implications

13 July 2018

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13 July 2018

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MASS: multiple structural alignment by secondary structures

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

Comparative protein structure modeling by iterative alignment, model building and model assessment

13 July 2018

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A conformational analysis of Walker motif A [GXXXXGKT (S)] in nucleotide-binding and other proteins

13 July 2018

1 reference

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

13 July 2018

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3D domain swapping: as domains continue to swap

13 July 2018

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13 July 2018

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PurT-encoded glycinamide ribonucleotide transformylase. Accommodation of adenosine nucleotide analogs within the active site

13 July 2018

1 reference

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13 July 2018

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Fold change in evolution of protein structures

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

Protein structure similarities.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

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13 July 2018

1 reference

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Heteronuclear NMR and soft docking: an experimental approach for a structural model of the cytochrome c553-ferredoxin complex

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

13 July 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=3152366

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

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

CATH--a hierarchic classification of protein domain structures

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

Novel zinc-binding centre in thermoacidophilic archaeal ferredoxins

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

A dataset of protein-protein interfaces generated with a sequence-order-independent comparison technique

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

Mapping the protein universe

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

A computer vision based technique for 3-D sequence-independent structural comparison of proteins

13 July 2018

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

13 July 2018

https://api.crossref.org/works/10.1093%2FNAR%2FGKR348

Protein structure comparison by alignment of distance matrices

21 January 2018

1 reference

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Comparative protein modelling by satisfaction of spatial restraints

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

SCOP: a structural classification of proteins database for the investigation of sequences and structures

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

Structures of ternary complexes of rat DNA polymerase beta, a DNA template-primer, and ddCTP

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

How different amino acid sequences determine similar protein structures: the structure and evolutionary dynamics of the globins

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

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

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

Conformation of [Cd7]-metallothionein-2 from rat liver in aqueous solution determined by nuclear magnetic resonance spectroscopy

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

Three-dimensional structure of human [113Cd7]metallothionein-2 in solution determined by nuclear magnetic resonance spectroscopy

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

Efficient detection of three-dimensional structural motifs in biological macromolecules by computer vision techniques

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

Packing of α-helices: Geometrical constraints and contact areas

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

SARA: a server for function annotation of RNA structures

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

The CATH classification revisited--architectures reviewed and new ways to characterize structural divergence in superfamilies

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

RNA structure alignment by a unit-vector approach

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

Autophosphorylation of Archaeoglobus fulgidus Rio2 and crystal structures of its nucleotide-metal ion complexes

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3152366

ARTS: alignment of RNA tertiary structures

27 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21596786

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Structural search and retrieval using a tableau representation of protein folding patterns

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21596786

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKR348

1 reference

6 August 2017

1 reference

6 August 2017

1 reference