A tale of two symmetrical tails: structural and functional characteristics of palindromes in proteins (Q21284203)

18 August 2022

Armita Sheari

1

Armita

Sheari

1 reference

18 August 2022

Mehdi Kargar

2

Mehdi

Kargar

1 reference

18 August 2022

Ali Katanforoush

3

Ali

Katanforoush

1 reference

18 August 2022

Shahriar Arab

4

Shahriar

Arab

1 reference

18 August 2022

Mehdi Sadeghi

5

Mehdi

Sadeghi

1 reference

18 August 2022

Hamid Pezeshk

6

Hamid

Pezeshk

1 reference

18 August 2022

Changiz Eslahchi

7

Changiz

Eslahchi

1 reference

PISCES: recent improvements to a PDB sequence culling server

18 August 2022

language of work or name

English

0 references

publication date

2008

0 references

published in

BMC Bioinformatics

0 references

volume

9

0 references

issue

1

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page(s)

274

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cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

The RCSB Protein Data Bank: a redesigned query system and relational database based on the mmCIF schema

19 March 2017

1 reference

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Specific cleavage of simian virus 40 DNA by restriction endonuclease of Hemophilus influenzae

19 March 2017

1 reference

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Collagen stabilization at atomic level: crystal structure of designed (GlyProPro)10foldon

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Structure of antibody-bound peptides and retro-inverso analogues. A transferred nuclear Overhauser effect spectroscopy and molecular dynamics approach

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

The retro-GCN4 leucine zipper sequence forms a stable three-dimensional structure

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

WebLogo: A Sequence Logo Generator

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

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

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

19 March 2017

Palindromes in proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Intrinsic evolution of proteins. The role of peptidic palindromes

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Why reversing the sequence of the alpha domain of human metallothionein-2 does not change its metal-binding and folding characteristics

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

PISCES: a protein sequence culling server

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

On the role of periodism in the origin of proteins

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Sequence complexity profiles of prokaryotic genomic sequences: a fast algorithm for calculating linguistic complexity

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Increased coverage of protein families with the blocks database servers

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

A functional protein pore with a "retro" transmembrane domain

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Reading protein sequences backwards

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Inverse sequence similarity in proteins and its relation to the three-dimensional fold.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Palindromic sequences preceding the terminator increase polymerase III template activity

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Does a backwardly read protein sequence have a unique native state?

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

A song in praise of peptide palindromes.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Antigenic mimicry of natural L-peptides with retro-inverso-peptidomimetics

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Cooperatively folded proteins in random sequence libraries

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

A Specific Complex between a Restriction Endonuclease and Its DNA Substrate

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Degradation of Enteric Bacterial Deoxyribonucleic Acid by the Escherichia coli B Restriction Endonuclease

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

The Escherichia coli B restriction endonuclease

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Over- and under-representation of short oligonucleotides in DNA sequences

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

DNA-bridging by a palindromic alpha-helix

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Reversal of peptide backbone direction may result in the mirroring of protein structure

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Sequence specific peptidomimetic molecules inhibitors of a protein-protein interaction at the helix 1 level of c-Myc.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Initiation of DNA Replication at Palindromic Telomeres Is Mediated by a Duplex-to-Hairpin Transition Induced by the Minute Virus of Mice Nonstructural Protein NS1

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Avoidance of palindromic words in bacterial and archaeal genomes: a close connection with restriction enzymes

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Of palindromes and peptides

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Retroinverso mimetics of S peptide

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Improving protein identification using complementary fragmentation techniques in fourier transform mass spectrometry

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

The relationship between palindrome avoidance and intragenic codon usage variations: a Monte Carlo study.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Distribution of potential type II restriction sites (palindromes) in prokaryotes.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Inverse sequence similarity of proteins does not imply structural similarity

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

A backbone-reversed form of an all-beta alpha-crystallin domain from a small heat-shock protein (retro-HSP12.6) folds and assembles into structured multimers.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Blocks+: a non-redundant database of protein alignment blocks derived from multiple compilations.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2474621

Identification of putative internalization signals in prion proteins

29 November 2018

1 reference

12 December 2020

Protein design by binary patterning of polar and nonpolar amino acids

1 reference

12 December 2020

Cross-reactivity of antibodies to retro-inverso peptidomimetics with the parent protein histone H3 and chromatin core particle. Specificity and kinetic rate-constant measurements

1 reference

12 December 2020

Topological mimicry of cross-reacting enantiomeric peptide antigens

1 reference

12 December 2020

Characterization of soluble artificial proteins with random sequences

1 reference

12 December 2020

Use of a retroinverso p53 peptide as an inhibitor of MDM2

1 reference

12 December 2020

Palindrome content of the yeast Saccharomyces cerevisiae genome

1 reference

12 December 2020

Structure-function studies of the functional and binding epitope of the human 37 kDa laminin receptor precursor protein

1 reference

12 December 2020

Structural and functional studies on Ribonuclease S, retro S and retro-inverso S peptides

1 reference

12 December 2020

journals/bmcbi/SheariKKASPEM08

Identifiers

DOI

10.1186/1471-2105-9-274

0 references

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021