Structural phylogeny by profile extraction and multiple superimposition using electrostatic congruence as a discriminator (Q34418947)

2 August 2017

title

Structural phylogeny by profile extraction and multiple superimposition using electrostatic congruence as a discriminator (English)

1 reference

2 August 2017

1 reference

Bjarni Asgeirsson

1 reference

2 August 2017

Basuthkar J Rao

1 reference

2 August 2017

Sandeep Chakraborty

1 reference

2 August 2017

Nathan Baker

1 reference

2 August 2017

publication date

1 January 2013

1 reference

Intrinsically disordered proteins

2 August 2017

published in

1 reference

2 August 2017

1 reference

describes a project that uses

2 August 2017

PyMOL

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&rettype=xml&id=PMC4212511

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The Structure of the Dizinc Subclass B2 Metallo- -Lactamase CphA Reveals that the Second Inhibitory Zinc Ion Binds in the Histidine Site

6 July 2018

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6 July 2018

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Structure of PBP-A from Thermosynechococcus elongatus, a penicillin-binding protein closely related to class A beta-lactamases

6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

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6 July 2018

1 reference

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Independent origins of subgroup Bl + B2 and subgroup B3 metallo-beta-lactamases

6 July 2018

1 reference

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MUSCLE: a multiple sequence alignment method with reduced time and space complexity

6 July 2018

1 reference

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6 July 2018

1 reference

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6 July 2018

1 reference

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6 July 2018

1 reference

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Progressive combinatorial algorithm for multiple structural alignments: application to distantly related proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Structure-based phylogenies of the serine beta-lactamases

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Multiple structural alignment by secondary structures: algorithm and applications

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Crystal structure of wild-type penicillin-binding protein 5 from Escherichia coli: implications for deacylation of the acyl-enzyme complex

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Flexible structure alignment by chaining aligned fragment pairs allowing twists

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Integration of related sequences with protein three-dimensional structural families in an updated version of PALI database.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

MRBAYES: Bayesian inference of phylogenetic trees

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Electrostatics of nanosystems: application to microtubules and the ribosome

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

The high resolution crystal structure for class A beta-lactamase PER-1 reveals the bases for its increase in breadth of activity

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Recognition of spatial motifs in protein structures

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Mapping the protein universe

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Evolutionary families of peptidases

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Identification of common molecular subsequences

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Identification of BlaR, the signal transducer for beta-lactamase production in Bacillus licheniformis, as a penicillin-binding protein with strong homology to the OXA-2 beta-lactamase (class D) of Salmonella typhimurium.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

Serine beta-lactamases and penicillin-binding proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4212511

The metallo-beta-lactamases fall into two distinct phylogenetic groups.

6 July 2018

1 reference

MISTRAL: a tool for energy-based multiple structural alignment of proteins

21 January 2018

1 reference

Inhibition of a cold-active alkaline phosphatase by imipenem revealed by in silico modeling of metallo-β-lactamase active sites.

21 January 2018

1 reference

Detection of unrelated proteins in sequences multiple alignments by using predicted secondary structures.

21 January 2018

1 reference

The unusual catalytic triad of poliovirus protease 3C.

21 January 2018

1 reference

A metallo-beta-lactamase enzyme in action: crystal structures of the monozinc carbapenemase CphA and its complex with biapenem

21 January 2018

1 reference

Electrostatic potential of nucleotide-free protein is sufficient for discrimination between adenine and guanine-specific binding sites

21 January 2018

1 reference

Classification of protein sequences by homology modeling and quantitative analysis of electrostatic similarity.

21 January 2018

1 reference

On the use of PIPSA to guide target-selective drug design

21 January 2018

1 reference

Geno3D: automatic comparative molecular modelling of protein.

21 January 2018

1 reference

Knowledge-based modeling of the serine protease triad into non-proteases

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25364645

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Catalytic mechanism of class A beta-lactamase. I. The role of Glu166 and Serl30 in the deacylation reaction

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25364645

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Conservation of electrostatic properties within enzyme families and superfamilies

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25364645

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

0 references

1 reference

2 August 2017

1 reference