(Q21145694)

5 July 2017

title

Structural evolution of the protein kinase-like superfamily (English)

1 reference

5 July 2017

0 references

2

Philip E Bourne

Philip E

Bourne

1 reference

PubMed

17 August 2022

1

Eric D Scheeff

Eric D

Scheeff

1 reference

5 July 2017

language of work or name

English

0 references

publication date

21 October 2005

1 reference

PLOS Computational Biology

5 July 2017

published in

1 reference

5 July 2017

volume

1

1 reference

5 July 2017

issue

5

1 reference

5 July 2017

page(s)

e49

1 reference

A comprehensive update of the sequence and structure classification of kinases

5 July 2017

cites work

1 reference

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19 March 2017

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19 March 2017

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Genomic analysis of the eukaryotic protein kinase superfamily: a perspective

19 March 2017

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Structural classification of zinc fingers: survey and summary

19 March 2017

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19 March 2017

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Crystal structure of an activated Akt/protein kinase B ternary complex with GSK3-peptide and AMP-PNP

19 March 2017

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19 March 2017

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Crystal structure of the cytoplasmic domain of the type I TGF beta receptor in complex with FKBP12

19 March 2017

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Structural basis for activation of the titin kinase domain during myofibrillogenesis

19 March 2017

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19 March 2017

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The structural alignment between two proteins: is there a unique answer?

19 March 2017

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The relation between the divergence of sequence and structure in proteins

19 March 2017

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19 March 2017

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7 January 2021

Amino acid substitution matrices from protein blocks

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The crystal structure of choline kinase reveals a eukaryotic protein kinase fold

19 March 2017

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Keeping G proteins at bay: a complex between G protein-coupled receptor kinase 2 and Gbetagamma

19 March 2017

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Crystal structure of the catalytic domain of the PknB serine/threonine kinase from Mycobacterium tuberculosis

19 March 2017

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Crystal structure of aurora-2, an oncogenic serine/threonine kinase

19 March 2017

1 reference

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Crystal structure of the MuSK tyrosine kinase: insights into receptor autoregulation

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Structure of the epidermal growth factor receptor kinase domain alone and in complex with a 4-anilinoquinazoline inhibitor

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Structure of mitogen-activated protein kinase-activated protein (MAPKAP) kinase 2 suggests a bifunctional switch that couples kinase activation with nuclear export

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

High resolution crystal structure of the human PDK1 catalytic domain defines the regulatory phosphopeptide docking site

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

The structure of phosphorylated GSK-3beta complexed with a peptide, FRATtide, that inhibits beta-catenin phosphorylation

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Crystal structures of the catalytic domain of human protein kinase associated with apoptosis and tumor suppression

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Structural analyses of nucleotide binding to an aminoglycoside phosphotransferase

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Crystal structure of the atypical protein kinase domain of a TRP channel with phosphotransferase activity

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

The structure of Sky1p reveals a novel mechanism for constitutive activity

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Structure of PAK1 in an autoinhibited conformation reveals a multistage activation switch

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

The 1.7 A crystal structure of human cell cycle checkpoint kinase Chk1: implications for Chk1 regulation

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Crystal structures of c-Src reveal features of its autoinhibitory mechanism

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

The crystal structure of the Physarum polycephalum actin-fragmin kinase: an atypical protein kinase with a specialized substrate-binding domain

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Structure of type IIbeta phosphatidylinositol phosphate kinase: a protein kinase fold flattened for interfacial phosphorylation

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Crystal structure of JNK3: a kinase implicated in neuronal apoptosis

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

High-resolution crystal structures of human cyclin-dependent kinase 2 with and without ATP: bound waters and natural ligand as guides for inhibitor design

19 March 2017

1 reference

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Structural basis for the autoinhibition of calcium/calmodulin-dependent protein kinase I

19 March 2017

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Phosphotransferase and substrate binding mechanism of the cAMP-dependent protein kinase catalytic subunit from porcine heart as deduced from the 2.0 A structure of the complex with Mn2+ adenylyl imidodiphosphate and inhibitor peptide PKI(5-24)

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Crystal structure of casein kinase-1, a phosphate-directed protein kinase

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Two structures of the catalytic domain of phosphorylase kinase: an active protein kinase complexed with substrate analogue and product

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Crystal Structure of the Catalytic Subunit of Cyclic Adenosine Monophosphate-Dependent Protein Kinase

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

UCSF Chimera--a visualization system for exploratory research and analysis

19 March 2017

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MrBayes 3: Bayesian phylogenetic inference under mixed models

19 March 2017

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The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003

19 March 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

The phosphoinositide 3-kinase pathway

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

The conformational plasticity of protein kinases

19 March 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

MRBAYES: Bayesian inference of phylogenetic trees

19 March 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

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

19 March 2017

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TreeView: an application to display phylogenetic trees on personal computers

19 March 2017

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

19 March 2017

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

19 March 2017

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Vps34p required for yeast vacuolar protein sorting is a multiple specificity kinase that exhibits both protein kinase and phosphatidylinositol-specific PI 3-kinase activities.

19 March 2017

1 reference

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Protein kinases 6. The eukaryotic protein kinase superfamily: kinase (catalytic) domain structure and classification

19 March 2017

1 reference

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Evolution of protein kinase signaling from yeast to man

19 March 2017

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The ASTRAL compendium for protein structure and sequence analysis

19 March 2017

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Alpha-kinases: a new class of protein kinases with a novel catalytic domain

19 March 2017

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Structure of an enzyme required for aminoglycoside antibiotic resistance reveals homology to eukaryotic protein kinases

19 March 2017

1 reference

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Archaeal protein kinases and protein phosphatases: insights from genomics and biochemistry

19 March 2017

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Bayesian inference of character evolution

19 March 2017

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Bayesian phylogenetic analysis of combined data

6 April 2017

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Bayesian inference of phylogeny and its impact on evolutionary biology

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Construction of phylogenetic trees

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Regulation of protein kinases; controlling activity through activation segment conformation

7 April 2017

1 reference

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Automated analysis of interatomic contacts in 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=1261164

Crystal structure of the activated insulin receptor tyrosine kinase in complex with peptide substrate and ATP analog

7 April 2017

1 reference

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Active and inactive protein kinases: structural basis for regulation

7 April 2017

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The ConSurf-HSSP database: the mapping of evolutionary conservation among homologs onto PDB structures.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Chk1 in the DNA damage response: conserved roles from yeasts to mammals

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Structural modes of stabilization of permissive phosphorylation sites in protein kinases: distinct strategies in Ser/Thr and Tyr kinases

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Alpha-kinases: analysis of the family and comparison with conventional protein kinases

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Phosphoinositide 3-kinase: the protein kinase that time forgot

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Phosphatidylinositol Phosphate Kinases Put PI4,5P 2 in Its Place

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Plasticity of enzyme active sites

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Monophyly of class I aminoacyl tRNA synthetase, USPA, ETFP, photolyase, and PP-ATPase nucleotide-binding domains: implications for protein evolution in the RNA.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Protein kinases and protein phosphatases in prokaryotes: a genomic perspective.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Evolution of function in protein superfamilies, from a structural perspective.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

A database and tools for 3-D protein structure comparison and alignment using the Combinatorial Extension (CE) algorithm.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Molecular mechanisms that confer antibacterial drug resistance

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

SCOP: a structural classification of proteins database

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Benchmarking PSI-BLAST in genome annotation.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Conformational diversity of catalytic cores of protein kinases

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Phosphatidylinositol phosphate kinase: a link between protein kinase and glutathione synthase folds

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Eukaryotic signalling domain homologues in archaea and bacteria. Ancient ancestry and horizontal gene transfer

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Aminoglycoside antibiotic phosphotransferases are also serine protein kinases

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Novel families of putative protein kinases in bacteria and archaea: evolution of the "eukaryotic" protein kinase superfamily

12 September 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

12 September 2017

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.0010049

7 January 2021

JOY: protein sequence-structure representation and analysis.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

How far divergent evolution goes in proteins

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Crystal structure of the catalytic subunit of protein kinase CK2 from Zea mays at 2.1 A resolution.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

How do protein kinases recognize their substrates?

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

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

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Phosphatidylcholine breakdown and signal transduction

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Three protein kinase structures define a common motif

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Domain movements in protein kinases

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Comparison of the structures of globins and phycocyanins: evidence for evolutionary relationship

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Sequence and structure classification of kinases

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

The serine, threonine, and/or tyrosine-specific protein kinases and protein phosphatases of prokaryotic organisms: a family portrait

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Using structure to define the function of phosphoinositide 3‐kinase family members

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Optimum superimposition of protein structures: ambiguities and implications.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

In vivo phosphorylation of actin in Physarum polycephalum. Study of the substrate specificity of the actin-fragmin kinase

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

A transition probability model for amino acid substitutions from blocks

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Reliability of Bayesian Posterior Probabilities and Bootstrap Frequencies in Phylogenetics

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

A study on protein sequence alignment quality

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Structure comparison and structure patterns

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Large-scale comparison of protein sequence alignment algorithms with structure alignments

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

Structural insights into phosphoinositide 3-kinase catalysis and signalling

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1261164

An Assessment of Amino Acid Exchange Matrices in Aligning Protein Sequences: The Twilight Zone Revisited

29 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16244704

12 December 2020

inferred from PubMed ID database lookup

On the origin of Ser/Thr kinases in a prokaryote

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16244704

12 December 2020

inferred from PubMed ID database lookup

Structure of Type IIβ Phosphatidylinositol Phosphate Kinase

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.0010049

7 January 2021

An Empirical Test of Bootstrapping as a Method for Assessing Confidence in Phylogenetic Analysis

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.0010049

7 January 2021

The eukaryotic protein kinase superfamily: kinase (catalytic) domain structure and classification 1

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.0010049

7 January 2021

MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.0010049

7 January 2021

10.1371/JOURNAL.PCBI.0010049

Identifiers

DOI

1 reference

journals/ploscb/ScheeffB05

5 July 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

5 July 2017

1 reference