(Q42779807)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

title

The protein that binds to DNA base J in trypanosomatids has features of a thymidine hydroxylase (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

main subject

J Biosynthesis Protein 2

1 reference

GeneDB

5 February 2019

J Biosynthesis Protein 2

1 reference

GeneDB

6 February 2019

J Biosynthesis Protein 2

1 reference

6 February 2019

1 reference

6 February 2019

trypanosomatids

1 reference

8

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Robert Hausinger

10

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Daniel J. Rigden

12

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Paul-Andre Genest

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Evangelos Christodoulou

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Henri van Luenen

11

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

author name string

Zhong Yu

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Bas ter Riet

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Kate Sweeney

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Courtney DiPaolo

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Rudo Kieft

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Jana M Simmons

9

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Robert Sabatini

13

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

Piet Borst

14

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

language of work or name

English

0 references

publication date

27 March 2007

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

published in

Nucleic Acids Research

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

volume

35

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

issue

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

page(s)

2107-2115

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

Structural studies on 2-oxoglutarate oxygenases and related double-stranded beta-helix fold proteins

30 August 2019

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Crystal structures of catalytic complexes of the oxidative DNA/RNA repair enzyme AlkB

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

The genome of the kinetoplastid parasite, Leishmania major

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

The Genome of the African Trypanosome Trypanosoma brucei

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Genes of the thymidine salvage pathway: thymine-7-hydroxylase from a Rhodotorula glutinis cDNA library and iso-orotate decarboxylase from Neurospora crassa

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Formation of linear inverted repeat amplicons following targeting of an essential gene in Leishmania

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Regulation of trypanosome DNA glycosylation by a SWI2/SNF2-like protein

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Protein homology detection by HMM-HMM comparison

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

FeII/alpha-ketoglutarate-dependent hydroxylases and related enzymes

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

MUSCLE: multiple sequence alignment with high accuracy and high throughput

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

SCOP database in 2004: refinements integrate structure and sequence family data

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

SMART 4.0: towards genomic data integration

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

The Pfam protein families database

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

DNA repair by bacterial AlkB proteins.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Detection of reliable and unexpected protein fold predictions using 3D-Jury

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

3D-Jury: a simple approach to improve protein structure predictions

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Expression of the human DNA glycosylase hSMUG1 in Trypanosoma brucei causes DNA damage and interferes with J biosynthesis

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

AlkB-mediated oxidative demethylation reverses DNA damage in Escherichia coli

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Recognition of base J in duplex DNA by J-binding protein

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

FUGUE: sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

The DNA-repair protein AlkB, EGL-9, and leprecan define new families of 2-oxoglutarate- and iron-dependent dioxygenases

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

The COG database: new developments in phylogenetic classification of proteins from complete genomes

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Tandemly repeated DNA is a target for the partial replacement of thymine by beta-D-glucosyl-hydroxymethyluracil in Trypanosoma brucei

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Base J originally found in kinetoplastida is also a minor constituent of nuclear DNA of Euglena gracilis

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

The modified base J is the target for a novel DNA-binding protein in kinetoplastid protozoans

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Biosynthesis and function of the modified DNA base beta-D-glucosyl-hydroxymethyluracil in Trypanosoma brucei

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Changes in expression site control and DNA modification in Trypanosoma brucei during differentiation of the bloodstream form to the procyclic form

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

beta-D-glucosyl-hydroxymethyluracil, a novel base in African trypanosomes and other Kinetoplastida

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

beta-D-glucosyl-hydroxymethyluracil is a conserved DNA modification in kinetoplastid protozoans and is abundant in their telomeres

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Localization of the modified base J in telomeric VSG gene expression sites of Trypanosoma brucei

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

The telomeric GGGTTA repeats of Trypanosoma brucei contain the hypermodified base J in both strands

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

DNA-mediated transformation of bloodstream-form Trypanosoma brucei

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

beta-D-glucosyl-hydroxymethyluracil: a novel modified base present in the DNA of the parasitic protozoan T. brucei

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Hypermodified bases in DNA.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Continuous cultivation of Trypanosoma brucei blood stream forms in a medium containing a low concentration of serum protein without feeder cell layers

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

A novel antifolate resistance gene on the amplified H circle of Leishmania.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Cultivation and in vitro cloning or procyclic culture forms of Trypanosoma brucei in a semi-defined medium. Short communication

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Base J, found in nuclear DNA of Trypanosoma brucei, is not a target for DNA glycosylases

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

J-binding protein increases the level and retention of the unusual base J in trypanosome DNA.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

Site-specific interactions of JBP with base and sugar moieties in duplex J-DNA. Evidence for both major and minor groove contacts

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1874643

The modified DNA base beta-D-glucosylhydroxymethyluracil confers resistance to micrococcal nuclease and is incompletely recovered by 32P-postlabeling

16 August 2018

1 reference

12 December 2020

The modified DNA base beta-D-glucosyl-hydroxymethyluracil is not found in the tsetse fly stages of Trypanosoma brucei

1 reference

12 December 2020

Structure prediction meta server

1 reference

12 December 2020

A minor fraction of base J in kinetoplastid nuclear DNA is bound by the J-binding protein 1

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKM049

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17389644%20AND%20SRC:MED&resulttype=core&format=json

30 August 2019

PubMed publication ID

17389644

1 reference