Systematic identification of novel protein domain families associated with nuclear functions (Q34108188)

31 July 2017

title

Systematic identification of novel protein domain families associated with nuclear functions (English)

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31 July 2017

4

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31 July 2017

5

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31 July 2017

1

Tobias Doerks

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31 July 2017

3

Jörg Schultz

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31 July 2017

Richard R Copley

2

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31 July 2017

publication date

1 January 2002

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31 July 2017

number of pages

10

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inferred from page(s)

published in

Genome Research

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31 July 2017

volume

12

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31 July 2017

issue

1

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31 July 2017

page(s)

47-56

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Nuclear factor 90 is a substrate and regulator of the eukaryotic initiation factor 2 kinase double-stranded RNA-activated protein kinase

31 July 2017

cites work

1 reference

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The UBX domain: a widespread ubiquitin-like module

5 July 2018

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Initial sequencing and analysis of the human genome

5 July 2018

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RUN domains: a new family of domains involved in Ras-like GTPase signaling

5 July 2018

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The BED finger, a novel DNA-binding domain in chromatin-boundary-element-binding proteins and transposases

5 July 2018

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Functional and genomic analyses reveal an essential coordination between the unfolded protein response and ER-associated degradation

5 July 2018

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PNG1, a yeast gene encoding a highly conserved peptide:N-glycanase

5 July 2018

1 reference

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Characterization of a novel gene, C21orf6, mapping to a critical region of chromosome 21q22.1 involved in the monosomy 21 phenotype and of its murine ortholog, orf5.

5 July 2018

1 reference

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Functional Cus1p is found with Hsh155p in a multiprotein splicing factor associated with U2 snRNA

5 July 2018

1 reference

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The Pfam protein families database.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

SMART: a web-based tool for the study of genetically mobile domains

5 July 2018

1 reference

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RING fingers mediate ubiquitin-conjugating enzyme (E2)-dependent ubiquitination

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

The Drosophila kismet gene is related to chromatin-remodeling factors and is required for both segmentation and segment identity.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Profile hidden Markov models

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Sequence comparisons using multiple sequences detect three times as many remote homologues as pairwise methods

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Wanted: subcellular localization of proteins based on sequence

5 July 2018

1 reference

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cpc-3, the Neurospora crassa homologue of yeast GCN2, encodes a polypeptide with juxtaposed eIF2alpha kinase and histidyl-tRNA synthetase-related domains required for general amino acid control

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

WHSC1, a 90 kb SET domain-containing gene, expressed in early development and homologous to a Drosophila dysmorphy gene maps in the Wolf-Hirschhorn syndrome critical region and is fused to IgH in t(4;14) multiple myeloma

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

SMART, a simple modular architecture research tool: identification of signaling domains

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Association of SET domain and myotubularin-related proteins modulates growth control

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Identification of a human homolog of the Drosophila neuralized gene within the 10q25.1 malignant astrocytoma deletion region

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

The Transmembrane Kinase Ire1p Is a Site-Specific Endonuclease That Initiates mRNA Splicing in the Unfolded Protein Response

5 July 2018

1 reference

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SEALS: a system for easy analysis of lots of sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Structure and expression pattern of human ALR, a novel gene with strong homology to ALL-1 involved in acute leukemia and to Drosophila trithorax

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

The UBA domain: a sequence motif present in multiple enzyme classes of the ubiquitination pathway

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Identification and analysis of the human and murine putative chromatin structure regulator SUPT6H and Supt6h

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Analysis of compositionally biased regions in sequence databases

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

The C-terminal domain of the largest subunit of RNA polymerase II interacts with a novel set of serine/arginine-rich proteins

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Oligomerization and phosphorylation of the Ire1p kinase during intracellular signaling from the endoplasmic reticulum to the nucleus

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Evidence that Spt6p controls chromatin structure by a direct interaction with histones

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Evidence that sequence-independent binding of highly conserved U2 snRNP proteins upstream of the branch site is required for assembly of spliceosomal complex A

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

PHD--an automatic mail server for protein secondary structure prediction

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

The PHD finger: implications for chromatin-mediated transcriptional regulation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Expression cloning of 2-5A-dependent RNAase: A uniquely regulated mediator of interferon action

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

The multiplicity of domains in proteins

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Domains in proteins: definitions, location, and structural principles

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Repetitive zinc-binding domains in the protein transcription factor IIIA from Xenopus oocytes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Predicting coiled coils from protein sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Genetic analysis of the ubiquitin system

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

A trithorax-like gene is interrupted by chromosome 11q23 translocations in acute leukaemias

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155265

Evidence of domain swapping within the jumonji family of transcription factors

5 July 2018

1 reference

12 December 2020

JmjC: cupin metalloenzyme-like domains in jumonji, hairless and phospholipase A2β

1 reference

12 December 2020

DDT – a novel domain in different transcription and chromosome remodeling factors

1 reference

12 December 2020

A hybrid protein kinase-RNase in an interferon-induced pathway?

1 reference

12 December 2020

Identifiers

DOI

10.1101/GR.203201

1 reference

31 July 2017

1 reference

31 July 2017

1 reference