Evidence map›Paper›PMID 21419780›Full record

ArticleJournal of molecular biology2011

Crystal structures of the S. cerevisiae Spt6 core and C-terminal tandem SH2 domain.

Devin Close, Sean J Johnson, Matthew A Sdano, Seth M McDonald, Howard Robinson, Tim Formosa, Christopher P Hill

Abstract read
In one paragraph

Article in Journal of molecular biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.

0numbers the graph read from it
0cells of the map it votes in
41citing papers in PubMed
2.4field-weighted citation impact, top 11% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

41 citing papers in PubMed, 64 citations in OpenAlex.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors at 3 institutions in 1 country.

Devin CloseDepartment of Biochemistry, University of Utah, Salt Lake City, UT 84112-5650, USA.
Sean J Johnson
Matthew A Sdano
Seth M McDonald
Howard Robinson
Tim Formosa
Christopher P Hill
University of Utah · USBrookhaven National Laboratory · USUtah State University · US

Funding

UTAH REGIONAL CANCER CENTERP30CA042014 · NCI · UTAH STATE HIGHER EDUCATION SYSTEM--UNIVERSITY OF UTAH · PI Jared P Rutter · 1986 to 2026
$72.6M
Case Center for Synchrotron BiosciencesP30EB009998 · NIBIB · CASE WESTERN RESERVE UNIVERSITY · PI CHANCE, MARK R · 2009 to 2018
$8.4M
Nucleosome Reorganizing/Remodeling ComplexesR01GM076242 · NIGMS · UNIVERSITY OF UTAH · PI HILL, CHRISTOPHER P. · 2006 to 2013
$2.2M
Structural Studies of Spt6F32GM074368 · NIGMS · UNIVERSITY OF UTAH · PI JOHNSON, SEAN J · 2005 to 2006
$63k
NCI NIH HHS P30 CA042014NIBIB NIH HHS P30 EB009998NIGMS NIH HHS F32 GM074368NIGMS NIH HHS GM074368NIGMS NIH HHS R01 GM076242
6 · The paper itself

Abstract

The conserved and essential eukaryotic protein Spt6 functions in transcription elongation, chromatin maintenance, and RNA processing. Spt6 has three characterized functions. It is a histone chaperone capable of reassembling nucleosomes, a central component of transcription elongation complexes, and is required for recruitment of RNA processing factors to elongating RNA polymerase II (RNAPII). Here, we report multiple crystal structures of the 168-kDa Spt6 protein from Saccharomyces cerevisiae that together represent essentially all of the ordered sequence. Our two structures of the ∼900-residue core region reveal a series of putative nucleic acid and protein-protein interaction domains that fold into an elongated form that resembles the bacterial protein Tex. The similarity to a bacterial transcription factor suggests that the core domain performs nucleosome-independent activities, and as with Tex, we find that Spt6 binds DNA. Unlike Tex, however, the Spt6 S1 domain does not contribute to this activity. Crystal structures of the Spt6 C-terminal region reveal a tandem SH2 domain structure composed of two closely associated SH2 folds. One of these SH2 folds is cryptic, while the other shares striking structural similarity with metazoan SH2 domains and possesses structural features associated with the ability to bind phosphorylated substrates including phosphotyrosine. Binding studies with phosphopeptides that mimic the RNAPII C-terminal domain revealed affinities typical of other RNAPII C-terminal domain-binding proteins but did not indicate a specific interaction. Overall, these findings provide a structural foundation for understanding how Spt6 encodes several distinct functions within a single polypeptide chain.

Indexed as

Amino Acid SequenceCarrier ProteinsDNA-Binding ProteinsHistone ChaperonesMolecular Sequence DataNuclear ProteinsPhosphoproteinsPhosphotyrosineProtein FoldingProtein Interaction Domains and MotifsProtein Structure, SecondaryProtein Structure, TertiarySaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsTranscriptional Elongation FactorsCarrier ProteinsDNA-Binding ProteinsHistone ChaperonesNuclear ProteinsPhosphoproteinsPhosphotyrosineRNA polymerase II-binding proteinsSaccharomyces cerevisiae ProteinsSPT6 protein, S cerevisiaeTranscriptional Elongation Factors

Identifiers

PMID21419780
PMCPMC3086336
OpenAlexW2126093266

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.