Abstract:
:Homo-oligomerization of proteins is abundant in nature, and is often intimately related with the physiological functions of proteins, such as in metabolism, signal transduction or immunity. Information on the homo-oligomer structure is therefore important to obtain a molecular-level understanding of protein functions and their regulation. Currently available web servers predict protein homo-oligomer structures either by template-based modeling using homo-oligomer templates selected from the protein structure database or by ab initio docking of monomer structures resolved by experiment or predicted by computation. The GalaxyHomomer server, freely accessible at http://galaxy.seoklab.org/homomer, carries out template-based modeling, ab initio docking or both depending on the availability of proper oligomer templates. It also incorporates recently developed model refinement methods that can consistently improve model quality. Moreover, the server provides additional options that can be chosen by the user depending on the availability of information on the monomer structure, oligomeric state and locations of unreliable/flexible loops or termini. The performance of the server was better than or comparable to that of other available methods when tested on benchmark sets and in a recent CASP performed in a blind fashion.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Baek M,Park T,Heo L,Park C,Seok Cdoi
10.1093/nar/gkx246subject
Has Abstractpub_date
2017-07-03 00:00:00pages
W320-W324issue
W1eissn
0305-1048issn
1362-4962pii
3111111journal_volume
45pub_type
杂志文章abstract::RNA G-quadruplexes (G4s) are secondary structures proposed to function as regulators of post-transcriptional mRNA localisation and translation. G4s within some neuronal mRNAs are known to control distal localisation and local translation, contributing to distinct local proteomes that facilitate the synaptic remodellin...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa699
更新日期:2020-09-25 00:00:00
abstract::Alterations in cancer genomes strongly influence clinical responses to treatment and in many instances are potent biomarkers for response to drugs. The Genomics of Drug Sensitivity in Cancer (GDSC) database (www.cancerRxgene.org) is the largest public resource for information on drug sensitivity in cancer cells and mo...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks1111
更新日期:2013-01-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.18.7237
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.16.3271
更新日期:1994-08-25 00:00:00
abstract::Two CTAG-recognizing restriction and modification (R/M) systems, designated MthZI and MthFI, were identified in the thermophilic archaeon Methanobacterium thermoformicicum strains Z-245 and FTF, respectively. Further analysis revealed that the methyltransferase (MTase) genes are plasmid-located in both strains. The pl...
journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:1992-10-11 00:00:00
abstract::Genome-wide association studies often incorporate information from public biological databases in order to provide a biological reference for interpreting the results. The dbSNP database is an extensive source of information on single nucleotide polymorphisms (SNPs) for many different organisms, including humans. We h...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq1054
更新日期:2011-01-01 00:00:00
abstract::The nucleotide sequence of 5.8S rRNA from the Chinese silkworm Philosamia cynthia ricini has been determined by gel sequencing and mobility shift methods. The complete primary structure is (sequence in text). This is one of the largest known 5.8S rRNAs. As compared to Bombyx 5.8S rRNA, it is two nucleotides longer; t...
journal_title:Nucleic acids research
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更新日期:1982-10-25 00:00:00
abstract::The detailed principles of the hierarchical folding of eukaryotic chromosomes have been revealed during the last two decades. Along with structures composing three-dimensional (3D) genome organization (chromatin compartments, topologically associating domains, chromatin loops, etc.), the molecular mechanisms that are ...
journal_title:Nucleic acids research
pub_type: 杂志文章,评审
doi:10.1093/nar/gkaa261
更新日期:2020-05-21 00:00:00
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journal_title:Nucleic acids research
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更新日期:1989-04-25 00:00:00
abstract::A short histone-like fusion RNA, generated when the RNA 3' processing signal from a mouse histone H4 gene is inserted into a heterologous transcription unit, becomes correctly down-regulated in G1-arrested cells of a temperature-sensitive mouse mastocytoma cell cycle mutant (21-Tb; Stauber et al., EMBO J. 5, 3297-3303...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/16.20.9399
更新日期:1988-10-25 00:00:00
abstract::A somatic cell hybrid line containing only human chromosome 21 on a mouse background has been used as the source of DNA for construction of a recombinant phage library. Individual phages containing human inserts have been identified. Repeat-free human DNA subclones have been prepared and used to screen for restriction...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/13.17.6075
更新日期:1985-09-11 00:00:00
abstract::To generate long arrays of nucleosomes within a topologically defined chromatin domain we have assembled minichromosomes on negatively supercoiled plasmid DNA with extracts from Drosophila preblastoderm embryos. These minichromosomes are dynamic substrates for energy-dependent nucleosome remodeling machines that facil...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/26.16.3657
更新日期:1998-08-15 00:00:00
abstract::Long Interspersed Element-1 (LINE-1) retrotransposition contributes to inter- and intra-individual genetic variation and occasionally can lead to human genetic disorders. Various strategies have been developed to identify human-specific LINE-1 (L1Hs) insertions from short-read whole genome sequencing (WGS) data; howev...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz1173
更新日期:2020-02-20 00:00:00
abstract::Point mutations in mitochondrial tRNA genes are responsible for individual subgroups of mitochondrial encephalomyopathies. We have recently reported that point mutations in the tRNA(Leu)(UUR) and tRNA(Lys) genes cause a defect in the normal modification at the first nucleotide of the anticodon. As part of a systematic...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.19.3779
更新日期:2000-10-01 00:00:00
abstract::Replacement of alpha-, beta- and gamma-phosphate groups in 2'-deoxynucleoside 5'-triphosphates (dNTP) with phosphonate groups yields a new set of dNTP mimics with potential biological and therapeutic applications. Here, we describe the synthesis of 15 new dNTPs modified at alpha-, beta- and gamma-phosphates containing...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/26.3.778
更新日期:1998-02-01 00:00:00
abstract::Using a powerful computer-assisted analysis strategy, a large-scale search of small nucleolar RNA (snoRNA) genes in the recently released draft sequence of the rice genome was carried out. This analysis identified 120 different box C/D snoRNA genes with a total of 346 gene variants, which were predicted to guide 135 2...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg373
更新日期:2003-05-15 00:00:00
abstract::Rad54 protein is a key member of the RAD52 epistasis group required for homologous recombination in eukaryotes. Rad54 is a duplex DNA translocase that remodels both DNA and protein-DNA complexes, and functions at multiple steps in the recombination process. Here we use biochemical criteria to demonstrate the existence...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp068
更新日期:2009-05-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2019-06-04 00:00:00
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journal_title:Nucleic acids research
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更新日期:1983-08-11 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.21.4249
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journal_title:Nucleic acids research
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更新日期:2018-05-18 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/17.13.5071
更新日期:1989-07-11 00:00:00
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更新日期:2010-05-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2013-09-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/15.10.4021
更新日期:1987-05-26 00:00:00
abstract::A newly discovered group of spherical plant viruses contains a bipartite genome consisting of a single-strand linear RNA molecule (RNA 1, Mr 1.5 x 10(6) ), and a single-strand, covalently closed circular viroid-like RNA molecule (RNA 2, Mr approximately 125,000). The nucleotide sequences of the RNA 2 of two of these, ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/10.12.3681
更新日期:1982-06-25 00:00:00