Structural insights into specificity and diversity in mechanisms of ubiquitin recognition by ubiquitin-binding domains.

Abstract:

:UBDs [Ub (ubiquitin)-binding domains], which are typically small protein motifs of <50 residues, are used by receptor proteins to transduce post-translational Ub modifications in a wide range of biological processes, including NF-κB (nuclear factor κB) signalling and proteasomal degradation pathways. More than 20 families of UBDs have now been characterized in structural detail and, although many recognize the canonical Ile44/Val70-binding patch on Ub, a smaller number have alternative Ub-recognition sites. The A20 Znf (A20-like zinc finger) of the ZNF216 protein is one of the latter and binds with high affinity to a polar site on Ub centred around Asp58/Gln62. ZNF216 shares some biological function with p62, with both linked to NF-κB signal activation and as shuttle proteins in proteasomal degradation pathways. The UBA domain (Ub-associated domain) of p62, although binding to Ub through the Ile44/Val70 patch, is unique in forming a stable dimer that negatively regulates Ub recognition. We show that the A20 Znf and UBA domain are able to form a ternary complex through independent interactions with a single Ub molecule, supporting functional models for Ub as a 'hub' for mediating multi-protein complex assembly and for enhancing signalling specificity.

journal_name

Biochem Soc Trans

authors

Searle MS,Garner TP,Strachan J,Long J,Adlington J,Cavey JR,Shaw B,Layfield R

doi

10.1042/BST20110729

subject

Has Abstract

pub_date

2012-04-01 00:00:00

pages

404-8

issue

2

eissn

0300-5127

issn

1470-8752

pii

BST20110729

journal_volume

40

pub_type

杂志文章,评审
  • Polyamine biosynthetic enzymes as drug targets in parasitic protozoa.

    abstract::Molecular, biochemical and genetic characterization of ornithine decarboxylase, S -adenosylmethionine decarboxylase and spermidine synthase establishes that these polyamine-biosynthetic enzymes are essential for growth and survival of the agents that cause African sleeping sickness, Chagas' disease, leishmaniasis and ...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/bst0310415

    authors: Heby O,Roberts SC,Ullman B

    更新日期:2003-04-01 00:00:00

  • Functional and behavioral consequences of Parkinson's disease-associated LRRK2-G2019S mutation.

    abstract::LRRK2 mutation is the most common inherited, autosomal dominant cause of Parkinson's disease (PD) and has also been observed in sporadic cases. Most mutations result in increased LRRK2 kinase activity. LRRK2 is highly expressed in brain regions that receive dense, convergent innervation by dopaminergic and glutamaterg...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20180468

    authors: Benson DL,Matikainen-Ankney BA,Hussein A,Huntley GW

    更新日期:2018-12-17 00:00:00

  • Pleiotropy of microRNA-192 in the kidney.

    abstract::Diverse aetiologies result in significant deviation from homoeostasis in the kidney, leading to CKD (chronic kidney disease). CKD progresses to end-stage renal disease principally as a result of renal fibrosis, although the molecular mechanisms underlying this fibrotic process are still poorly understood. miRNAs (micr...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20120085

    authors: Jenkins RH,Martin J,Phillips AO,Bowen T,Fraser DJ

    更新日期:2012-08-01 00:00:00

  • ERK5 and its role in tumour development.

    abstract::The MEK5 [MAPK (mitogen-activated protein kinase)/ERK (extracellular-signal-regulated kinase) kinase 5]/ERK5 pathway is the least well studied MAPK signalling module. It has been proposed to play a role in the pathology of cancer. In the present paper, we review the role of the MEK5/ERK5 pathway using the 'hallmarks o...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20110663

    authors: Lochhead PA,Gilley R,Cook SJ

    更新日期:2012-02-01 00:00:00

  • How cytidylyltransferase uses an amphipathic helix to sense membrane phospholipid composition.

    abstract::CT responds to properties of PC-depleted membranes: increased negative charge density, which concentrates the enzyme at the membrane surface, and lipid packing perturbations, which create holes in the membrane surface into which the hydrophobic side chains of the amphipathic helix of domain M can intercalate. The PC-d...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/bst0260539

    authors: Cornell RB

    更新日期:1998-08-01 00:00:00

  • BMP9 is a potential therapeutic agent for use in oral and maxillofacial bone tissue engineering.

    abstract::Oral and maxillofacial surgery is often challenging due to defective bone healing owing to the microbial environment of the oral cavity, the additional involvement of teeth and esthetic concerns. Insufficient bone volume as a consequence of aging and some oral and maxillofacial surgical procedures, such as tumor resec...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST20200376

    authors: Liu L,Chen Y,Song D,Huang D

    更新日期:2020-06-30 00:00:00

  • Comparison of protein repeat classifications based on structure and sequence families.

    abstract::Tandem repeats (TR) in proteins are common in nature and have several unique functions. They come in various forms that are frequently difficult to recognize from a sequence. A previously proposed structural classification has been recently implemented in the RepeatsDB database. This defines five main classes, mainly ...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20150079

    authors: Paladin L,Tosatto SC

    更新日期:2015-10-01 00:00:00

  • Mucins: the frontline defence of the lung.

    abstract::Mucus plays a vital role in protecting the lungs from environmental factors, but conversely, in muco-obstructive airway disease, mucus becomes pathologic. In its protective role, mucus entraps microbes and particles removing them from the lungs via the co-ordinated beating of motile cilia. This mechanism of lung defen...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20170402

    authors: Ridley C,Thornton DJ

    更新日期:2018-10-19 00:00:00

  • The furanosidic scaffold of d-ribose: a milestone for cell life.

    abstract::The recruitment of the furanosidic scaffold of ribose as the crucial step for nucleotides and then for nucleic acids synthesis is presented. Based on the view that the selection of molecules to be used for relevant metabolic purposes must favor structurally well-defined molecules, the inadequacy of ribose as a prefere...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20190749

    authors: Del-Corso A,Cappiello M,Moschini R,Balestri F,Mura U,Ipata PL

    更新日期:2019-12-20 00:00:00

  • The development of chromatography for the characterization of protein interactions: a personal perspective.

    abstract::This article reviews the progress of a personal endeavour to develop chromatography as a quantitative procedure for the determination of reaction stoichiometries and equilibrium constants governing protein interactions. As well as affording insight into an aspect of chromatography with which many protein chemists are ...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/bst0311010

    authors: Winzor DJ

    更新日期:2003-10-01 00:00:00

  • Innate link between NF-kappaB activity and ubiquitin-like modifiers.

    abstract::Among the several signalling pathways regulated by ubiquitin and ubiquitin-like proteins, the one activating NF-kappaB (nuclear factor kappaB) is certainly one of the best characterized. The regulation of the activity of this transcription factor by members of the ubiquitin family occurs at various levels, imposing ov...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST0360853

    authors: Lang V,Rodríguez MS

    更新日期:2008-10-01 00:00:00

  • Frequency modulated translocational oscillations of Nrf2, a transcription factor functioning like a wireless sensor.

    abstract::The discovery that nuclear factor erythroid 2-related factor 2 (Nrf2) undergoes translocational oscillations from cytoplasm to nucleus in human cells with frequency modulation linked to activation of a stress-stimulated cytoprotective response raises the prospect that the Nrf2 works mechanistically analogous to a wire...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST20150060

    authors: Xue M,Momiji H,Rabbani N,Bretschneider T,Rand DA,Thornalley PJ

    更新日期:2015-08-01 00:00:00

  • Role of PTEN/PI3K pathway in endothelial cells.

    abstract::PTEN (phosphatase and tensin homologue deleted on chromosome 10) is an important tumour-suppressor gene that encodes a 3-phosphatase. The major substrate of PTEN is PIP(3) (phosphatidylinositol 3,4,5-trisphosphate) generated by the action of PI3Ks (phosphoinositide 3-kinases). Hereditary mutation of PTEN causes tumour...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST0350172

    authors: Suzuki A,Hamada K,Sasaki T,Mak TW,Nakano T

    更新日期:2007-04-01 00:00:00

  • Reversibility of functional deficits in experimental models of Rett syndrome.

    abstract::Mutations in the X-linked MECP2 gene are the primary cause of the severe autism spectrum disorder RTT (Rett syndrome). Deletion of Mecp2 in mice recapitulates many of the overt neurological features seen in humans, and the delayed onset of symptoms is accompanied by deficits in neuronal morphology and synaptic physiol...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0380498

    authors: Cobb S,Guy J,Bird A

    更新日期:2010-04-01 00:00:00

  • The role of stem cells in vein graft remodelling.

    abstract::The vessel wall is a dynamic tissue that undergoes positive remodelling in response to altered mechanical stress. A typical example is vein graft remodelling, because veins do not develop arteriosclerosis until a vein segment is grafted on to arteries. In this process, it was observed that vascular endothelial and smo...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0350895

    authors: Xu Q

    更新日期:2007-11-01 00:00:00

  • Takeover of host ribosomes by divergent IRES elements.

    abstract::The ribosome is the macromolecular machinery in the host cell for which all viruses have to compete. Early in infection, the viral mRNAs have to compete with the host for both the ribosomes and for the limited pool of eukaryotic initiation factors that are needed to facilitate the recruitment of ribosomes to both vira...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20051479

    authors: Sarnow P,Cevallos RC,Jan E

    更新日期:2005-12-01 00:00:00

  • Sterol regulatory element-binding proteins: transcriptional activators of lipid synthesis.

    abstract::Sterol regulatory element-binding proteins (SREBPs) are a family of transcription factors that regulate lipid homoeostasis. Three SREBP isoforms control the expression of more than 30 genes required for the biosynthesis of cholesterol, fatty acids, triacylglycerols and phospholipids. The unique regulation and activati...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/bst0301091

    authors: Horton JD

    更新日期:2002-11-01 00:00:00

  • Understanding non-coding DNA regions in yeast.

    abstract::Non-coding transcripts play an important role in gene expression regulation in all species, including budding and fission yeast. Such regulatory transcripts include intergenic ncRNA (non-coding RNA), 5' and 3' UTRs, introns and antisense transcripts. In the present review, we discuss advantages and limitations of rece...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20130144

    authors: Schlackow M,Gullerova M

    更新日期:2013-12-01 00:00:00

  • Probing the druggability of protein-protein interactions: targeting the Notch1 receptor ankyrin domain using a fragment-based approach.

    abstract::In order to achieve greater selectivity in drug discovery, researchers in both academia and industry are targeting cell regulatory systems. This often involves targeting the protein-protein interactions of regulatory multiprotein assemblies. Protein-protein interfaces are widely recognized to be challenging targets as...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST0391327

    authors: Abdel-Rahman N,Martinez-Arias A,Blundell TL

    更新日期:2011-10-01 00:00:00

  • Apoptosis-like programmed cell death in the grey mould fungus Botrytis cinerea: genes and their role in pathogenicity.

    abstract::A considerable number of fungal homologues of human apoptotic genes have been identified in recent years. Nevertheless, we are far from being able to connect the different pieces and construct a primary structure of the fungal apoptotic regulatory network. To get a better picture of the available fungal components, we...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0391493

    authors: Shlezinger N,Doron A,Sharon A

    更新日期:2011-10-01 00:00:00

  • A new approach for the investigation of reperfusion-related brain injury.

    abstract::Effective stroke therapies require recanalization of occluded cerebral blood vessels; however, early reperfusion can cause BBB (blood-brain barrier) injury, leading to cerebral oedema and/or devastating brain haemorrhage. These complications of early reperfusion, which result from excess production of ROS (reactive ox...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST0341366

    authors: Maier CM,Hsieh L,Crandall T,Narasimhan P,Chan PH

    更新日期:2006-12-01 00:00:00

  • Endosomal cholesterol traffic: vesicular and non-vesicular mechanisms meet.

    abstract::The endoplasmic reticulum is traditionally perceived as the key compartment for regulating intracellular cholesterol metabolism. Increasing evidence suggests that the endocytic pathway provides an additional regulatory level governing intracellular cholesterol trafficking and homoeostasis. Sterols can enter, and appar...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0340392

    authors: Hölttä-Vuori M,Ikonen E

    更新日期:2006-06-01 00:00:00

  • Chain reactions: molecular mechanisms of RBR ubiquitin ligases.

    abstract::Ubiquitination is a fundamental post-translational modification that regulates almost all aspects of cellular signalling and is ultimately catalysed by the action of E3 ubiquitin ligases. The RING-between-RING (RBR) family of E3 ligases encompasses 14 distinct human enzymes that are defined by a unique domain organisa...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST20200237

    authors: Cotton TR,Lechtenberg BC

    更新日期:2020-08-28 00:00:00

  • The role of triacylglycerol as a reservoir of polyunsaturated fatty acids for the rapid production of chloroplastic lipids in certain microalgae.

    abstract::Many microalgae are known to accumulate triacylglycerols (TAGs), especially under nitrate starvation. Generally, these TAGs are predominantly constructed of saturated and monounsaturated fatty acids. In contrast, the TAGs of the red microalga Porphyridium cruentum are rich in arachidonic acid (AA, 20:4 omega6) and eic...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:

    authors: Cohen Z,Khozin-Goldberg I,Adlerstein D,Bigogno C

    更新日期:2000-12-01 00:00:00

  • Computational discovery and modeling of novel gene expression rules encoded in the mRNA.

    abstract::The transcript is populated with numerous overlapping codes that regulate all steps of gene expression. Deciphering these codes is very challenging due to the large number of variables involved, the non-modular nature of the codes, biases and limitations in current experimental approaches, our limited knowledge in gen...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST20191048

    authors: Bahiri-Elitzur S,Tuller T

    更新日期:2020-08-28 00:00:00

  • Molecular mechanism for inhibition of 3-hydroxy-3-methylglutaryl CoA (HMG-CoA) reductase by rosuvastatin.

    abstract::The statins are inhibitors of 3-hydroxy-3-methylglutaryl CoA (HMG-CoA) reductase (HMG-CoAR), and are utilized to decrease levels of atherogenic lipoproteins in patients with, or who are at high risk of, cardiovascular disease. This study describes the inhibition of a recombinant, catalytic fragment of human HMG-CoAR b...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/bst0310528

    authors: Holdgate GA,Ward WH,McTaggart F

    更新日期:2003-06-01 00:00:00

  • Transferrin-mediated iron acquisition by pathogenic Neisseria.

    abstract::The pathogenic Neisseria have a siderophore-independent iron-uptake system reliant on a direct interaction between the bacterial cell and transferrin. In the meningococcus this uptake system is dependent on two surface-exposed transferrin-binding proteins. This short account will review our current knowledge of the tr...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/bst0300705

    authors: Evans RW,Oakhill JS

    更新日期:2002-08-01 00:00:00

  • Structural dynamics of P-type ATPase ion pumps.

    abstract::P-type ATPases transport ions across biological membranes against concentration gradients and are essential for all cells. They use the energy from ATP hydrolysis to propel large intramolecular movements, which drive vectorial transport of ions. Tight coordination of the motions of the pump is required to couple the t...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20190124

    authors: Dyla M,Basse Hansen S,Nissen P,Kjaergaard M

    更新日期:2019-10-31 00:00:00

  • Synthetic biology meets tissue engineering.

    abstract::Classical tissue engineering is aimed mainly at producing anatomically and physiologically realistic replacements for normal human tissues. It is done either by encouraging cellular colonization of manufactured matrices or cellular recolonization of decellularized natural extracellular matrices from donor organs, or b...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20150289

    authors: Davies JA,Cachat E

    更新日期:2016-06-15 00:00:00

  • Current understanding of plant Polycomb group proteins and the repressive histone H3 Lysine 27 trimethylation.

    abstract::Polycomb group (PcG) proteins are highly conserved chromatin-modifying complexes that implement gene silencing in higher eukaryotes. Thousands of genes and multiple developmental processes are regulated by PcG proteins. As the first chromatin modifier been identified in model plant Arabidopsis thaliana, the methyltran...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST20200192

    authors: Jiao H,Xie Y,Li Z

    更新日期:2020-08-28 00:00:00