DOCSLIB.ORG

Molecular Modeling of the Amino-Terminal Zinc Ring Domain of BRCA1

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Molecular Modeling of the Amino-Terminal Zinc Ring Domain of BRCA1 CANCER RESEARCH56. 2539-2545. June I, 19961 Molecular Modeling of the Amino-Terminal Zinc Ring Domain of BRCA1 Rachelle J. Bienstock,1 Tom Darden, Roger Wiseman, Lee Pedersen, and J. Carl Barrett National institute of Environmental Health Sciences, Laboratories of Quantitative and Computational Biology fR. J. B.. T. D., L P.] and Molecular Carcinogenesis IR. W.. J. C. B.J, Research Triangle Park. North Carolina 27709 ABSTRACT in Fig. 1. Although a common functionality for the zinc ring domain has not been identified, it appears to interact with DNA either through The equine herpes virus zinc ring domain nuclear magnetic resonance direct binding or indirectly by mediating protein-protein interactions. structure was used for homology-based modeling of the amino-terminal The zinc ring domain of several proteins has been shown to exhibit zinc ring domain of the BRCA1 breast and ovarian cancer susceptibility gene. The zinc ring domain of BRCAJ is of particular interest because it DNA-binding activity (10) or nuclear localization (11—13). is the location of significant and frequently occurring missense (Cys6tGly, The BRCA1 zinc ring domain and its structure and function are of Cys―Gly,andCys―Tyr)andframeshift (lSSdelAG) mutations observed particular interest, because it is the location of some of the most In several high-risk kindreds. The BRCA1 zinc ring domain possesses frequently occurring mutations linked to breast and ovarian cancer. 54% sequence similarity with the equine herpes virus zinc ring domain. The l85delAG mutation (deletion oftwo nucleotide base pairs in exon The model structure undergoes little conformational variance after 140 ps 2) in the zinc ring domain has been shown to occur in 1 in 100 of solvated molecular dynamics. This model proposes BRCA1 zinc ring Ashkenazi Jewish individuals (14, 15). This is in comparison with the domain residues that may play a role in DNA binding and/or protein estimated I in 833 frequency of all BRCAI mutations in the general protein interactions. These predictions provide a point of departure for population (14, 15). In this article, a three-dimensional model for the the design of mutants to probe BRCA1 zinc ring domain functionality. zinc ring domain of BRCA1 is presented. This model proposes po tential BRCAI zinc ring domain residues that may play a role in the INTRODUCTION function of this domain, either binding directly to DNA or mediating DNA binding through protein-protein interactions. BRCAJ, the breast and ovarian cancer susceptibility gene on human chromosome l7q21, was recently identified (1, 2). Mutations in this gene account for approximately 95% of families with increased mci MATERIALS AND METHODS dence of early onset breast and ovarian cancer and 45% of families with increased incidence of breast cancer alone (3, 4). BRCAJ is Sequence Alignment. The three-dimensional structures of two zinc ring believed to encode a tumor suppressor protein, because most muta domains, the EHV2and the acute PML proto-oncoprotein, have recently been tions appear to result in loss of function. This gene is expressed in determined by multidimensional NMR (8, 9, 1 1). The sequence alignment several tissues, including breast and ovary, and encodes a I863-amino between the PML and EHV zinc ring domains is shown in Fig. 2 along with the secondary structural elements identified for each protein from the solved acid protein. NMR structures. Several criteria were used to select the EHV ring domain The amino-terminal domain of BRCA1 possesses high sequence structure rather than the PML structure as the basis for the BRCA1 model. The homology with a zinc finger topology (1). This zinc finger topology, BRCAI zinc ring domain, for example, possesses greater sequence similarity C3HC4,isreferredtoasthe“zinc-ringdomain,―“RINGfinger,―or to EHV than to PML. Using a sequence alignment of Smith and Waterman (16) A-Box (5) and is found in several viral proteins, proto-oncoproteins, with standard default parameters, the BRCA I zinc ring domain possesses 54% and regulatory and transcription factors (6). These include develop sequence similarity and 38% sequence identity with the EHV zinc ring domain, mental regulatory proteins [XNF-7, SINA, PSC, SU(z)2, and DG17}, compared with 42.8% sequence similarity and 30.6% sequence identity to the cell regulatory proteins (lAP and DROC3H), signal transduction PMLdomain.Fig. 2 shows the sequencealignmentbetween the BRCA1 and proteins (CRAF1), human oncoproteins (MDM2, MEL18, BMI-l, EHV and PML ring domains,respectively. RET, T18, CBL, and PML), proteins that regulate gene expression A BLASTP (Basic Local Alignment Search Tool for Proteins; Ref. 17) search of the Brookhaven Data Bank selected and aligned the EHV with the (RPT-l, PAS4, TLR, and HIP116), viral proteins, including some BRCA1 zinc ring domain, and yielded a P of 9.6 X l0@ (chance likelihood viral gene expression proteins, (lEl 10, VZ61, CG3O, PE-38, EPO, of the two sequences relationship). Folding search programs, such as Pro EHV, LCMV, and P11), and proteins involved in DNA repair or files-3D by Luthy et a!. (18), also indicated that the EHV and BRCA1 zinc ring recombination (RAD5, RADI 8, RAD16, RAG- 1, and UVS2). protein domains have similar folds. Hydrophilicity plots of Kyte and Doolittle The zinc ring family, first identified in 1991 (7), was found to (19), surface probability [calculated according to the method of Emini et a!. possess two finger-like domains connected by a linking region and to (20)], chain flexibility predictions (Karplus-Schulz), secondary structure pre require zinc for folding. The zinc ring C3HC4 sequence folds inde dictions of turns and a helices by Chou and Fasman (21), turns prediction by pendently and is a distinct stable domain (8, 9). This domain differs Gamier et al. (22), and the antigenicity index of Jameson and Wolf (23) all structurally from other zinc finger domains in that the first and third support greater similarity of the EHV ring domain structure to BRCAI than to pairs of cysteines form one zinc-binding site, and the second and PML(datanot shown). A multiple-sequencealignmentof the threesequences (the Pileup algorithm from the package below; Refs. 24 and 25) yields pairwise fourth pairs of cysteines form the second metal-binding site. This similarity scores ofO.44 for BRCA1 and EHV, 0.37 for BRCAI and PML, and crossed pattern is similar in configuration to a 1—3, 2—4 disulfide 0.42 for EHV and PML. Therefore, EHV was used as the basis for developing bond pattern. A schematic of the BRCA1 amino-terminal zinc ring a model for the BRCA1 zinc ring domain. domain with cysteine and histidines ligated to zinc indicated is shown Several multiple sequence alignments have been published previously, aligning the BRCAI zinc ring domain sequence to the sequences of other Received I2/28/95; accepted 4/3/96. known ring domains. The alignment by Borden et a!. (11) also shows greater The costs of publication of this article were defrayed in part by the payment of page sequence similarity between BRCA1 and EHV than between BRCA1 and charges. This article must therefore be hereby marked advertisement in accordance with 18 U.S.C. Section 1734 solely to indicate this fact. I To whom requests for reprints should be addressed, at National Institute of Envi 2 The abbreviations used are: EHV, equine herpes virus; PML, promyelocytic leuke ronmental Health Sciences, P.O. Box 12233, Mail Drop 10-03, Research Triangle Park, mia; NMR, nuclear magnetic resonance; CVFF, consistent valence force field; kcal, NC 27709. Phone: (919) 541-3397; Fax: (919) 541-1578; E-mail: rachelle@ kilocalorie; RMS, root-mean-square; HSV, herpes simplex virus; CRD, cysteine rich picard.niehs.nih.gov. domain of protein kinate C; WT1,Wilms' tumor gene; TFIIIA, transcription factor III A. 2539 Downloaded from cancerres.aacrjournals.org on September 30, 2021. © 1996 American Association for Cancer Research. MOLECULAR MODELING OF BRCAI AMINO-TERMINALZINC RING DOMAIN The two zinc ions were entered into the structure by superposition with the herpes virus structure, which gave a general positioning for the zinc ions in the protein. The resulting structure was energy minimized in vacuo using a distance-dependent dielectric constant, as described by Guenot and Kollman (28). The ligand-zinc ion distances were constrained in the minimization to the distances found between the corresponding ligands and zinc in the herpes virus protein. The zinc-cysteine sulfur atoms were pulled together using 500 cycles of conjugate gradients with a force of 100 kcal/mol, followed by minimization with 500 cycles of steepest descents and 1000 cycles of conjugate gradients until the maximum derivative was less than 0.1 kcal/A. All constraints were R then removed, and the structure was reminimized with 1000 cycles of conju F SQ L gate gradients until the maximum derivative was less than 0. 1 kcal/A. Charges were assigned to the zinc ions and cysteine ligands Sy and histidine Nbl . Because of the ionic and covalent nature of the zinc ligand interactions, the zinc ion charges are reduced and assigned values of + I.5 in the four cysteine-ligand environment and + 1.9 in the three-cysteine- and one-histidine ligand environment. All cysteine Sys have negative partial charges, because a hydrogen is abstracted on binding with zinc. The histidine N81 also has a negative partial charge on binding with zinc. In this model, the cysteine Sys in L the four-ligand case were assigned partial charges of —0.275,andcharges of I —0.450wereassigned in the three-ligand case. The histidine N bound to the MQK zinc was assigned a partial charge of —0.670. Distances were constrained in a several-step minimization (in vacuo) until Fig. 1. Schematic of the BRCA1 zinc ring domain with cysteine and histidines ligated the ligand-zinc distance criteria were met.
Load more

Recommended publications
  • Role of CCCH-Type Zinc Finger Proteins in Human Adenovirus Infections
    viruses Review Role of CCCH-Type Zinc Finger Proteins in Human Adenovirus Infections Zamaneh Hajikhezri 1, Mahmoud Darweesh 1,2, Göran Akusjärvi 1 and Tanel Punga 1,* 1 Department of Medical Biochemistry and Microbiology, Uppsala University, 75123 Uppsala, Sweden; [email protected] (Z.H.); [email protected] (M.D.); [email protected] (G.A.) 2 Department of Microbiology and Immunology, Al-Azhr University, Assiut 11651, Egypt * Correspondence: [email protected]; Tel.: +46-733-203-095 Received: 28 October 2020; Accepted: 16 November 2020; Published: 18 November 2020 Abstract: The zinc finger proteins make up a significant part of the proteome and perform a huge variety of functions in the cell. The CCCH-type zinc finger proteins have gained attention due to their unusual ability to interact with RNA and thereby control different steps of RNA metabolism. Since virus infections interfere with RNA metabolism, dynamic changes in the CCCH-type zinc finger proteins and virus replication are expected to happen. In the present review, we will discuss how three CCCH-type zinc finger proteins, ZC3H11A, MKRN1, and U2AF1, interfere with human adenovirus replication. We will summarize the functions of these three cellular proteins and focus on their potential pro- or anti-viral activities during a lytic human adenovirus infection. Keywords: human adenovirus; zinc finger protein; CCCH-type; ZC3H11A; MKRN1; U2AF1 1. Zinc Finger Proteins Zinc finger proteins are a big family of proteins with characteristic zinc finger (ZnF) domains present in the protein sequence. The ZnF domains consists of various ZnF motifs, which are short 30–100 amino acid sequences, coordinating zinc ions (Zn2+).
    [Show full text]
  • XIAP's Profile in Human Cancer
    biomolecules Review XIAP’s Profile in Human Cancer Huailu Tu and Max Costa * Department of Environmental Medicine, Grossman School of Medicine, New York University, New York, NY 10010, USA; [email protected] * Correspondence: [email protected] Received: 16 September 2020; Accepted: 25 October 2020; Published: 29 October 2020 Abstract: XIAP, the X-linked inhibitor of apoptosis protein, regulates cell death signaling pathways through binding and inhibiting caspases. Mounting experimental research associated with XIAP has shown it to be a master regulator of cell death not only in apoptosis, but also in autophagy and necroptosis. As a vital decider on cell survival, XIAP is involved in the regulation of cancer initiation, promotion and progression. XIAP up-regulation occurs in many human diseases, resulting in a series of undesired effects such as raising the cellular tolerance to genetic lesions, inflammation and cytotoxicity. Hence, anti-tumor drugs targeting XIAP have become an important focus for cancer therapy research. RNA–XIAP interaction is a focus, which has enriched the general profile of XIAP regulation in human cancer. In this review, the basic functions of XIAP, its regulatory role in cancer, anti-XIAP drugs and recent findings about RNA–XIAP interactions are discussed. Keywords: XIAP; apoptosis; cancer; therapeutics; non-coding RNA 1. Introduction X-linked inhibitor of apoptosis protein (XIAP), also known as inhibitor of apoptosis protein 3 (IAP3), baculoviral IAP repeat-containing protein 4 (BIRC4), and human IAPs like protein (hILP), belongs to IAP family which was discovered in insect baculovirus [1]. Eight different IAPs have been isolated from human tissues: NAIP (BIRC1), BIRC2 (cIAP1), BIRC3 (cIAP2), XIAP (BIRC4), BIRC5 (survivin), BIRC6 (apollon), BIRC7 (livin) and BIRC8 [2].
    [Show full text]
  • TRAF5, a Novel Tumor Necrosis Factor Receptor-Associated Factor Family
    Proc. Natl. Acad. Sci. USA Vol. 93, pp. 9437-9442, September 1996 Biochemistry TRAF5, a novel tumor necrosis factor receptor-associated factor family protein, mediates CD40 signaling (signal transduction/protein-protein interaction/yeast two-hybrid system) TAKAoMI ISHIDA*, TADASHI ToJo*, TSUTOMU AOKI*, NORIHIKO KOBAYASHI*, TSUKASA OHISHI*, TOSHIKI WATANABEt, TADASHI YAMAMOTO*, AND JUN-ICHIRO INOUE*t Departments of *Oncology and tPathology, The Institute of Medical Science, The University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108, Japan Communicated by David Baltimore, Massachusetts Institute of Technology, Cambridge, MA, May 22, 1996 (received for review March 8, 1996) ABSTRACT Signals emanating from CD40 play crucial called a death domain, suggesting that these receptors could roles in B-cell function. To identify molecules that transduce have either common or similar signaling mechanisms (13). CD40 signalings, we have used the yeast two-hybrid system to Biochemical purification of receptor-associated proteins or the clone cDNAs encoding proteins that bind the cytoplasmic tail recently developed cDNA cloning system that uses yeast of CD40. A cDNA encoding a putative signal transducer genetic selection led to the discovery of two groups of signal protein, designated TRAF5, has been molecularly cloned. transducer molecules. Members of the first group are proteins TRAF5 has a tumor necrosis factor receptor-associated factor with a TRAF domain for TNFR2 and CD40 such as TRAF1, (TRAF) domain in its carboxyl terminus and is most homol- TRAF2 (17), and TRAF3, also known as CD40bp, LAP-1, or ogous to TRAF3, also known as CRAF1, CD40bp, or LAP-1, CRAF1 or CD40 receptor-associated factor (18-20).
    [Show full text]
  • RING-Type E3 Ligases: Master Manipulators of E2 Ubiquitin-Conjugating Enzymes and Ubiquitination☆
    Biochimica et Biophysica Acta 1843 (2014) 47–60 Contents lists available at ScienceDirect Biochimica et Biophysica Acta journal homepage: www.elsevier.com/locate/bbamcr Review RING-type E3 ligases: Master manipulators of E2 ubiquitin-conjugating enzymes and ubiquitination☆ Meredith B. Metzger a,1, Jonathan N. Pruneda b,1, Rachel E. Klevit b,⁎, Allan M. Weissman a,⁎⁎ a Laboratory of Protein Dynamics and Signaling, Center for Cancer Research, National Cancer Institute, 1050 Boyles Street, Frederick, MD 21702, USA b Department of Biochemistry, Box 357350, University of Washington, Seattle, WA 98195, USA article info abstract Article history: RING finger domain and RING finger-like ubiquitin ligases (E3s), such as U-box proteins, constitute the vast Received 5 March 2013 majority of known E3s. RING-type E3s function together with ubiquitin-conjugating enzymes (E2s) to medi- Received in revised form 23 May 2013 ate ubiquitination and are implicated in numerous cellular processes. In part because of their importance in Accepted 29 May 2013 human physiology and disease, these proteins and their cellular functions represent an intense area of study. Available online 6 June 2013 Here we review recent advances in RING-type E3 recognition of substrates, their cellular regulation, and their varied architecture. Additionally, recent structural insights into RING-type E3 function, with a focus on im- Keywords: RING finger portant interactions with E2s and ubiquitin, are reviewed. This article is part of a Special Issue entitled: U-box Ubiquitin–Proteasome System. Guest Editors: Thomas Sommer and Dieter H. Wolf. Ubiquitin ligase (E3) Published by Elsevier B.V. Ubiquitin-conjugating enzyme (E2) Protein degradation Catalysis 1.
    [Show full text]
  • The Role of ND10 Nuclear Bodies in Herpesvirus Infection: a Frenemy for the Virus?
    viruses Review The Role of ND10 Nuclear Bodies in Herpesvirus Infection: A Frenemy for the Virus? Behdokht Jan Fada, Eleazar Reward and Haidong Gu * Department of Biological Sciences, Wayne State University, Detroit, MI 48202, USA; [email protected] (B.J.F.); [email protected] (E.R.) * Correspondence: [email protected]; Tel.: +1-313-577-6402 Abstract: Nuclear domains 10 (ND10), a.k.a. promyelocytic leukemia nuclear bodies (PML-NBs), are membraneless subnuclear domains that are highly dynamic in their protein composition in response to cellular cues. They are known to be involved in many key cellular processes including DNA damage response, transcription regulation, apoptosis, oncogenesis, and antiviral defenses. The diversity and dynamics of ND10 residents enable them to play seemingly opposite roles under different physiological conditions. Although the molecular mechanisms are not completely clear, the pro- and anti-cancer effects of ND10 have been well established in tumorigenesis. However, in herpesvirus research, until the recently emerged evidence of pro-viral contributions, ND10 nuclear bodies have been generally recognized as part of the intrinsic antiviral defenses that converge to the incoming viral DNA to inhibit the viral gene expression. In this review, we evaluate the newly discov- ered pro-infection influences of ND10 in various human herpesviruses and analyze their molecular foundation along with the traditional antiviral functions of ND10. We hope to shed light on the explicit role of ND10 in both the lytic and latent cycles of herpesvirus infection, which is imperative to the delineation of herpes pathogenesis and the development of prophylactic/therapeutic treatments for herpetic diseases.
    [Show full text]
  • The RING Finger Domain of Varicella-Zoster Virus Orf61p Has
    JOURNAL OF VIROLOGY, July 2010, p. 6861–6865 Vol. 84, No. 13 0022-538X/10/$12.00 doi:10.1128/JVI.00335-10 Copyright © 2010, American Society for Microbiology. All Rights Reserved. NOTES The RING Finger Domain of Varicella-Zoster Virus ORF61p Has E3 Ubiquitin Ligase Activity That Is Essential for Efficient Autoubiquitination and Dispersion of Sp100-Containing Nuclear Bodiesᰔ Matthew S. Walters,† Christos A. Kyratsous,† and Saul J. Silverstein* Department of Microbiology and Immunology, College of Physicians and Surgeons, Columbia University, 701 W. 168th St., New York, New York 10032 Received 12 February 2010/Accepted 6 April 2010 Varicella zoster virus encodes an immediate-early (IE) protein termed ORF61p that is orthologous to the Downloaded from herpes simplex virus IE protein ICP0. Although these proteins share several functional properties, ORF61p does not fully substitute for ICP0. The greatest region of similarity between these proteins is a RING finger domain. We demonstrate that disruption of the ORF61p RING finger domain by amino acid substitution (Cys19Gly) alters ORF61p intranuclear distribution and abolishes ORF61p-mediated dispersion of Sp100- containing nuclear bodies. In addition, we demonstrate that an intact ORF61p RING finger domain is necessary for E3 ubiquitin ligase activity and is required for autoubiquitination and regulation of protein jvi.asm.org stability. Varicella-zoster virus (VZV) and herpes simplex virus type in other ORF61p activities. Therefore, this study was designed at COLUMBIA UNIVERSITY on June 8, 2010 1 (HSV-1) are distantly related alphaherpesviruses. VZV en- to further characterize the ORF61p RING finger domain. codes an immediate-early (IE) protein termed ORF61p that is To extend our understanding of the ORF61p RING finger an ortholog of ICP0, an HSV-1 IE protein (14, 18).
    [Show full text]
  • Intra Molecular Interactions in the Regulation of P53 Pathway
    Review Article Intra molecular interactions in the regulation of p53 pathway Jiandong Chen Molecular Oncology Department, H. Lee Moffitt Cancer Center, Tampa, FL, USA Correspondence to: Jiandong Chen, PhD. H. Lee Moffitt Cancer Center, MRC3057A, 12902 Magnolia Drive, Tampa, FL 33612, USA. Email: [email protected]. Abstract: The p53 tumor suppressor is highly regulated at the level of protein degradation and transcriptional activity. The key players of the pathway, p53, MDM2, and MDMX are present at multiple conformational states that are responsive to regulation by post-translational modifications and protein- protein interactions. The structures of major functional domains of these proteins have been determined, but the mechanisms of several intrinsically disordered regions remain unclear despite their critical roles in signaling and regulation. Recent studies suggest that these disordered regions function in part by dynamic intra molecular interactions with the structured domains to regulate p53 DNA binding, MDM2 ubiquitin E3 ligase activity, and MDMX-p53 binding. These findings provide new insight on how p53 is controlled by various stress signals, and suggest potential targets for the search of allosteric regulators of the p53 pathway. Keywords: p53; MDM2; MDMX; intra molecular; allosteric Submitted May 05, 2016. Accepted for publication Jun 21, 2016. doi: 10.21037/tcr.2016.09.23 View this article at: http://dx.doi.org/10.21037/tcr.2016.09.23 P53 response to stress signaling MDMX may form negative feedback loops in regulating p53. Both proteins have significant sequence homology An important feature of the p53 tumor suppressor is its in their p53 binding domain, zinc finger, and RING accumulation and activation after cellular exposure to domain.
    [Show full text]
  • BRCA1 Proteins Are Transported to the Nucleus in the Absence of Serum
    Oncogene (1997) 15, 143 ± 157 1997 Stockton Press All rights reserved 0950 ± 9232/97 $12.00 BRCA1 proteins are transported to the nucleus in the absence of serum and splice variants BRCA1a, BRCA1b are tyrosine phosphoproteins that associate with E2F, cyclins and cyclin dependent kinases Huichen Wang1,3, Ningsheng Shao1,3, Qing Ming Ding1,3, Jian-qi Cui1, E Shyam P Reddy1 and Veena N Rao1,2 1Division of Cancer Genetics, Department of Human Genetics, Allegheny University of the Health Sciences, M.S. 481, New College Building, Broad and Vine Streets, Philadelphia, Pennsylvania 19102, USA BRCA1, a familial breast and ovarian cancer suscept- binding of the disrupted BRCA1 proteins to E2F, ibility gene encodes nuclear phosphoproteins that func- cyclins/CDKs in patients with mutations in the zinc tion as tumor suppressors in human breast cancer cells. ®nger domain could deprive the cell of an important Previously, we have shown that overexpression of a mechanism for braking cell proliferation leading to the BRCA1 splice variant BRCA1a accelerates apoptosis in development of breast and ovarian cancers. human breast cancer cells. In an attempt to determine whether the subcellular localization of BRCA1 is cell Keywords: BRCA1a; BRCA1b; zinc ®nger; cyclins; cycle regulated, we have studied the subcellular distribu- CDKs; E2F tion of BRCA1 in asynchronous and growth arrested normal, breast and ovarian cancer cells using dierent BRCA1 antibodies by immuno¯uorescence and immuno- histochemical staining. Upon serum starvation of Introduction NIH3T3, some breast and ovarian cancer cells, most of the BRCA1 protein redistributed to the nucleus revealing Mutations in the breast and ovarian cancer suscept- a new type of regulation that may modulate the activity ibility gene BRCA1, accounts for half of the inherited of BRCA1 gene.
    [Show full text]
  • Ubiquitin-Protein Ligase Activity of X-Linked Inhibitor Of
    Ubiquitin-protein ligase activity of X-linked inhibitor of apoptosis protein promotes proteasomal degradation of caspase-3 and enhances its anti-apoptotic effect in Fas-induced cell death Yasuyuki Suzuki, Yui Nakabayashi, and Ryosuke Takahashi* Laboratory for Motor System Neurodegeneration, RIKEN Brain Science Institute, Wako City, Saitama 351-0198, Japan Edited by Suzanne Cory, The Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia, and approved May 24, 2001 (received for review October 24, 2000) The inhibitor of apoptosis (IAP) family of anti-apoptotic proteins RING finger domain specifically inhibits caspase-9 (11). A regulate programmed cell death and/or apoptosis. One such pro- recent report indicates that only the BIR3 domain of XIAP is tein, X-linked IAP (XIAP), inhibits the activity of the cell death required to inhibit caspase-9 and that the RING finger domain proteases, caspase-3, -7, and -9. In this study, using constitutively is unnecessary for potent caspase-9 inhibition (12). Collectively, active mutants of caspase-3, we found that XIAP promotes the these results suggest that the BIR domains of IAP are essential degradation of active-form caspase-3, but not procaspase-3, in in inhibiting caspases. living cells. The XIAP mutants, which cannot interact with Recent results implicate the RING finger domain in specific caspase-3, had little or no activity of promoting the degradation of ubiquitination events (13–15). Protein ubiquitination begins with caspase-3. RING finger mutants of XIAP also could not promote the the formation of a thiol-ester linkage between the COOH degradation of caspase-3. A proteasome inhibitor suppressed the terminus of ubiquitin and the active site cysteine of the ubiquitin- degradation of caspase-3 by XIAP, suggesting the involvement of activating enzyme (E1).
    [Show full text]
  • Molecular Characteristics and Functional Study of Tumor Necrosis Factor Receptor-Associated Factor 2 from the Orange-Spotted Grouper (Epinephelus T Coioides)
    Fish and Shellfish Immunology 84 (2019) 726–732 Contents lists available at ScienceDirect Fish and Shellfish Immunology journal homepage: www.elsevier.com/locate/fsi Full length article Molecular characteristics and functional study of tumor necrosis factor receptor-associated factor 2 from the orange-spotted grouper (Epinephelus T coioides) ∗ ∗∗ Man Yanga, Rui Hana, Lu-Yun Nia, Xiao-Chun Luob, An-Xing Lic, Xue-Ming Dana, , Yan-Wei Lia, a Joint Laboratory of Guangdong Province and Hong Kong Regions on Marine Bioresource Conservation and Exploitation, College of Marine Sciences, South China, Agricultural University, Guangzhou, 510642, China b School of Bioscience and Bioengineering, South China University of Technology, Guangzhou, 510006, China c State Key Laboratory of Biocontrol/Guangdong Provincial Key Lab for Aquatic Economic Animals, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, Guangdong Province, PR China ARTICLE INFO ABSTRACT Keywords: In mammals, tumor necrosis factor receptor-associated factor 2 (TRAF2) is a crucial intracellular adaptor pro- TRAF2 tein, which performs a vital role in numerous signaling pathways that activate NF-κB, MAPKs, and IRFs. In the Epinephelus coioides present study, three TRAF2 sequences were identified from the orange-spotted grouper (Epinephelus coioides), κ NF- B and named EcTRAF2-1, EcTRAF2-2, and EcTRAF2-3. These sequences contained conserved structure features Cryptocaryon irritans that were similar to those of mammals. EcTRAF2-1 shared relatively low sequence identity with the other two EcTRAF2s. In healthy E. coioides, EcTRAF2s were widely expressed in all tissues tested, but with distinct ex- pression profiles. After infection with Cryptocaryon irritans, EcTRAF2s was markedly upregulated in the gill and head kidney at most time points, implying that EcTRAF2s may be involved in host defense against C.
    [Show full text]
  • Structural Analyses of Zinc Finger Domains for Specific Interactions with DNA Ki Seong Eom1, Jin Sung Cheong2,3, and Seung Jae Lee3*
    J. Microbiol. Biotechnol. (2016), 26(12), 2019–2029 http://dx.doi.org/10.4014/jmb.1609.09021 Research Article Review jmb Structural Analyses of Zinc Finger Domains for Specific Interactions with DNA Ki Seong Eom1, Jin Sung Cheong2,3, and Seung Jae Lee3* 1Department of Neurosurgery, School of Medicine and Hospital, Wonkwang University, Iksan 54538, Republic of Korea 2Department of Neurology, School of Medicine and Hospital, Wonkwang University, Iksan 54538, Republic of Korea 3Department of Chemistry and Research Institute of Physic and Chemistry, Chonbuk National University, Jeonju 54896, Republic of Korea Received: September 19, 2016 Revised: September 26, 2016 Zinc finger proteins are among the most extensively applied metalloproteins in the field of Accepted: September 28, 2016 biotechnology owing to their unique structural and functional aspects as transcriptional and translational regulators. The classical zinc fingers are the largest family of zinc proteins and they provide critical roles in physiological systems from prokaryotes to eukaryotes. Two First published online cysteine and two histidine residues (Cys2His2) coordinate to the zinc ion for the structural October 6, 2016 functions to generate a ββα fold, and this secondary structure supports specific interactions *Corresponding author with their binding partners, including DNA, RNA, lipids, proteins, and small molecules. In Phone: +82-63-270-3412; this account, the structural similarity and differences of well-known Cys2His2-type zinc fingers Fax: +82-63-260-3407; such as zinc interaction factor 268 (ZIF268), transcription factor IIIA (TFIIIA), GAGA, and Ros E-mail: [email protected] will be explained. These proteins perform their specific roles in species from archaea to eukaryotes and they show significant structural similarity; however, their aligned amino acids present low sequence homology.
    [Show full text]
  • Autoubiquitination of BCA2 RING E3 Ligase Regulates Its Own Stability and Affects Cell Migration
    Autoubiquitination of BCA2 RING E3 Ligase Regulates Its Own Stability and Affects Cell Migration Yutaka Amemiya, PeterAzmi, and ArunSeth Division of Molecular and Cellular Biology, Sunnybrook Research Institute, and Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, Ontario, Canada Abstract Introduction Accumulating evidence suggests that ubiquitination The ubiquitin and ubiquitin-like pathways are integral to the plays a role in cancer by changing the function of key normal function of eukaryotic cells (1-8). Protein turnover, cellular proteins. Previously, we isolated BCA2 gene trafficking,and the modulation of protein function have been from a library enriched for breast tumor mRNAs. The ascribed to ubiquitination (9-11). Defects in ubiquitination BCA2 protein is a RING-type E3 ubiquitin ligase and is programs have been described in the pathogenesis of several overexpressed in human breast tumors. In order to human diseases,including cancer. deduce the biochemical and biological function of Ubiquitination of target proteins proceeds in a stepwise BCA2, we searched for BCA2-binding partners using format involving E1,E2,and E3 enzymes. In the first step, human breast and fetal brain cDNA libraries and ubiquitin is activated in an ATP-dependent manner by the BacterioMatch two-hybrid system. We identified 62 activating enzyme known as E1. In the second step,the interacting partners, the majority of which were found activated ubiquitin is transferred to a conjugating enzyme to encode ubiquitin precursor proteins including denoted as E2. In the last step,the E2 enzyme interacts with a ubiquitin C and ubiquitin A-52. Using several deletion specific E3 ubiquitin-protein ligase resulting in the autoubiqui- and point mutants, we found that the BCA2 zinc finger tination of E3 or ubiquitination of target proteins on specific (BZF) domain at the NH2 terminus specifically lysine residues (reviewed extensively in refs.
    [Show full text]