• 한국자기공명학회논문지
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• 제25권1호
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• pp.8-11
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• 2021

Transthyretin (TTR) is an important transporter protein for thyroxine (T4) and a holo-retinol protein in human. In its native state, TTR forms a tetrameric complex to construct the hydrophobic binding pocket for T4. On the other hand, this protein is also infamous for its amyloidogenic propensity, which causes various human diseases, such as senile systemic amyloidosis and familial amyloid polyneuropathy/cardiomyopathy. In this work, to investigate various structural features of TTR with solution-state nuclear magnetic resonance (NMR) spectroscopy, we conducted backbone NMR signal assignments. Except the N-terminal two residues and prolines, backbone 1H-15N signals of all residues were successfully assigned with additional chemical shift information of 13CO, 13Cα, and 13Cβ for most residues. The chemical shift information reported here will become an important basis for subsequent structural and functional studies of TTR.

• BMB Reports
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• 제40권1호
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• pp.58-64
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• 2007

Similar to the other known structures of Bacillus thuringiensis Cry $\delta$-endotoxins, the crystal structure of the 65-kDa activated Cry4Ba toxin comprises three domains which are, from the N- to C-terminus, a bundle of $\alpha$-helices, a three-$\beta$-sheet domain, and a $\beta$-sandwich. To investigate the properties of the C-terminal domain III in isolation from the rest of the toxin, the cloned Cry4Ba-domain III was over-expressed as a 21-kDa soluble protein in Escherichia coli, which cross-reacted with anti-Cry4Ba domain III monoclonal antibody. A highly-purified domain III was obtained in a monomeric form by ion-exchange and size-exclusion FPLC. Circular dichroism spectroscopy indicated that the isolated domain III fragment distinctly exists as a $\beta$-sheet structure, corresponding to the domain III structure embodied in the Cry4Ba crystal structure. In vitro binding analysis via immuno-histochemical assay revealed that the Cry4Ba-domain III protein was able to bind to the apical microvilli of the susceptible Stegomyia aegypti larval midguts, albeit at lower-binding activity when compared with the full-length active toxin. These results demonstrate for the first time that the C-terminal domain III of the Cry4Ba mosquito-larvicidal protein, which can be isolated as a native folded monomer, conceivably participates in toxin-receptor recognition.

• BMB Reports
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• 제41권5호
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• pp.353-357
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• 2008

LRR family proteins play important roles in a variety of physiological processes. To facilitate their production and crystallization, we have invented a novel method termed "Hybrid LRR Technique". Using this technique, the first crystal structures of three TLR family proteins could be determined. In this review, design principles and application of the technique to protein crystallization will be summarized. For crystallization of TLRs, hagfish VLR receptors were chosen as the fusion partners and the TLR and the VLR fragments were fused at the conserved LxxLxLxxN motif to minimize local structural incompatibility. TLR-VLR hybridization did not disturb structures and functions of the target TLR proteins. The Hybrid LRR Technique is a general technique that can be applied to structural studies of other LRR proteins. It may also have broader application in biochemical and medical application of LRR proteins by modifying them without compromising their structural integrity.

• 통합자연과학논문집
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• 제11권1호
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• pp.25-29
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• 2018

Protein phosphatase manganese dependent 1D (PPM1D), a Ser/Thr protein phosphatise, play major role in the cancer tumorigenesis of various tumors including neuroblastoma, pancreatic adenocarcinoma, medulloblastoma, breast cancer, prostate cancer and ovarian cancer. Hence, analysis on the structural features required for the formation of PPM1D-inhibitor complex becomes essential. In this study, we have performed molecular docking of SL-175 and -176 and protein-protein docking of CDC5L with PPM1D. On analysing the docked complexes, we have identified the important residues involved in the formation of protein-ligand complex. Research concentrating on these residues could be helpful in understanding the pathophysiology of various tumors related to PPM1D.

• 한국자기공명학회논문지
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• 제22권4호
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• pp.76-81
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• 2018

Investigation of the protein-protein interaction mode at atomic resolution is essential for understanding on the underlying functional mechanisms of proteins as well as for discovering druggable compounds blocking deleteriou interprotein interactions. Solution NMR spectroscopy provides accurate and precise information on intermolecular interactions even for weak and transient interactions, and it is also markedly useful for examining the change in the conformation and dynamics of target proteins upon binding events. In this mini-review, we comprehensively describe three unique and powerful methods of solution NMR spectroscopy, paramagnetic relaxation enhancement (PRE), pseudo-contact shift (PCS), and residual dipolar coupling (RDC), for the study on protein-protein interactions.

• 식물병연구
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• 제12권1호
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• pp.25-27
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• 2006

벼오갈병바이러스(Rice dwarf virus, RDV)는 Phytoreovius 속에 속하며 게놈은 double stranded RNA의 12분절로 이루어져 있는데 전기영동상에서 크기가 큰 것부터 S1에서 S12로 명명한다. 본 실험에서는 RDV 입자 및 P12 단백질의 세포질 내에서의 소재양식을 확인하였다. 바이러스 입자 및 P12 단백질 특이적 항혈청에 protein A-gold 입자를 immunolabelling하여 전자현미경에서 gold입자의 존재양상을 관찰하였다. 바이러스 입자 특이적 항혈청을 사용한 경우에는 gold 입자가 세포질내의 바이러스 입자에 특이적으로 반응한 것이 관찰되었다. P12단백질 특이적 항혈청의 경우 gold 입자가 세포질내의 세포소기관에 특이적으로 존재하지 않고 세포질전체에 산재하여 존재하였다. 이 결과로서 RDV S12가 코드하는 단백질 P12가 세포질내에 존재함을 확인하였다.

• Journal of Microbiology and Biotechnology
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• 제28권6호
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• pp.987-996
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• 2018

Bacterial programmed cell death is regulated by the toxin-antitoxin (TA) system. YhaV (toxin) and Pr1F (antitoxin) have been recently identified as a type II TA system in Escherichia coli. YhaV homologs have conserved active residues within the C-terminus, and to characterize the function of this region, we purified native YhaV protein (without denaturing) and constructed YhaV proteins of varying lengths. Here, we report a new low-temperature method of purifying native YhaV, which is notable given the existing challenges of purifying this highly toxic protein. The secondary structures and thermostability of the purified native protein were characterized and no significant structural destruction was observed, suggesting that the observed inhibition of cell growth in vivo was not the result of structural protein damage. However, it has been reported that excessive levels of protein expression may result in protein misfolding and changes in cell growth and mRNA stability. To exclude this possibility, we used an [$^{35}S$]-methionine prokaryotic cell-free protein synthesis system in vitro in the presence of purified YhaV, and two C-terminal truncated forms of this protein (YhaV-L and YhaV-S). Our results suggest that the YhaV C-terminal region is essential for mRNA interferase activity, and the W143 or H154 residues may play an analogous role to Y87 of RelE.

• 생명과학회지
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• 제34권4호
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• pp.279-285
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• 2024

Zonula occludens (ZO) 단백질은 세포 간의 접합 및 세포질 표면에서 구조적으로 기초를 제공하는 스캐폴딩 단백질로 통합 막 단백질과 세포골격 사이를 연결해주는 역할을 하며 구조적 기능 이외에도 세포 성장 및 증식 조절에도 참여를 한다. 최근 연구들에 따르면 ZO 단백질이 여러 질병 중에서도 암에 관여를 한다는 사실을 보여주고 있다. 특히, ZO 단백질은 암 미세환경에서 암세포의 성장과 발달에 영향을 주고 있다고 보고되고 있다. ZO 단백질은 혈관신생, 염증 반응, 상피-중간엽 전이, 중간엽 줄기 세포와의 상호작용을 통해 암 미세환경에서 다양한 기능을 수행한다. 이런 작용 메커니즘은 암의 종류 및 환경적 조건에 따라 달라질 수 있어 최근까지도 이와 관련된 연구들이 진행되면서 ZO 단백질이 참여하는 여러 신호전달기작들이 밝혀지고 있다. 이를 통해 암세포 환경에서 암 성장과 발달을 늦춰줄 수 있는 새로운 치료법도 고려해 볼 수 있다. 또한 ZO 단백질의 세포 및 생체 내 역할에 대한 연구는 계속되고 있지만, 신호전달 기작들이 생체 내 암 미세환경에서 어떻게 작용하는지에 대한 이해는 아직 부족하다. 따라서, 본 리뷰에서는 ZO 단백질 관련 암 미세환경의 특징 및 조절 기작을 소개하고 ZO 단백질의 특성을 활용하여 암 세포 환경을 억제하고 생체 내 ZO 단백질의 역할을 고찰하고자 한다.

• 한국소음진동공학회:학술대회논문집
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• 한국소음진동공학회 2008년도 추계학술대회논문집
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• pp.670-671
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• 2008

• 대한원격탐사학회:학술대회논문집
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• 대한원격탐사학회 2006년도 Proceedings of ISRS 2006 PORSEC Volume II
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• pp.812-815
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• 2006

Proteins are essential agents for controlling, effecting and modulating cellular functions, and proteins with similar sequences have diverged from a common ancestral gene, and have similar structures and functions. Function prediction of unknown proteins remains one of the most challenging problems in bioinformatics. Recently, various computational approaches have been developed for identification of short sequences that are conserved within a family of closely related protein sequence. Protein function is often correlated with highly conserved motifs. Motif is the smallest unit of protein structure and function, and intends to make core part among protein structural and functional components. Therefore, prediction methods using data mining or machine learning have been developed. In this paper, we describe an approach for protein function prediction of motif-based models using data mining. Our work consists of three phrases. We make training and test data set and construct classifier using a training set. Also, through experiments, we evaluate our classifier with other classifiers in point of the accuracy of resulting classification.