Yeast Two-Hybrid System을 이용한 단백질-단백질 결합의 검색

석대현 인제대학교 백병원 2002 仁濟醫學 Vol.23 No.2

There is a great need for general methods to characterize the proteins that contemporary biology makes available. The list of such proteins needing further characterization is glowing and includes proteins already known to be important for specific cellular functions, mutant proteins identified in vivo or made in vitro, and very large numbers of protein being identified by genome projects. The recent success of two-hybrid systems is due to the fact that many cellular functions are carried out by proteins that touch one another. A full understanding of the function of any new protein will require knowledge of the interactions it makes with previously identified proteins. Currently, most new proteins are being identified by large scale sequencing projects. For many of these new proteins the sequence alone sheds little or no light on their function. Two-hybrid technology exploits the fact that transcriptional activators are modular in nature. Two physically distinct functional domains are necessary to get transcription: (1) a DNA binding domain (DBD) that binds to the DNA of the promoter and (2) an activation domain (AD) that binds to the basal transcription apparatus and activates transcription. In the yeast two-hybrid system, the known gene encoding X. is cloned into the "bait" vector. Separately, a second gene (or a library of cDNAs encoding potential interactors). Y. is cloned in frame adjacent to an activation domain of a different transcription factor. Thus, in one strain of yeast, a known protein X is fused to the DNA binding domain of a transcription factor: and in another strain, unknown proteins are fused to the activation domain of another transcription factor. If the one of the unknown proteins combines with X, it will bring the AD over to the DBD, and transcription will be activated.

Sorting Nexin 17 Interacts Directly with Kinesin Superfamily KIF1Bβ Protein

석대현,한진 대한약리학회 2008 The Korean Journal of Physiology & Pharmacology Vol.12 No.4

KIF1Bβ is a member of the Kinesin superfamily proteins (KIFs), which are microtubule-dependent molecular motors that are involved in various intracellular organellar transport processes. KIF1Bβ is not restricted to neuronal systems, however, is widely expressed in other tissues, even though the function of KIF1Bβ is still unclear. To elucidate the KIF1Bβ-binding proteins in non-neuronal cells, we used the yeast two-hybrid system, and found a specific interaction of KIF1Bβ and the sorting nexin (SNX) 17. The C-terminal region of SNX17 is required for the binding with KIF1Bβ. SNX17 protein bound to the specific region of KIF1Bβ (813-916. aa), but not to other kinesin family members. In addition, this specific interaction was also observed in the Glutathione S-transferase pull-down assay. An antibody to SNX17 specifically co-immunoprecipitated KIF1Bβ associated with SNX17 from mouse brain extracts. These results suggest that SNX17 might be involved in the KIF1Bβ-mediated transport as a KIF1Bβ adaptor protein.

치근부 상아질 투명층의 증령적 변화에 관한 연구

석대현,김종열 대한안면통증구강내과학회 1982 Journal of Oral Medicine and Pain Vol.7 No.1

For the purpose of estimation of age based on changes in the human root dentin transparency, 173 extracted teeth in each part of upper & lower Lt. & Rt. central, lateral incisors to Lt. & Rt. 2nd premolars were evaluated and analized in terms of root dentin transparency. The results are as follows : 1. It was reconfirmed that there exisits coparatively close correlatonship between age and the root dentin transparency. 2. It was proved that the correlation between the changes in the length and the area of the root dentin transparecy in accordance with the ages of each tooth was highest at the upper central incisor, and next at the low central incisor and the upper second premoloar respectively. 3. In the analysis of the age of the transparency, the error was less in the measurement of the area than in the measurement of the length in regard to the estimation of age. 4. The results from the test of the upper central incisor were boiled down to the following linear equation about the correlation among the area and the length of the transparency, and the age: Y=6.94X+14.7(r=0.59) (Y:estimated age, X:length mm) Y=138.47X+12.31(r=0.72) (Y:estimeted age, $X:area\textrm{cm}^2$)

우울증에 관한 Sirtuin 1의 역할과 관련된 기전

석대현(Dae-Hyun Seog),박성우(Sung Woo Park) 한국생명과학회 2021 생명과학회지 Vol.31 No.12

우울증은 높은 유병률과 자살률 증가로 인해 사회적 기능에 부정적인 영향을 미치며, 경제적 부담 또한 높은 질환이다. 우울증은 신경염증, 시냅스 기능장애, 인지 결손과 같은 뇌에서 다양한 현상과 관련이 있다. 임상에서 사용되는 항우울제들은 치료효과가 낮아 빠른 효능을 보이는 항우울제 개발이 시급하다. 현재까지 우울증과 관련된 다양한 유전자, 단백질, 그리고 신호전달계에 대한 많은 연구가 수행되었지만, 우울증의 발생기전은 명확하게 밝혀지지 않았다. Sirtuin 1은 nicotinamide-adenine dinucleotid- (NAD<SUP>+</SUP>-) dependent histone deacetylases로써 세포 분화, 세포 사멸, 발생, 자가소화작용, 암 대사에 관여하는 것으로 알려져 있다. 최근의 유전연구들은 Sirtuin 1이 우울증의 잠재적 타겟 유전자라고 제안하고 있다. 또한 전임상 연구에서는 Sirtuin 1의 신호전달기전이 우울 행동에 영향을 미친다고 보고 하였다. 본 종설에서는 우울증과 Sirtuin 1에 대한 최신 지식을 제시하였다. 소교세포의 활성, 일주기 생체 리듬, 신경세포 생성, 및 인지기능의 조절에 관여하는 Sirtuin 1이 우울증에 미치는 다양한 영향을 설명하였다. 아울러 Sirtuin 1이 우울증 핵심 기전중의 하나인 신경가소성의 손상에 미치는 영향과 그 기전에 대해서 논의하였다. Depression has a negative impact on social functioning due to its high prevalence and increased suicide rate, and is a disease with a high economic burden. Depression is related to diverse brain-related phenomena, such as neuroinflammation, synaptic dysfunction, and cognitive deficit. As antidepressant drugs used in clinical trials have shown poor therapeutic effects, antidepressant drugs that show rapid efficacy urgently need to be developed. Although studies on various genes, proteins, and signaling pathways related to depression have been conducted, the pathogenesis of depression has not been clearly elucidated. Sirtuin 1 is a nicotinamide-adenine dinucleotide- (NAD+-) dependent histone deacetylase and is involved in cell differentiation, apoptosis, autophagy, and cancer metabolism. Recent genetic studies found that sirtuin 1 is a potential target gene for depression. In addition, preclinical studies reported that sirtuin 1 signaling affects depression-like behavior. In this review, we attempt to present up-to-date knowledge of depression and sirtuin 1. We describe the various roles of sirtuin 1 in the regulation of glial activation, circadian rhythm, neurogenesis, and cognitive function and the effects of its expression on depression. Further, we discuss the effect of sirtuin 1 on the impairment of neural plasticity, one of the key mechanisms of depression, and the associated mechanisms of sirtuin 1.

The STAR RNA Binding Proteins SAM68, SLM-1 and SLM-2 Interact with Kinesin-I

Dae-Hyun Seog(석대현) 한국생명과학회 2011 생명과학회지 Vol.21 No.9

키네신은 신경세포에서 미세소관 위를 따라 소포들을 운반하는 분자 motor 단백질로 4개의 단백질로 구성되어있다. 신경세포내에서 발현하는 KIF5C가 세포 내에서 어떤 특정소포를 이동시키는가를 신경세포성장에서 중요문제이다. 이에 본연구는 KIF5C와 결합하는 단백질을 동정하기 위하여 효모 two-hybrid 방법을 사용하여 KIF5C와 특이적으로 rufgkqgksms Sam68-like mammalian protein 2 (SLM-2)을 확인하였다. Signal Transducers and Activators of RNA (STAR) family의 한종류이며 RNA processing에 관여하는 RNA 결합단백질인 SLM-2는 KIF5s의 C-말단과 결합하며, 또한 SLM-2의 C-말단은 KIF5s와 결합하는데 필수영역이였다. 이러한 단백질간의 결합은 Glutathione S-transferase (GST) pull-down assay를 통하여 SAM68, SLM-1, SLM-2은 특이적으로 Kinesin-I과 결합함을 확인하였으며, SAM68의 항체로 면역침강한 결과 KIF5s와 mRNA는 같이 침강하였다. 신경세포의 말단에는 돌기형성에 필요한 단백질들의 주형인 mRNA가 다수 존재하며, 이러한 mRNA는 세포의 중앙에서 세포의 말단쪽으로 이동하여야 하는데, 이번 연구 결과는 Kinesin-I이 특이적으로 mRNA을 운반할 것으로 예상된다. In neurons, kinesin is the molecular motor that transport cargos along microtubules. KIF5s (alias kinesin-I), are heterotetrameric motor conveying cargos, but the mechanism as to how they recognize and bind to a specific cargos has not yet been completely elucidated. To identify the interaction proteins for KIF5C, yeast two-hybrid screening was performed, and specific interaction with the Sam68-like mammalian protein 2 (SLM-2), a member of the signal transducers and activators of RNA (STAR) family of RNA processing proteins, was found. SLM-2 bound to the carboxyl (C)-terminal region of KIF5C and to other KIF5 members. The C-terminal domain of Sam68, SLM-1, SLM-2 was essential for interaction with KIF5C in the yeast two-hybrid assay. In addition, glutathione S-transferase (GST) pull-downs showed that SAM68, SLM-1, and SLM-2 specifically interacted to Kinesin-I complex. An antibody to SAM68 specifically co-immunoprecipitated SAM68 associated with KIF5s and coprecipitated with a specific set of mRNA. These results suggest that Kinesin-I motor protein transports RNA-associated protein complex in cells.

The β Subunit of Heterotrimeric G Protein Interacts Directly with Kinesin Heavy Chains, Kinesin-I

Dae-Hyun Seog(석대현) 한국생명과학회 2010 생명과학회지 Vol.20 No.8

Kinesin-I은 4분자의 단백질로 구성되어 있으며, N-말단의 motor 영역과 C-말단영역을 가지는 장쇄(KHC, 또한 KIF5s로도 통용) 2분자와 KIF5s (KIF5A, KIF5B와 KIF5C)의 줄기영역과 결합하는 단쇄(KLC) 2분자로 구성되어 있다. KIF5A의 결합 단백질을 동정하기 위하여 효모 two-hybrid system을 사용하여 특이적으로 결합하는 heterotrimeric G 단백질의 β 단위체 단백질(Gβ)을 분리하였다. Gβ은 KIF5A의 808에서 935아미노산 부위와 결합하며, 다른 KIF5들과도 결합함을 효모 two-hybrid assay로 확인하였다. 또한 Gβ의 WD40 반복 서열은 KIF5A와의 결합에 필수영역임을 확인하였으며, 이러한 단백질간의 결합은 Glutathione S-transferase (GST) pull-down assay를 통하여 확인하였다. 생쥐의 뇌 파쇄액에 KIF5들의 항체로 면역침강을 행하여 heterotrimeric G 단백질을 확인한 결과, KIF5들은 heterotrimeric G 단백질과 특이적으로 같이 침강하였다. 이러한 결과들은 kinesin-I는 heterotrimeric G 단백질이 포함된 소포를 미세소관을 따라 이동시킴을 시사한다. Kinesin-I exists as a tetramer of two heavy chains (KHCs, also called KIF5s), which contain the amino (N)-terminal motor domain and carboxyl (C)-terminal domain, as well as two light chains (KLCs), which bind to the KIF5s (KIF5A, KIF5B and KIF5C) stalk region. To identify the interaction proteins for KIF5A, yeast two-hybrid screening was performed and a specific interaction with the β subunit of heterotrimeric G proteins (Gβ) was found. G bound to the amino acid residues between 808 and 935 of KIF5A and to other KIF5 members in the yeast two-hybrid assay. The WD40 repeat motif of Gβwas essential for interaction with KIF5A. In addition, these proteins showed specific interactions in the glutathione S-transferase (GST) pull-down assay. An antibody to KIF5s specifically co-immunoprecipitated KIF5s associated with heterotrimeric G proteins from mouse brain extracts. These results suggest that kinesin-I motor protein transports heteroterimeric G protein attachment vesicles along microtubules in the cell.

γ-Aminobutyric Acid Transporter 2 Binds to the PDZ Domain of Mammalian Lin-7

Dae-Hyun Seog(석대현),Il Soo Moon(문일수) 한국생명과학회 2008 생명과학회지 Vol.18 No.7

신경전달물질을 수송하는 신경전달물질 수송체는 연접전막에서 신경전달물질의 농도를 조절한다. 신경세포에 발현하는 GATs들은 연접에서 억제성 신경전달물질인 GABA의 재흡수에 관여한다. GAT2/BGT1가 어떻게 연접전막에 안정적으로 존재하는지, 어떤 결합단백질과 결합하여 조절을 받는지는 알려져 있지 않다. 본 연구에서 효모 two-hybrid system을 사용하여 GAT2의 C-말단과 특이적으로 결합하는 mammalian Lin-7 (MALS)-2을 분리하였다. GAT2의 C-말단에 존재하는 “T-X-L”아미노산 배열이 MALS-2와의 결합에 필수적으로 관여하였다. 또한 이 단백질간의 결합을 pull-down assay로 확인한 결과 MALS는 glutathione S-transferase (GST)와는 결합하지 않으나 GST-GAT2와는 결합하였다. 또한 생쥐의 뇌 균질액에서 GAT2는 MALS와 함께 침강함을 면역침강으로 확인하였다. 이러한 결과들은 MALS가 GAT2와 결합하여 GAT2를 연접전막에서 안정화시키는 역할을 함을 시사한다. Neurotransmitter transporters, which remove neurotransmittesr from the synaptic cleft, are regulated by second messenger such as protein kinases and binding proteins. Neuronal γ-aminobutyric acid transporters (GATs) are responsible for removing the inhibitory neurotransmitter γ-aminobutyric acid (GABA) from the synaptic cleft. γ-aminobutyric acid transporters 2 (GAT2/BGT1) is involved in regulating neurotransmitter recycling, but the mechanism how they are stabilized and regulated by the specific binding protein has not yet been elucidated. Here, we used the yeast two-hybrid system to identify the specific binding protein(s) that interacts with the C-terminal region of GAT2 and found a specific interaction with the mammalian LIN-7b (MALS-2). MALS-2 protein bound to the tail region of GAT2 but not to other GAT members in the yeast two-hybrid assay. The “T-X-L” motif at the C-terminal end of GAT2 is essential for interaction with MALS-2. In addition, this protein showed specific interactions in the glutathione S-transferase (GST) pull-down assay. An antibody to GAT2 specifically co-immunoprecipitated MALS associated with GAT2 from mouse brain extracts. These results suggest that MALS may stabilize GAT2 in brain.

Direct Interaction of KIF5s and Actin-Based Transport Motor, Myo9s

Dae-Hyun Seog(석대현) 한국생명과학회 2011 생명과학회지 Vol.21 No.8

미세소관(microtubule) 위를 이동하는 키네신은 분비소포를 이동시키는 운동단백질이다. KIF5s (KIF5A, KIF5B and KIF5C)는 세포막으로 싸인 각종 세포 내 소기관과 결합하여 미세소관을 따라 목적지까지 이동시킨다는 결과는 알려져 있지만, 어떻게 상대의 cargo를 인식하는지는 밝혀지지 않았다. 본 연구는 KIF5B의 결합 단백질을 동정하기 위하여 효모 two-hybrid system을 사용하여 KIF5B와 특이적으로 결합하는 Myo9b을 확인하였다. Myo9b는 액틴위를 이동하는 운동단백질로 다른 KIF5s들과도 결합함을 효모 two-hybrid assay로 확인하였다. 또한 Myo9s의 GTPase 활성화 단백질(GAP) 영역은 KIF5B와 결합하는데 필수영역임을 확인하였고, 이러한 단백질간의 결합은 Glutathione S-transferase (GST) pull-down assay를 통하여서도 확인하였다. 생쥐의 뇌 파쇄액에 KIF5B들의 항체로 면역침강을 행하여 Myo9s 단백질을 확인한 결과, KIF5s는 Myo9s 단백질과 특이적으로 함께 침강하였다. 이러한 결과들은 kinesin-I는 액틴 결합 운동단백질과 직접 결합함을 보여준다. Microtubule-based kinesin motor proteins are used for long-range vesicular transport. KIF5s (KIF5A, KIF5B and KIF5C) mediate the transport of various membranous vesicles along microtubules, but the mechanism behind how they recognize and bind to a specific cargo has not yet been completely elucidated. To identify the interaction protein for KIF5B, yeast two-hybrid screening was performed and a specific interaction with the unconventional myosin Myo9b, an actin-based vesicle transport motor, was found. The GTPase-activating protein (GAP) domain of Myo9s was essential for interaction with KIF5B in the yeast two-hybrid assay. Myo9b bound to the carboxyl-terminal region of KIF5B and to other KIF5 members. In addition, glutathione S-transferase (GST) pull-downs showed that Myo9s specifically interact to the complete Kinesin-I complex. An antibody to KIF5B specifically co-immunoprecipitated KIF5B associated with Myo9s from mouse brain extracts. These results suggest that kinesin-I motor protein interacts directly with actin-based motor proteins in the cell.

Interaction of GAT1 with Ubiquitin-Specific Protease Usp14 in Synaptic Terminal

Dae-Hyun Seog(석대현),Sang-Jin Kim(김상진),Young-Ju Joung(정영주),Sung Su Yea(예성수),Yeong-Hong Park(박영홍),Moo Seong Kim(김무성),Il Soo Moon(문일수),Won Hee Jang(장원희) 한국생명과학회 2010 생명과학회지 Vol.20 No.7

γ-aminobutyric acid (GABA)는 중추신경계에서 억제성으로 작용하는 주요한 신경전달물질이다. GABA 수송체(GAT)는 연접간격에 존재하는 GABA를 세포 내로 재 흡수하여 GABA의 농도를 조절한다. 그런데 GABA 수송체가 어떻게 조절되는지는 아직 밝혀지지 않았다. 본 연구에서는 효모 two-hybrid system을 사용하여 뇌의 주요 GABA 수송체인 GAT1의 C-말단과 특이적으로 결합하는 ubiquitin-specific protease 14 (Usp14)를 분리하였다. Usp14는 GABA 수송체 GAT1및 GAT2와는 결합하지만, 다른 GAT isoform과는 결합하지 않았다. GAT1과의 결합에는 Usp14의 C-말단부위가 필수적으로 관여함을 확인하였다. 또한 이 단백질간의 결합을 GST pull-down assay로 확인하였으며, 생쥐 뇌 균질액의 co-immunoprecipitation을 통하여 in vivo에서도 GAT1과 Usp14가 결합함을 확인하였다. 이러한 결과들은 Usp14가 GAT1과 결합하여 세포막에 존재하는 GAT1의 수를 조절하는 역할을 할 가능성을 시사한다. γ-aminobutyric acid (GABA) is the major inhibitory neurotransmitter in the central nervous system. GABA transporters (GATs) control extracellular GABA levels by reuptake of released GABA from the synaptic cleft. However, how GATs are regulated has not yet been elucidated. Here, we used the yeast two-hybrid system to identify the specific binding protein(s) that interacts with the carboxyl (C)-terminal region of GAT1, the major isoform in the brain and find a specific interaction with the ubiquitin-specific protease 14 (Usp14), a deubiquitinating enzyme. Usp14 protein bound to the tail region of GAT1 and GAT2 but not to other GAT members in the yeast two-hybrid assay. The C-terminal region of Usp14 is essential for interaction with GAT1. In addition, these proteins showed specific interactions in the glutathione S-transferase (GST) pull-down assay. An antibody to GAT1 specifically co-immunoprecipitated Usp14 from mouse brain extracts. These results suggest that Usp14 may regulate the number of GAT1 at the cell surface.

CUEDC2, CUE Domain Containing Protein 2, Associates with Kinesin-1 by Binding to the C-Terminus of KIF5A

김명훈,석대현,표세영,정영주,박성우,서미경,이원희,엄상화,김무성,이정구 한국생명과학회 2023 생명과학회지 Vol.33 No.11

Kinesin-1 is a motor protein identified as the first member of the kinesin superfamily (KIF), which plays a role in intracellular cargo transport by acting as microtubule-dependent motor proteins within cells. Kinesin-1 consists of two heavy chains (KHCs, also known as KIF5s) and two light chains (KLCs). The 93 amino acids in the carboxyl (C)-terminal tail region of KIF5A are not homologous to the C-terminal tail region of KIF5B or the C-terminal tail region of KIF5C. In this study, we used a yeast two-hybrid screen to identify the binding proteins that interacted with the C-terminal region of KIF5A. We found an association between KIF5A and CUE domain containing 2 (CUEDC2), which is proposed to function as an adaptor protein involved in ubiquitination pathways and protein trafficking. CUEDC2 bound to the C-terminal region of KIF5A and did not interact with KIF5B (the motor of kinesin-1), KIF3A (the motor of kinesin-2), or kinesin light chain 1 (KLC1). KIF5A specifically bound to the C-terminal region of CUEDC2. Furthermore, KIF5A did not interact with another isoform: CUEDC1. In addition, glutathione S-transferase (GST) pull-downs showed that KIF5A directly bound GST-CUEDC2 but did not interact with GST-CUEDC1 and GST alone. When myc- KIF5A and EGFP-CUEDC2 were co-expressed in HEK-293T cells, CUEDC2 co-immunoprecipitated with kinesin-1, and myc-KIF5A and FLAG-CUEDC2 colocalized in the cells. These results suggest that in intracellular cargo transport by kinesin-1, CUEDC2 serves as an adaptor protein connecting kinesin-1 and cargo by binding to KIF5A.