+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-23864 | |||||||||
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タイトル | Vascular KATP channel: Kir6.1 SUR2B propeller-like conformation 1 | |||||||||
マップデータ | ||||||||||
試料 |
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キーワード | KATP / potassium channel / vascular / TRANSPORT PROTEIN | |||||||||
機能・相同性 | 機能・相同性情報 cardiac pacemaker cell differentiation / atrioventricular node cell differentiation / substrate-dependent cell migration, cell contraction / reactive gliosis / ATP sensitive Potassium channels / membrane repolarization during ventricular cardiac muscle cell action potential / ABC-family proteins mediated transport / response to resveratrol / ATP-activated inward rectifier potassium channel activity / glutamate secretion, neurotransmission ...cardiac pacemaker cell differentiation / atrioventricular node cell differentiation / substrate-dependent cell migration, cell contraction / reactive gliosis / ATP sensitive Potassium channels / membrane repolarization during ventricular cardiac muscle cell action potential / ABC-family proteins mediated transport / response to resveratrol / ATP-activated inward rectifier potassium channel activity / glutamate secretion, neurotransmission / circulatory system development / inward rectifying potassium channel / NLRP3 inflammasome complex assembly / sulfonylurea receptor activity / ventricular cardiac muscle tissue development / voltage-gated potassium channel activity involved in ventricular cardiac muscle cell action potential repolarization / CAMKK-AMPK signaling cascade / cardiac conduction / voltage-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential / coronary vasculature development / ATPase-coupled monoatomic cation transmembrane transporter activity / vasculature development / nervous system process / cardiac muscle cell contraction / synaptic assembly at neuromuscular junction / regulation of monoatomic ion transmembrane transport / inorganic cation transmembrane transport / syntaxin binding / sulfonylurea receptor binding / neuromuscular process / Ion homeostasis / response to ATP / establishment of cell polarity / myofibril / heterocyclic compound binding / response to exogenous dsRNA / fat cell differentiation / blood vessel development / transmission of nerve impulse / p38MAPK cascade / potassium ion import across plasma membrane / action potential / monoatomic cation transmembrane transport / protein secretion / ATPase-coupled transmembrane transporter activity / potassium channel regulator activity / fatty acid transport / ABC-type transporter activity / heart morphogenesis / presynaptic active zone membrane / potassium ion transmembrane transport / T-tubule / negative regulation of blood pressure / regulation of heart rate / sarcomere / response to endoplasmic reticulum stress / potassium ion transport / acrosomal vesicle / kidney development / response to cytokine / response to ischemia / determination of adult lifespan / calcium ion transmembrane transport / microglial cell activation / regulation of blood pressure / response to insulin / vasodilation / sarcolemma / transmembrane transport / presynapse / heart development / gene expression / fibroblast proliferation / defense response to virus / adaptive immune response / transmembrane transporter binding / cell population proliferation / response to lipopolysaccharide / response to hypoxia / response to xenobiotic stimulus / inflammatory response / glutamatergic synapse / apoptotic process / ATP hydrolysis activity / protein-containing complex / ATP binding / identical protein binding / membrane / plasma membrane 類似検索 - 分子機能 | |||||||||
生物種 | Rattus norvegicus (ドブネズミ) | |||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.4 Å | |||||||||
データ登録者 | Sung MW / Shyng SL | |||||||||
資金援助 | 米国, 1件
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引用 | ジャーナル: Proc Natl Acad Sci U S A / 年: 2021 タイトル: Vascular K channel structural dynamics reveal regulatory mechanism by Mg-nucleotides. 著者: Min Woo Sung / Zhongying Yang / Camden M Driggers / Bruce L Patton / Barmak Mostofian / John D Russo / Daniel M Zuckerman / Show-Ling Shyng / 要旨: Vascular tone is dependent on smooth muscle K channels comprising pore-forming Kir6.1 and regulatory SUR2B subunits, in which mutations cause Cantú syndrome. Unique among K isoforms, they lack ...Vascular tone is dependent on smooth muscle K channels comprising pore-forming Kir6.1 and regulatory SUR2B subunits, in which mutations cause Cantú syndrome. Unique among K isoforms, they lack spontaneous activity and require Mg-nucleotides for activation. Structural mechanisms underlying these properties are unknown. Here, we determined cryogenic electron microscopy structures of vascular K channels bound to inhibitory ATP and glibenclamide, which differ informatively from similarly determined pancreatic K channel isoform (Kir6.2/SUR1). Unlike SUR1, SUR2B subunits adopt distinct rotational "propeller" and "quatrefoil" geometries surrounding their Kir6.1 core. The glutamate/aspartate-rich linker connecting the two halves of the SUR-ABC core is observed in a quatrefoil-like conformation. Molecular dynamics simulations reveal MgADP-dependent dynamic tripartite interactions between this linker, SUR2B, and Kir6.1. The structures captured implicate a progression of intermediate states between MgADP-free inactivated, and MgADP-bound activated conformations wherein the glutamate/aspartate-rich linker participates as mobile autoinhibitory domain, suggesting a conformational pathway toward K channel activation. | |||||||||
履歴 |
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-構造の表示
ムービー |
ムービービューア |
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構造ビューア | EMマップ: SurfViewMolmilJmol/JSmol |
添付画像 |
-ダウンロードとリンク
-EMDBアーカイブ
マップデータ | emd_23864.map.gz | 6.2 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-23864-v30.xml emd-23864.xml | 15.6 KB 15.6 KB | 表示 表示 | EMDBヘッダ |
画像 | emd_23864.png | 100.9 KB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-23864 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-23864 | HTTPS FTP |
-関連構造データ
-リンク
EMDBのページ | EMDB (EBI/PDBe) / EMDataResource |
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「今月の分子」の関連する項目 |
-マップ
ファイル | ダウンロード / ファイル: emd_23864.map.gz / 形式: CCP4 / 大きさ: 6.6 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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ボクセルのサイズ | X=Y=Z: 1.2554 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
密度 |
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対称性 | 空間群: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
詳細 | EMDB XML:
CCP4マップ ヘッダ情報:
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-添付データ
-試料の構成要素
-全体 : vascular KATP channel: Kir6.1 SUR2B propeller-like conformation 1
全体 | 名称: vascular KATP channel: Kir6.1 SUR2B propeller-like conformation 1 |
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要素 |
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-超分子 #1: vascular KATP channel: Kir6.1 SUR2B propeller-like conformation 1
超分子 | 名称: vascular KATP channel: Kir6.1 SUR2B propeller-like conformation 1 タイプ: complex / ID: 1 / 親要素: 0 / 含まれる分子: #1-#2 |
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由来(天然) | 生物種: Rattus norvegicus (ドブネズミ) |
分子量 | 理論値: 889 KDa |
-分子 #1: ATP-sensitive inward rectifier potassium channel 8
分子 | 名称: ATP-sensitive inward rectifier potassium channel 8 / タイプ: protein_or_peptide / ID: 1 / コピー数: 4 / 光学異性体: LEVO |
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由来(天然) | 生物種: Rattus norvegicus (ドブネズミ) |
分子量 | 理論値: 48.023871 KDa |
組換発現 | 生物種: Chlorocebus aethiops (ミドリザル) |
配列 | 文字列: MLARKSIIPE EYVLARIAAE NLRKPRIRDR LPKARFIAKS GACNLAHKNI REQGRFLQDI FTTLVDLKWR HTLVIFTMSF LCSWLLFAI MWWLVAFAHG DIYAYMEKGI TEKSGLESAV CVTNVRSFTS AFLFSIEVQV TIGFGGRMMT EECPLAITVL I LQNIVGLI ...文字列: MLARKSIIPE EYVLARIAAE NLRKPRIRDR LPKARFIAKS GACNLAHKNI REQGRFLQDI FTTLVDLKWR HTLVIFTMSF LCSWLLFAI MWWLVAFAHG DIYAYMEKGI TEKSGLESAV CVTNVRSFTS AFLFSIEVQV TIGFGGRMMT EECPLAITVL I LQNIVGLI INAVMLGCIF MKTAQAHRRA ETLIFSRHAV IAVRNGKLCF MFRVGDLRKS MIISASVRIQ VVKKTTTPEG EV VPIHQQD IPVDNPIESN NIFLVAPLII CHVIDKRSPL YDISATDLVN QDLEVIVILE GVVETTGITT QARTSYIAEE IQW GHRFVS IVTEEEGVYS VDYSKFGNTV RVAAPRCSAR ELDEKPSILI QTLQKSELSH QNSLRKRNSM RRNNSMRRSN SIRR NNSSL MVPKVQFMTP EGNQCPSES UniProtKB: ATP-sensitive inward rectifier potassium channel 8 |
-分子 #2: Isoform SUR2B of ATP-binding cassette sub-family C member 9
分子 | 名称: Isoform SUR2B of ATP-binding cassette sub-family C member 9 タイプ: protein_or_peptide / ID: 2 / コピー数: 1 / 光学異性体: LEVO |
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由来(天然) | 生物種: Rattus norvegicus (ドブネズミ) |
分子量 | 理論値: 174.488562 KDa |
組換発現 | 生物種: Chlorocebus aethiops (ミドリザル) |
配列 | 文字列: MSLSFCGNNI SSYNIYHGVL QNPCFVDALN LVPHVFLLFI TFPILFIGWG SQSSKVQIHH NTWLHFPGHN LRWILTFALL FVHVCEIAE GIVSDSQRAS RHLHLFMPAV MGFVATTTSI VYYHNIETSN FPKLLLALFL YWVMAFITKT IKLVKYWQLG W GMSDLRFC ...文字列: MSLSFCGNNI SSYNIYHGVL QNPCFVDALN LVPHVFLLFI TFPILFIGWG SQSSKVQIHH NTWLHFPGHN LRWILTFALL FVHVCEIAE GIVSDSQRAS RHLHLFMPAV MGFVATTTSI VYYHNIETSN FPKLLLALFL YWVMAFITKT IKLVKYWQLG W GMSDLRFC ITGVMVILNG LLMAVEINVI RVRRYVFFMN PQKVKPPEDL QDLGVRFLQP FVNLLSKATY WWMNTLIISA HR KPIDLKA IGKLPIAMRA VTNYVCLKEA YEEQKKKAAD HPNRTPSIWL AMYRAFGRPI LLSSTFRYLA DLLGFAGPLC ISG IVQRVN EPKNNTTRFS ETLSSKEFLE NAHVLAVLLF LALILQRTFL QASYYVTIET GINLRGALLA MIYNKILRLS TSNL SMGEM TLGQINNLVA IETNQLMWFL FLCPNLWAMP VQIIMGVILL YNLLGSSALV GAAVIVLLAP IQYFIATKLA EAQKS TLDY STERLKKTNE ILKGIKLLKL YAWEHIFCKS VEETRMKELS SLKTFALYTS LSIFMNAAIP IAAVLATFVT HAYASG NNL KPAEAFASLS LFHILVTPLF LLSTVVRFAV KAIISVQKLN EFLLSDEIGE DSWRTGEGTL PFESCKKHTG VQSKPIN RK QPGRYHLDNY EQARRLRPAE TEDVAIKVTN GYFSWGSGLA TLSNIDIRIP TGQLTMIVGQ VGCGKSSLLL AILGEMQT L EGKVYWNNVN ESEPSFEATR SRSRYSVAYA AQKPWLLNAT VEENITFGSS FNRQRYKAVT DACSLQPDID LLPFGDQTE IGERGINLSG GQRQRICVAR ALYQNTNIVF LDDPFSALDI HLSDHLMQEG ILKFLQDDKR TVVLVTHKLQ YLTHADWIIA MKDGSVLRE GTLKDIQTKD VELYEHWKTL MNRQDQELEK DMEADQTTLE RKTLRRAMYS REAKAQMEDE DEEEEEEEDE D DNMSTVMR LRTKMPWKTC WWYLTSGGFF LLFLMIFSKL LKHSVIVAID YWLATWTSEY SINDPGKADQ TFYVAGFSIL CG AGIFLCL VTSLTVEWMG LTAAKNLHHN LLNKIILGPI RFFDTTPLGL ILNRFSADTN IIDQHIPPTL ESLTRSTLLC LSA IGMISY ATPVFLIALA PLGVAFYFIQ KYFRVASKDL QELDDSTQLP LLCHFSETAE GLTTIRAFRH ETRFKQRMLE LTDT NNIAY LFLSAANRWL EVRTDYLGAC IVLTASIASI SGSSNSGLVG LGLLYALTIT NYLNWVVRNL ADLEVQMGAV KKVNS FLTM ESENYEGTMD PSQVPEHWPQ EGEIKIHDLC VRYENNLKPV LKHVKAYIKP GQKVGICGRT GSGKSSLSLA FFRMVD IFD GKIVIDGIDI SKLPLHTLRS RLSIILQDPI LFSGSIRFNL DPECKCTDDR LWEALEIAQL KNMVKSLPGG LDATVTE GG ENFSVGQRQL FCLARAFVRK SSILIMDEAT ASIDMATENI LQKVVMTAFA DRTVVTIAHR VHTILTADLV IVMKRGNI L EYDTPESLLA QEDGVFASFV RADM UniProtKB: ATP-binding cassette sub-family C member 9 |
-分子 #4: POTASSIUM ION
分子 | 名称: POTASSIUM ION / タイプ: ligand / ID: 4 / コピー数: 4 / 式: K |
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分子量 | 理論値: 39.098 Da |
-分子 #5: ADENOSINE-5'-TRIPHOSPHATE
分子 | 名称: ADENOSINE-5'-TRIPHOSPHATE / タイプ: ligand / ID: 5 / コピー数: 5 / 式: ATP |
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分子量 | 理論値: 507.181 Da |
Chemical component information | ChemComp-ATP: |
-分子 #6: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(tri...
分子 | 名称: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate タイプ: ligand / ID: 6 / コピー数: 8 / 式: POV |
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分子量 | 理論値: 760.076 Da |
Chemical component information | ChemComp-POV: |
-分子 #7: PHOSPHATIDYLETHANOLAMINE
分子 | 名称: PHOSPHATIDYLETHANOLAMINE / タイプ: ligand / ID: 7 / コピー数: 8 / 式: PTY |
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分子量 | 理論値: 734.039 Da |
Chemical component information | ChemComp-PTY: |
-分子 #8: O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phospho...
分子 | 名称: O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine タイプ: ligand / ID: 8 / コピー数: 6 / 式: P5S |
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分子量 | 理論値: 792.075 Da |
Chemical component information | ChemComp-P5S: |
-分子 #9: 5-chloro-N-(2-{4-[(cyclohexylcarbamoyl)sulfamoyl]phenyl}ethyl)-2-...
分子 | 名称: 5-chloro-N-(2-{4-[(cyclohexylcarbamoyl)sulfamoyl]phenyl}ethyl)-2-methoxybenzamide タイプ: ligand / ID: 9 / コピー数: 1 / 式: GBM |
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分子量 | 理論値: 494.004 Da |
Chemical component information | ChemComp-GBM: |
-実験情報
-構造解析
手法 | クライオ電子顕微鏡法 |
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解析 | 単粒子再構成法 |
試料の集合状態 | particle |
-試料調製
濃度 | 0.25 mg/mL |
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緩衝液 | pH: 7.5 |
グリッド | 支持フィルム - 材質: GRAPHENE OXIDE / 詳細: unspecified |
凍結 | 凍結剤: ETHANE |
-電子顕微鏡法
顕微鏡 | FEI TITAN KRIOS |
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撮影 | フィルム・検出器のモデル: GATAN K3 (6k x 4k) / 平均電子線量: 40.0 e/Å2 |
電子線 | 加速電圧: 300 kV / 電子線源: FIELD EMISSION GUN |
電子光学系 | 照射モード: SPOT SCAN / 撮影モード: BRIGHT FIELD |
実験機器 | モデル: Titan Krios / 画像提供: FEI Company |