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データを開く
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基本情報
登録情報 | データベース: EMDB / ID: EMD-25438 | |||||||||
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タイトル | Cryo-EM structure of human NatB in complex with CoA-Alpha-Synuclein | |||||||||
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![]() | NatB / NAA20 / NAA25 / TRANSFERASE / alpha Synuclein | |||||||||
機能・相同性 | ![]() N-terminal peptidyl-glutamine acetylation / N-terminal methionine Nalpha-acetyltransferase NatB / N-terminal peptidyl-aspartic acid acetylation / N-terminal peptidyl-glutamic acid acetylation / NatB complex / N-terminal protein amino acid acetylation / peptide alpha-N-acetyltransferase activity / negative regulation of mitochondrial electron transport, NADH to ubiquinone / neutral lipid metabolic process / regulation of phospholipase activity ...N-terminal peptidyl-glutamine acetylation / N-terminal methionine Nalpha-acetyltransferase NatB / N-terminal peptidyl-aspartic acid acetylation / N-terminal peptidyl-glutamic acid acetylation / NatB complex / N-terminal protein amino acid acetylation / peptide alpha-N-acetyltransferase activity / negative regulation of mitochondrial electron transport, NADH to ubiquinone / neutral lipid metabolic process / regulation of phospholipase activity / negative regulation of monooxygenase activity / regulation of acyl-CoA biosynthetic process / negative regulation of dopamine uptake involved in synaptic transmission / negative regulation of norepinephrine uptake / positive regulation of glutathione peroxidase activity / positive regulation of SNARE complex assembly / positive regulation of hydrogen peroxide catabolic process / supramolecular fiber / negative regulation of transporter activity / mitochondrial membrane organization / negative regulation of chaperone-mediated autophagy / regulation of reactive oxygen species biosynthetic process / positive regulation of protein localization to cell periphery / regulation of synaptic vesicle recycling / negative regulation of platelet-derived growth factor receptor signaling pathway / negative regulation of exocytosis / regulation of glutamate secretion / regulation of norepinephrine uptake / response to iron(II) ion / SNARE complex assembly / positive regulation of neurotransmitter secretion / dopamine biosynthetic process / regulation of locomotion / positive regulation of inositol phosphate biosynthetic process / synaptic vesicle priming / regulation of macrophage activation / negative regulation of microtubule polymerization / synaptic vesicle transport / dopamine uptake involved in synaptic transmission / dynein complex binding / positive regulation of receptor recycling / regulation of dopamine secretion / protein kinase inhibitor activity / negative regulation of thrombin-activated receptor signaling pathway / response to type II interferon / cuprous ion binding / synaptic vesicle exocytosis / positive regulation of exocytosis / kinesin binding / positive regulation of endocytosis / mitochondrial ATP synthesis coupled electron transport / cysteine-type endopeptidase inhibitor activity involved in apoptotic process / response to magnesium ion / regulation of presynapse assembly / synaptic vesicle endocytosis / negative regulation of serotonin uptake / alpha-tubulin binding / localization / phospholipid metabolic process / supramolecular fiber organization / axon terminus / inclusion body / cellular response to copper ion / cellular response to epinephrine stimulus / Hsp70 protein binding / excitatory postsynaptic potential / response to interleukin-1 / adult locomotory behavior / negative regulation of cysteine-type endopeptidase activity involved in apoptotic process / positive regulation of release of sequestered calcium ion into cytosol / SNARE binding / fatty acid metabolic process / long-term synaptic potentiation / phosphoprotein binding / protein tetramerization / regulation of transmembrane transporter activity / microglial cell activation / synapse organization / negative regulation of protein kinase activity / regulation of long-term neuronal synaptic plasticity / protein destabilization / ferrous iron binding / tau protein binding / PKR-mediated signaling / positive regulation of protein serine/threonine kinase activity / receptor internalization / phospholipid binding / synaptic vesicle membrane / positive regulation of inflammatory response / activation of cysteine-type endopeptidase activity involved in apoptotic process / actin cytoskeleton / positive regulation of peptidyl-serine phosphorylation / actin binding / cell cortex / cellular response to oxidative stress / histone binding / growth cone / postsynapse / chemical synaptic transmission / neuron apoptotic process 類似検索 - 分子機能 | |||||||||
生物種 | ![]() | |||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.14 Å | |||||||||
![]() | Deng S / Marmorstein R | |||||||||
資金援助 | ![]()
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![]() | ![]() タイトル: Cryo-EM structure of human NatB in complex with CoA-Alpha-Synuclein 著者: Deng S / Marmorstein R | |||||||||
履歴 |
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構造の表示
ムービー |
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構造ビューア | EMマップ: ![]() ![]() ![]() |
添付画像 |
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ダウンロードとリンク
-EMDBアーカイブ
マップデータ | ![]() | 9.8 MB | ![]() | |
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ヘッダ (付随情報) | ![]() ![]() | 15.4 KB 15.4 KB | 表示 表示 | ![]() |
画像 | ![]() | 168.9 KB | ||
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-検証レポート
文書・要旨 | ![]() | 373.1 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 372.7 KB | 表示 | |
XML形式データ | ![]() | 6.2 KB | 表示 | |
CIF形式データ | ![]() | 7.2 KB | 表示 | |
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
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リンク
EMDBのページ | ![]() ![]() |
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「今月の分子」の関連する項目 |
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マップ
ファイル | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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ボクセルのサイズ | X=Y=Z: 0.83 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
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試料の構成要素
-全体 : human NatB complex
全体 | 名称: human NatB complex |
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要素 |
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-超分子 #1: human NatB complex
超分子 | 名称: human NatB complex / タイプ: complex / ID: 1 / 親要素: 0 / 含まれる分子: #1-#3 |
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-超分子 #2: N-alpha-acetyltransferase 20, N-alpha-acetyltransferase 25, NatB ...
超分子 | 名称: N-alpha-acetyltransferase 20, N-alpha-acetyltransferase 25, NatB auxiliary subunit タイプ: complex / ID: 2 / 親要素: 1 / 含まれる分子: #1-#2 |
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由来(天然) | 生物種: ![]() |
-超分子 #3: MDVFM peptide
超分子 | 名称: MDVFM peptide / タイプ: complex / ID: 3 / 親要素: 1 / 含まれる分子: #3 |
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由来(天然) | 生物種: ![]() |
-分子 #1: N-alpha-acetyltransferase 20
分子 | 名称: N-alpha-acetyltransferase 20 / タイプ: protein_or_peptide / ID: 1 / コピー数: 1 / 光学異性体: LEVO EC番号: N-terminal methionine Nalpha-acetyltransferase NatB |
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由来(天然) | 生物種: ![]() |
分子量 | 理論値: 20.390133 KDa |
組換発現 | 生物種: ![]() ![]() |
配列 | 文字列: MTTLRAFTCD DLFRFNNINL DPLTETYGIP FYLQYLAHWP EYFIVAEAPG GELMGYIMGK AEGSVAREEW HGHVTALSVA PEFRRLGLA AKLMELLEEI SERKGGFFVD LFVRVSNQVA VNMYKQLGYS VYRTVIEYYS ASNGEPDEDA YDMRKALSRD T EKKSIIPL PHPVRPEDIE |
-分子 #2: N-alpha-acetyltransferase 25, NatB auxiliary subunit
分子 | 名称: N-alpha-acetyltransferase 25, NatB auxiliary subunit 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: ![]() |
分子量 | 理論値: 109.64225 KDa |
組換発現 | 生物種: ![]() ![]() |
配列 | 文字列: (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)H CAKVLKAIGL QRTGKQEEA FTLAQEVAAL EPTDDNSLQA ...文字列: (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)H CAKVLKAIGL QRTGKQEEA FTLAQEVAAL EPTDDNSLQA LTILYREMHR PELVTKLYEA AVKKVPNSEE YHSHLFMAYA RVGEYKKMQQ AGMALYKIVP KNPYYFWSV MSLIMQSISA QDENLSKTMF LPLAERMVEK MVKEDKIEAE AEVELYYMIL ERLGKYQEAL DVIRGKLGEK L TSEIQSRE NKCMAMYKKL SRWPECNALS RRLLLKNSDD WQFYLTYFDS VFRLIEEAWS PPAEGEHSLE GEVHYSAEKA VK FIEDRIT EESKSSRHLR GPHLAKLELI RRLRSQGCND EYKLGDPEEL MFQYFKKFGD KPCCFTDLKV FVDLLPATQC TKF INQLLG VVPLSTPTED KLALPADIRA LQQHLCVVQL TRLLGLYHTM DKNQKLSVVR ELMLRYQHGL EFGKTCLKTE LQFS DYYCL LAVHALIDVW RETGDETTVW QALTLLEEGL THSPSNAQFK LLLVRIYCML GAFEPVVDLY SSLDAKHIQH DTIGY LLTR YAESLGQYAA ASQSCNFALR FFHSNQKDTS EYIIQAYKYG AFEKIPEFIA FRNRLNNSLH FAQVRTERML LDLLLE ANI STSLAESIKS MNLRPEEDDI PWEDLRDNRD LNVFFSWDPK DRDVSEEHKK LSLEEETLWL RIRSLTLRLI SGLPSLN HP VEPKNSEKTA ENGVSSRIDI LRLLLQQLEA TLETGKRFIE KDIQYPFLGP VPTRMGGFFN SGCSQCQISS FYLVNDIY E LDTSGLEDTM EIQERIENSF KSLLDQLKDV FSKCKGDLLE VKDGNLKTHP TLLENLVFFV ETISVILWVS SYCESVLRP YKLNLQKKKK KKKETSIIMP PVFTSFQDYV TGLQTLISNV VDHIKGLETH LIALKLEELI LEDTSLSPEE RKFSKTVQGK VQSSYLHSL LEMGELLKKR LETTKKLKI |
-分子 #3: Alpha-synuclein
分子 | 名称: Alpha-synuclein / タイプ: protein_or_peptide / ID: 3 / コピー数: 1 / 光学異性体: LEVO |
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由来(天然) | 生物種: ![]() |
分子量 | 理論値: 641.799 Da |
組換発現 | 生物種: ![]() ![]() |
配列 | 文字列: MDVFM |
-分子 #4: COENZYME A
分子 | 名称: COENZYME A / タイプ: ligand / ID: 4 / コピー数: 1 / 式: COA |
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分子量 | 理論値: 767.534 Da |
Chemical component information | ![]() ChemComp-COA: |
-分子 #5: ACETYL GROUP
分子 | 名称: ACETYL GROUP / タイプ: ligand / ID: 5 / コピー数: 1 / 式: ACE |
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分子量 | 理論値: 44.053 Da |
Chemical component information | ![]() ChemComp-ACE: |
-実験情報
-構造解析
手法 | クライオ電子顕微鏡法 |
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![]() | 単粒子再構成法 |
試料の集合状態 | particle |
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試料調製
濃度 | 1.0 mg/mL | ||||||||||||
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緩衝液 | pH: 7 構成要素:
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凍結 | 凍結剤: ETHANE / チャンバー内湿度: 100 % / チャンバー内温度: 289 K / 装置: FEI VITROBOT MARK II |
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電子顕微鏡法
顕微鏡 | FEI TITAN KRIOS |
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撮影 | #0 - Image recording ID: 1 #0 - フィルム・検出器のモデル: GATAN K3 (6k x 4k) #0 - 平均電子線量: 1.6 e/Å2 / #1 - Image recording ID: 2 #1 - フィルム・検出器のモデル: GATAN K3 (6k x 4k) #1 - 平均電子線量: 1.3 e/Å2 |
電子線 | 加速電圧: 300 kV / 電子線源: ![]() |
電子光学系 | 照射モード: FLOOD BEAM / 撮影モード: BRIGHT FIELD |
実験機器 | ![]() モデル: Titan Krios / 画像提供: FEI Company |
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画像解析
-原子モデル構築 1
精密化 | 空間: REAL / プロトコル: AB INITIO MODEL |
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得られたモデル | ![]() PDB-7stx: |