+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-8581 | |||||||||
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タイトル | Triheteromeric NMDA receptor GluN1/GluN2A/GluN2B in complex with glycine, glutamate, Ro 25-6981, MK-801 and a GluN2B-specific Fab, at pH 6.5 | |||||||||
マップデータ | original map | |||||||||
試料 |
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機能・相同性 | 機能・相同性情報 glutamate-gated calcium ion channel activity / NMDA glutamate receptor activity / NMDA selective glutamate receptor complex / calcium ion transmembrane import into cytosol / protein heterotetramerization / response to zinc ion / response to magnesium ion / late endosome / postsynaptic membrane / リソソーム ...glutamate-gated calcium ion channel activity / NMDA glutamate receptor activity / NMDA selective glutamate receptor complex / calcium ion transmembrane import into cytosol / protein heterotetramerization / response to zinc ion / response to magnesium ion / late endosome / postsynaptic membrane / リソソーム / metal ion binding / 細胞膜 類似検索 - 分子機能 | |||||||||
生物種 | Xenopus laevis (アフリカツメガエル) / Mus musculus (ハツカネズミ) | |||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 6.0 Å | |||||||||
データ登録者 | Lu W / Du J / Goehring A / Gouaux E | |||||||||
引用 | ジャーナル: Science / 年: 2017 タイトル: Cryo-EM structures of the triheteromeric NMDA receptor and its allosteric modulation. 著者: Wei Lü / Juan Du / April Goehring / Eric Gouaux / 要旨: -methyl-d-aspartate receptors (NMDARs) are heterotetrameric ion channels assembled as diheteromeric or triheteromeric complexes. Here, we report structures of the triheteromeric GluN1/GluN2A/GluN2B ...-methyl-d-aspartate receptors (NMDARs) are heterotetrameric ion channels assembled as diheteromeric or triheteromeric complexes. Here, we report structures of the triheteromeric GluN1/GluN2A/GluN2B receptor in the absence or presence of the GluN2B-specific allosteric modulator Ro 25-6981 (Ro), determined by cryogenic electron microscopy (cryo-EM). In the absence of Ro, the GluN2A and GluN2B amino-terminal domains (ATDs) adopt "closed" and "open" clefts, respectively. Upon binding Ro, the GluN2B ATD clamshell transitions from an open to a closed conformation. Consistent with a predominance of the GluN2A subunit in ion channel gating, the GluN2A subunit interacts more extensively with GluN1 subunits throughout the receptor, in comparison with the GluN2B subunit. Differences in the conformation of the pseudo-2-fold-related GluN1 subunits further reflect receptor asymmetry. The triheteromeric NMDAR structures provide the first view of the most common NMDA receptor assembly and show how incorporation of two different GluN2 subunits modifies receptor symmetry and subunit interactions, allowing each subunit to uniquely influence receptor structure and function, thus increasing receptor complexity. | |||||||||
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_8581.map.gz | 10.4 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-8581-v30.xml emd-8581.xml | 18 KB 18 KB | 表示 表示 | EMDBヘッダ |
画像 | emd_8581.png | 160.9 KB | ||
その他 | emd_8581_additional.map.gz | 3.4 MB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-8581 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-8581 | 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_8581.map.gz / 形式: CCP4 / 大きさ: 64 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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注釈 | original map | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 1.7 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
-追加マップ: membrane protein
ファイル | emd_8581_additional.map | ||||||||||||
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注釈 | membrane protein | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
-試料の構成要素
-全体 : membrane protein
全体 | 名称: membrane protein膜タンパク質 |
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要素 |
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-超分子 #1: membrane protein
超分子 | 名称: membrane protein / タイプ: complex / ID: 1 / 親要素: 0 / 含まれる分子: #1-#6 |
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由来(天然) | 生物種: Xenopus laevis (アフリカツメガエル) |
組換発現 | 生物種: Homo sapiens (ヒト) |
-分子 #1: N-methyl-D-aspartate receptor subunit NR1-8a
分子 | 名称: N-methyl-D-aspartate receptor subunit NR1-8a / タイプ: protein_or_peptide / ID: 1 / コピー数: 2 / 光学異性体: LEVO |
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由来(天然) | 生物種: Xenopus laevis (アフリカツメガエル) |
分子量 | 理論値: 94.056859 KDa |
組換発現 | 生物種: Homo sapiens (ヒト) |
配列 | 文字列: MGTMRLFLLA VLFLFSFARA GADPKIVNIG AVLSTKKHEQ IFREAVNQAN KRHFTRKIQL NATSVTHRPN AIQMALSVCE DLISSQVYA ILVSHPPAPT DHLTPTPISY TAGFYRIPVI GLTTRMSIYS DKSIHLSFLR TVPPYSHQAL VWFEMMRLFN W NHVILIVS ...文字列: MGTMRLFLLA VLFLFSFARA GADPKIVNIG AVLSTKKHEQ IFREAVNQAN KRHFTRKIQL NATSVTHRPN AIQMALSVCE DLISSQVYA ILVSHPPAPT DHLTPTPISY TAGFYRIPVI GLTTRMSIYS DKSIHLSFLR TVPPYSHQAL VWFEMMRLFN W NHVILIVS DDHEGRAAQK KLETLLEEKE SKADKVLQFE PGTKNLTALL LEAKELEARV IILSASEDDA TAVYKSAAML DM TGAGYVW LVGEREISGS ALRYAPDGII GLQLINGKNE SAHISDAVAV VAQAIHELFE MEQITDPPRG CVGNTNIWKT GPL FKRVLM SSKYPDGVTG RIEFNEDGDR KFAQYSIMNL QNRKLVQVGI FDGSYIIQND RKIIWPGGET ERPQGYQMST RLKI VTIHQ EPFVYVRPTT SDGTCREEYT INGDPIKKVI CNGPDETIPG RPTVPQCCYG FCVDLLIKLA REMDFTYEVH LVADG KFGT QERVNNSNAA AWNGMMGELL SGQADMIVAP LTINNERAQY IEFSKPFKYQ GLTILVKKEI PRSTLDSFMQ PFQSTL WLL VGLSVHVVAV MLYLLDRFSP FGRFKVNSAA AEEDALTLSS AMWFSWRVLL NSGLGEGAPR SFSARILGMV WALFAMI IV ASYTANLAAF LVLRRPEERI TGINDPRLRN PSDKFIYATV KQSSVDIYFR RQVELSTMYR HMEKHNYESA AEAIQAVR D NKLHAFIWDS AVLEFEASQD CDLVTTGELF FRSGFGIGMR KDSPWKQEVS LNILKSHENG FMEELDKTWV RYQECDSRS NAPATLTFEN MAGVFYLVAG GIVAGIFLIF IEIAYK |
-分子 #2: N-methyl-D-aspartate receptor subunit NR2A
分子 | 名称: N-methyl-D-aspartate receptor subunit NR2A / 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: Xenopus laevis (アフリカツメガエル) |
分子量 | 理論値: 93.535227 KDa |
組換発現 | 生物種: Homo sapiens (ヒト) |
配列 | 文字列: MGMFVLLLYT FLYAGDLGHG AEKSFPVLNI AVILGRTRYI TERDIRSLWT RDMSLDFDVN VVTLLVQQTD PKSIITHVCD LMSGTKIHG VVFGDDTDQE AIAQILDFVS SQTFIPILGI HGGSSMIMAD KDEMSTFFQF GASIKQQATV MLNIMEEYDW H VFSVITSN ...文字列: MGMFVLLLYT FLYAGDLGHG AEKSFPVLNI AVILGRTRYI TERDIRSLWT RDMSLDFDVN VVTLLVQQTD PKSIITHVCD LMSGTKIHG VVFGDDTDQE AIAQILDFVS SQTFIPILGI HGGSSMIMAD KDEMSTFFQF GASIKQQATV MLNIMEEYDW H VFSVITSN FPGYRDFISF IKTTVDNSFV GWEVQNYITL DTSYTDAQTL TQLKKIHSSV ILLYCSKDEA TYIFEEARSL GL MGYGFVW IVPSLVTGNT DIIPYEFPSG LVSVSYDDWD YGIEARVRDG LGIITTAASA MLEKHSVIPE AKTSCYGQNE RND PPLHTL HNFMINVTWD GKDLSFTEDG YQANPKLVVL LLNMEREWEK VGKWEAKSLN MKYPVWPRID SDHDDNHLSI VTLE EAPFV IVENIDYLTG TCVRNTVPCR KYFRLANSTT EGTSVKKCCK GFCIDILKKL SKTVKFTYDL YLVTNGKHGK KIKNV WNGM IGEVVYKRAV MAVGSLTINE ERSVAVDFSV PFVETGISVM VSRSAGTVSP SAFLEPFSAS VWVMMFVMLL LVSAMA VFI FEYFSPVGYN RNLAQGKDPH GPSFTIGKAV WLLWGLVFNN SLPVQNPKGT TSKIIVSIWA FFAVIFLASY TANLAAF MI QRRFVDQVTG LSDNKFQRPH DYSPPFRFGT VPQGSTERNI RNNYPDMHQY MVKFHQKGVQ DALVSLKTGK LDAFIYDA A VLNYMAGRDE GCKLVTIGSG YIFATTGYGI ALQKGSRWKR PIDLALLQFV GDGEMEELEK LWLTGICHTE KNEVMSSQL DIDNMAGVFY MLAAAMALSL ITFVWEHLFY K |
-分子 #3: Ionotropic glutamate receptor subunit NR2B
分子 | 名称: Ionotropic glutamate receptor subunit NR2B / 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: Xenopus laevis (アフリカツメガエル) |
分子量 | 理論値: 94.552234 KDa |
組換発現 | 生物種: Homo sapiens (ヒト) |
配列 | 文字列: MRPTEACCYL KISLIILFYS RAYAQKHPNM DIAVILVGTT EEVAIKDVHE KDDFHHLPVT PRVELVTMQE SDPKSIITRI CDLMSDKKV QGVVFGDDTD QEAIAQILDF ISVQTLTPIL GIHGGSSMIM ADKEEASMFF QFGPSIEQQA SVMLNIMEEY D WYIFSIVT ...文字列: MRPTEACCYL KISLIILFYS RAYAQKHPNM DIAVILVGTT EEVAIKDVHE KDDFHHLPVT PRVELVTMQE SDPKSIITRI CDLMSDKKV QGVVFGDDTD QEAIAQILDF ISVQTLTPIL GIHGGSSMIM ADKEEASMFF QFGPSIEQQA SVMLNIMEEY D WYIFSIVT TYFPGYQDFE NKVRSTIENS FVGWELEEVI HLDMSLDDID SKIQNQLKKL QSPVILLYCT KEEATYIFEV AH SVGLTGY GFTWIVPSLV AGDTDTVPDE FPTGLISVSY DEWDYDLPAR VRDGIAIITT AASTMLSEHN SIPQSKSSCN NIQ ESRVYE AHMLKRYLIN VTFEGRDLSF SEDGYQMHPK LVIILLNQER KWERVGKYKD RSLKMWPVFD LYPNSEEHKD EHLS IVTLE EAPFVIVEDV DPLSGTCMRN TVPCRKQIRP ENRTEEGGNY IKRCCKGFCI DILKKIAKTV KFTYDLYLVT NGKHG KKIN GVWNGMIGEV VTKRAYMAVG SLTINEERSE VVDFSVPFIE TGISVMVSRS NGTVSPSAFL EPFSADVWVM MFVMLL IVS AVAVFVFEYF SPVGYNRALA DGREPGGPSF TIGKAIWLLW GLVFNNSLPV QNPKGTTSKI MVSVWAFFAV IFLASYT AN LAAFMIQRRY VDQVSGLSDK KFQRPNDFSP AFRFGTVPNG STERNIRNNY LEMHSYMVKF NQRSVQDALL SLKSGKLD A FIYDAAVLNY MAGRDEGCKL VTIGSGKVFA TTGYGIAIQK DSGWKRQVDL AILQLFGDGE MEELEALWLT GICHNEKNE VMSSQLDIDN MAGVFYMLAA AMALSLITFI MEHLFYK |
-分子 #4: GluN2B-specific Fab, termed 11D1
分子 | 名称: GluN2B-specific Fab, termed 11D1 / タイプ: protein_or_peptide / ID: 4 / コピー数: 2 / 光学異性体: LEVO |
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由来(天然) | 生物種: Mus musculus (ハツカネズミ) |
分子量 | 理論値: 18.400619 KDa |
組換発現 | 生物種: Homo sapiens (ヒト) |
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)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK) ...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)(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)(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)(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) (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)(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)(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)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) |
-分子 #6: 2-acetamido-2-deoxy-beta-D-glucopyranose
分子 | 名称: 2-acetamido-2-deoxy-beta-D-glucopyranose / タイプ: ligand / ID: 6 / コピー数: 1 / 式: NAG |
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分子量 | 理論値: 221.208 Da |
Chemical component information | ChemComp-NAG: |
-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
緩衝液 | pH: 6.5 |
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凍結 | 凍結剤: ETHANE |
-電子顕微鏡法
顕微鏡 | FEI TITAN KRIOS |
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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: FLOOD BEAM / 撮影モード: BRIGHT FIELDBright-field microscopy |
撮影 | フィルム・検出器のモデル: GATAN K2 SUMMIT (4k x 4k) 検出モード: SUPER-RESOLUTION / 平均電子線量: 0.84 e/Å2 |
実験機器 | モデル: Titan Krios / 画像提供: FEI Company |
-画像解析
初期 角度割当 | タイプ: ANGULAR RECONSTITUTION |
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最終 角度割当 | タイプ: ANGULAR RECONSTITUTION |
最終 再構成 | 解像度のタイプ: BY AUTHOR / 解像度: 6.0 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 使用した粒子像数: 302052 |