8GI8
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![BU of 8gi8 by Molmil](/molmil-images/mine/8gi8) | Kalium channelrhodopsin 1 from Hyphochytrium catenoides (HcKCR1) embedded in peptidisc | Descriptor: | 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine, CHOLESTEROL, Kalium Channelrhodopsin 1, ... | Authors: | Morizumi, T, Kim, K, Li, H, Spudich, J.L, Ernst, O.P. | Deposit date: | 2023-03-13 | Release date: | 2023-07-26 | Last modified: | 2024-05-01 | Method: | ELECTRON MICROSCOPY (2.88 Å) | Cite: | Structures of channelrhodopsin paralogs in peptidiscs explain their contrasting K + and Na + selectivities. Nat Commun, 14, 2023
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8GI9
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![BU of 8gi9 by Molmil](/molmil-images/mine/8gi9) | Cation channelrhodopsin from Hyphochytrium catenoides (HcCCR) embedded in peptidisc | Descriptor: | 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine, CHOLESTEROL, Cation Channelrhodopsin, ... | Authors: | Morizumi, T, Kim, K, Li, H, Spudich, J.L, Ernst, O.P. | Deposit date: | 2023-03-13 | Release date: | 2023-07-26 | Last modified: | 2024-05-01 | Method: | ELECTRON MICROSCOPY (2.84 Å) | Cite: | Structures of channelrhodopsin paralogs in peptidiscs explain their contrasting K + and Na + selectivities. Nat Commun, 14, 2023
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6NWE
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6NWD
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![BU of 6nwd by Molmil](/molmil-images/mine/6nwd) | X-ray Crystallographic structure of Gloeobacter rhodopsin | Descriptor: | 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHOCHOLINE, DECANE, DODECANE, ... | Authors: | Ernst, O.P, Morizumi, T, Ou, W.L. | Deposit date: | 2019-02-06 | Release date: | 2019-08-14 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | X-ray Crystallographic Structure and Oligomerization of Gloeobacter Rhodopsin. Sci Rep, 9, 2019
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6PEL
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6PGS
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6PH7
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![BU of 6ph7 by Molmil](/molmil-images/mine/6ph7) | Crystal structure of bovine opsin with nerol bound | Descriptor: | (2Z)-3,7-dimethylocta-2,6-dien-1-ol, G protein CT2 peptide, PALMITIC ACID, ... | Authors: | Eger, B.T, Morizumi, T, Ernst, O.P. | Deposit date: | 2019-06-25 | Release date: | 2020-07-01 | Last modified: | 2024-03-06 | Method: | X-RAY DIFFRACTION (2.902 Å) | Cite: | Odorant-binding site in visual opsin To Be Published
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2IEY
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![BU of 2iey by Molmil](/molmil-images/mine/2iey) | Crystal Structure of mouse Rab27b bound to GDP in hexagonal space group | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, Ras-related protein Rab-27B | Authors: | Chavas, L.M.G, Torii, S, Kamikubo, H, Kawasaki, M, Ihara, K, Kato, R, Kataoka, M, Izumi, T, Wakatsuki, S. | Deposit date: | 2006-09-19 | Release date: | 2007-05-01 | Last modified: | 2012-04-11 | Method: | X-RAY DIFFRACTION (3.18 Å) | Cite: | Structure of the small GTPase Rab27b shows an unexpected swapped dimer Acta Crystallogr.,Sect.D, 63, 2007
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2IEZ
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![BU of 2iez by Molmil](/molmil-images/mine/2iez) | Crystal Structure of mouse Rab27b bound to GDP in monoclinic space group | Descriptor: | CALCIUM ION, GUANOSINE-5'-DIPHOSPHATE, Ras-related protein Rab-27B | Authors: | Chavas, L.M.G, Torii, S, Kamikubo, H, Kawasaki, M, Ihara, K, Kato, R, Kataoka, M, Izumi, T, Wakatsuki, S. | Deposit date: | 2006-09-19 | Release date: | 2007-05-01 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Structure of the small GTPase Rab27b shows an unexpected swapped dimer Acta Crystallogr.,Sect.D, 63, 2007
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2IF0
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![BU of 2if0 by Molmil](/molmil-images/mine/2if0) | Crystal Structure of mouse Rab27b bound to GDP in monoclinic space group | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, Ras-related protein Rab-27B | Authors: | Chavas, L.M.G, Torii, S, Kamikubo, H, Kawasaki, M, Ihara, K, Kato, R, Kataoka, M, Izumi, T, Wakatsuki, S. | Deposit date: | 2006-09-19 | Release date: | 2007-05-01 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Structure of the small GTPase Rab27b shows an unexpected swapped dimer Acta Crystallogr.,Sect.D, 63, 2007
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4EU2
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![BU of 4eu2 by Molmil](/molmil-images/mine/4eu2) | Crystal structure of 20s proteasome with novel inhibitor K-7174 | Descriptor: | 1,4-bis[(4E)-5-(3,4,5-trimethoxyphenyl)pent-4-en-1-yl]-1,4-diazepane, Proteasome component C1, Proteasome component C11, ... | Authors: | Kikuchi, J, Shibayama, N, Yamada, S, Wada, T, Nobuyoshi, M, Izumi, T, Akutsu, M, Kano, Y, Ohki, M, Sugiyama, K, Park, S.-Y, Furukawa, Y. | Deposit date: | 2012-04-25 | Release date: | 2013-05-01 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.509 Å) | Cite: | Homopiperazine derivatives as a novel class of proteasome inhibitors with a unique mode of proteasome binding. Plos One, 8, 2013
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1DE9
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![BU of 1de9 by Molmil](/molmil-images/mine/1de9) | HUMAN APE1 ENDONUCLEASE WITH BOUND ABASIC DNA AND MN2+ ION | Descriptor: | 5'-d(*CP*TP*AP*C)-3', 5'-d(*GP*AP*TP*CP*GP*GP*TP*AP*G)-3', 5'-d(P*(3DR)P*GP*AP*TP*C)-3', ... | Authors: | Mol, C.D, Izumi, T, Mitra, S, Tainer, J.A. | Deposit date: | 1999-11-13 | Release date: | 2000-02-02 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | DNA-bound structures and mutants reveal abasic DNA binding by APE1 and DNA repair coordination Nature, 403, 2000
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1DEW
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![BU of 1dew by Molmil](/molmil-images/mine/1dew) | CRYSTAL STRUCTURE OF HUMAN APE1 BOUND TO ABASIC DNA | Descriptor: | 5'-D(*GP*CP*GP*TP*CP*CP*(3DR)P*CP*GP*AP*CP*GP*AP*CP*G)-3', 5'-D(*GP*TP*CP*GP*TP*CP*GP*GP*GP*GP*AP*CP*GP*C)-3', MAJOR APURINIC/APYRIMIDINIC ENDONUCLEASE, ... | Authors: | Mol, C.D, Izumi, T, Mitra, S, Tainer, J.A. | Deposit date: | 1999-11-15 | Release date: | 2000-02-02 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (2.65 Å) | Cite: | DNA-bound structures and mutants reveal abasic DNA binding by APE1 and DNA repair coordination Nature, 403, 2000
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1DE8
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![BU of 1de8 by Molmil](/molmil-images/mine/1de8) | HUMAN APURINIC/APYRIMIDINIC ENDONUCLEASE-1 (APE1) BOUND TO ABASIC DNA | Descriptor: | DNA (5'-D(*CP*GP*AP*TP*CP*GP*GP*TP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*AP*CP*(3DR)P*GP*AP*TP*CP*G)-3'), MAJOR APURINIC/APYRIMIDINIC ENDONUCLEASE | Authors: | Mol, C.D, Izumi, T, Mitra, S, Tainer, J.A. | Deposit date: | 1999-11-13 | Release date: | 2000-02-02 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (2.95 Å) | Cite: | DNA-bound structures and mutants reveal abasic DNA binding by APE1 and DNA repair coordination [corrected Nature, 403, 2000
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6CMO
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![BU of 6cmo by Molmil](/molmil-images/mine/6cmo) | Rhodopsin-Gi complex | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Fab Heavy chain, Fab light chain, ... | Authors: | Kang, Y, Kuybeda, O, de Waal, P.W, Mukherjee, S, Van Eps, N, Dutka, P, Zhou, X.E, Bartesaghi, A, Erramilli, S, Morizumi, T, Gu, X, Yin, Y, Liu, P, Jiang, Y, Meng, X, Zhao, G, Melcher, K, Earnst, O.P, Kossiakoff, A.A, Subramaniam, S, Xu, H.E. | Deposit date: | 2018-03-05 | Release date: | 2018-06-20 | Last modified: | 2020-07-29 | Method: | ELECTRON MICROSCOPY (4.5 Å) | Cite: | Cryo-EM structure of human rhodopsin bound to an inhibitory G protein. Nature, 558, 2018
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5E8D
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![BU of 5e8d by Molmil](/molmil-images/mine/5e8d) | Crystal structure of human epiregulin in complex with the Fab fragment of murine monoclonal antibody 9E5 | Descriptor: | CHLORIDE ION, GLYCEROL, Proepiregulin, ... | Authors: | Kado, Y, Mizohata, E, Nagatoishi, S, Iijima, M, Shinoda, K, Miyafusa, T, Nakayama, T, Yoshizumi, T, Sugiyama, A, Kawamura, T, Lee, Y.H, Matsumura, H, Doi, H, Fujitani, H, Kodama, T, Shibasaki, Y, Tsumoto, K, Inoue, T. | Deposit date: | 2015-10-14 | Release date: | 2015-12-09 | Last modified: | 2020-02-19 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Epiregulin Recognition Mechanisms by Anti-epiregulin Antibody 9E5: STRUCTURAL, FUNCTIONAL, AND MOLECULAR DYNAMICS SIMULATION ANALYSES J.Biol.Chem., 291, 2016
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8ELJ
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![BU of 8elj by Molmil](/molmil-images/mine/8elj) | SARS-CoV-2 spike glycoprotein in complex with the ICO-hu23 neutralizing antibody Fab fragment | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ICO-hu23 antibody Fab heavy chain, ... | Authors: | Yee, A.W, Morizumi, T, Kim, K, Kuo, A, Ernst, O.P. | Deposit date: | 2022-09-24 | Release date: | 2023-07-19 | Last modified: | 2023-08-16 | Method: | ELECTRON MICROSCOPY (3.6 Å) | Cite: | Broadly neutralizing humanized SARS-CoV-2 antibody binds to a conserved epitope on Spike and provides antiviral protection through inhalation-based delivery in non-human primates. Plos Pathog., 19, 2023
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8EL2
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![BU of 8el2 by Molmil](/molmil-images/mine/8el2) | SARS-CoV-2 RBD bound to neutralizing antibody Fab ICO-hu23 | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Fab ICO-hu23 Heavy Chain, Fab ICO-hu23 Light Chain, ... | Authors: | Besaw, J.E, Kuo, A, Morizumi, T, Ernst, O.P. | Deposit date: | 2022-09-22 | Release date: | 2023-07-19 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.89 Å) | Cite: | Broadly neutralizing humanized SARS-CoV-2 antibody binds to a conserved epitope on Spike and provides antiviral protection through inhalation-based delivery in non-human primates. Plos Pathog., 19, 2023
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5AZ2
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![BU of 5az2 by Molmil](/molmil-images/mine/5az2) | Crystal structure of the Fab fragment of 9E5, a murine monoclonal antibody specific for human epiregulin | Descriptor: | anti-human epiregulin antibody 9E5 Fab heavy chain, anti-human epiregulin antibody 9E5 Fab light chain | Authors: | Kado, Y, Mizohata, E, Nagatoishi, S, Iijima, M, Shinoda, K, Miyafusa, T, Nakayama, T, Yoshizumi, T, Sugiyama, A, Kawamura, T, Lee, Y.H, Matsumura, H, Doi, H, Fujitani, H, Kodama, T, Shibasaki, Y, Tsumoto, K, Inoue, T. | Deposit date: | 2015-09-16 | Release date: | 2015-12-09 | Last modified: | 2020-02-26 | Method: | X-RAY DIFFRACTION (1.603 Å) | Cite: | Epiregulin Recognition Mechanisms by Anti-epiregulin Antibody 9E5: STRUCTURAL, FUNCTIONAL, AND MOLECULAR DYNAMICS SIMULATION ANALYSES J.Biol.Chem., 291, 2016
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6V51
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![BU of 6v51 by Molmil](/molmil-images/mine/6v51) | Spin-labeled T4 Lysozyme (9/131FnbY)-(4-Amino-TEMPO) | Descriptor: | 4-amino-2,2,6,6-tetramethylpiperidin-1-ol, Endolysin | Authors: | Liu, J, Morizumi, T, Ou, W.L, Wang, L, Ernst, O.P. | Deposit date: | 2019-12-02 | Release date: | 2020-10-07 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Genetically Encoded Quinone Methides Enabling Rapid, Site-Specific, and Photocontrolled Protein Modification with Amine Reagents. J.Am.Chem.Soc., 142, 2020
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6WP8
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![BU of 6wp8 by Molmil](/molmil-images/mine/6wp8) | Proton-pumping mutant of Mastigocladopsis repens rhodopsin chloride pump | Descriptor: | Proton-pumping rhodopsin chloride pump, RETINAL, octyl beta-D-glucopyranoside | Authors: | Besaw, J.E, Ernst, O.P, Ou, W, Morizumi, T. | Deposit date: | 2020-04-26 | Release date: | 2020-07-29 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | The crystal structures of a chloride-pumping microbial rhodopsin and its proton-pumping mutant illuminate proton transfer determinants. J.Biol.Chem., 295, 2020
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6XL3
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![BU of 6xl3 by Molmil](/molmil-images/mine/6xl3) | Mastigocladopsis repens rhodopsin chloride pump | Descriptor: | CHLORIDE ION, DECANE, Mastigocladopsis repens rhodopsin chloride pump, ... | Authors: | Besaw, J.E, Ernst, O.P, Ou, W, Morizumi, T. | Deposit date: | 2020-06-28 | Release date: | 2020-07-29 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (2.33 Å) | Cite: | The crystal structures of a chloride-pumping microbial rhodopsin and its proton-pumping mutant illuminate proton transfer determinants. J.Biol.Chem., 295, 2020
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7CKV
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![BU of 7ckv by Molmil](/molmil-images/mine/7ckv) | Crystal structure of Cyanobacteriochrome GAF domain in Pr state | Descriptor: | MAGNESIUM ION, PHYCOCYANOBILIN, RcaE | Authors: | Nagae, T, Koizumi, T, Hirose, Y, Mishima, M. | Deposit date: | 2020-07-19 | Release date: | 2021-05-05 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.63 Å) | Cite: | Structural basis of the protochromic green/red photocycle of the chromatic acclimation sensor RcaE. Proc.Natl.Acad.Sci.USA, 118, 2021
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3PQR
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![BU of 3pqr by Molmil](/molmil-images/mine/3pqr) | Crystal structure of Metarhodopsin II in complex with a C-terminal peptide derived from the Galpha subunit of transducin | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, ACETATE ION, Guanine nucleotide-binding protein G(t) subunit alpha-1, ... | Authors: | Choe, H.-W, Kim, Y.J, Park, J.H, Morizumi, T, Pai, E.F, Krauss, N, Hofmann, K.P, Scheerer, P, Ernst, O.P. | Deposit date: | 2010-11-26 | Release date: | 2011-03-09 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (2.85 Å) | Cite: | Crystal structure of metarhodopsin II. Nature, 471, 2011
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3PXO
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![BU of 3pxo by Molmil](/molmil-images/mine/3pxo) | Crystal structure of Metarhodopsin II | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, PALMITIC ACID, RETINAL, ... | Authors: | Choe, H.-W, Kim, Y.J, Park, J.H, Morizumi, T, Pai, E.F, Krauss, N, Hofmann, K.P, Scheerer, P, Ernst, O.P. | Deposit date: | 2010-12-10 | Release date: | 2011-03-09 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Crystal structure of metarhodopsin II. Nature, 471, 2011
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