5VG9
 
 | | Structure of the eukaryotic intramembrane Ras methyltransferase ICMT (isoprenylcysteine carboxyl methyltransferase) without a monobody | | Descriptor: | Protein-S-isoprenylcysteine O-methyltransferase, S-ADENOSYL-L-HOMOCYSTEINE | | Authors: | Long, S.B, Diver, M.M, Pedi, L, Koide, A, Koide, S. | | Deposit date: | 2017-04-10 | | Release date: | 2018-01-17 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (4 Å) | | Cite: | Atomic structure of the eukaryotic intramembrane RAS methyltransferase ICMT.
Nature, 553, 2018
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8F0M
 | | Monobody 12D5 bound to KRAS(G12D) | | Descriptor: | 5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE, GUANOSINE-5'-DIPHOSPHATE, Isoform 2B of GTPase KRas, ... | | Authors: | Hattori, T, Glasser, E, Akkapeddi, P, Ketavarapu, G, Teng, K.W, Koide, A, Koide, S. | | Deposit date: | 2022-11-03 | | Release date: | 2023-07-19 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2.44 Å) | | Cite: | Exploring switch II pocket conformation of KRAS(G12D) with mutant-selective monobody inhibitors.
Proc.Natl.Acad.Sci.USA, 120, 2023
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3UYO
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8EZG
 | | Monobody 12D1 bound to KRAS(G12D) | | Descriptor: | GTPase KRas, GUANOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, ... | | Authors: | Hattori, T, Glasser, E, Akkapeddi, P, Ketavarapu, G, Teng, K.W, Koide, A, Koide, S. | | Deposit date: | 2022-10-31 | | Release date: | 2023-07-19 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2.52 Å) | | Cite: | Exploring switch II pocket conformation of KRAS(G12D) with mutant-selective monobody inhibitors.
Proc.Natl.Acad.Sci.USA, 120, 2023
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5V7P
 | | Atomic structure of the eukaryotic intramembrane Ras methyltransferase ICMT (isoprenylcysteine carboxyl methyltransferase), in complex with a monobody | | Descriptor: | DECANE, Protein-S-isoprenylcysteine O-methyltransferase, S-ADENOSYL-L-HOMOCYSTEINE, ... | | Authors: | Long, S.B, Diver, M.M, Pedi, L, Koide, A, Koide, S. | | Deposit date: | 2017-03-20 | | Release date: | 2018-01-17 | | Last modified: | 2024-03-06 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Atomic structure of the eukaryotic intramembrane RAS methyltransferase ICMT.
Nature, 553, 2018
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2AF5
 | | 2.5A X-ray Structure of Engineered OspA protein | | Descriptor: | Engineered Outer Surface Protein A (OspA) with the inserted two beta-hairpins | | Authors: | Makabe, K, Mcelheny, D, Tereshko, V, Hilyard, A, Koide, A, Koide, S. | | Deposit date: | 2005-07-25 | | Release date: | 2006-08-01 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Atomic structures of peptide self-assembly mimics.
Proc.Natl.Acad.Sci.Usa, 103, 2006
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5A43
 | | Crystal structure of a dual topology fluoride ion channel. | | Descriptor: | DECYL-BETA-D-MALTOPYRANOSIDE, FLUORIDE ION, MONOBODIES, ... | | Authors: | Stockbridge, R.B, Kolmakova-Partensky, L, Shane, T, Koide, A, Koide, S, Miller, C, Newstead, S. | | Deposit date: | 2015-06-04 | | Release date: | 2015-09-02 | | Last modified: | 2015-09-30 | | Method: | X-RAY DIFFRACTION (2.58 Å) | | Cite: | Crystal Structures of a Double-Barrelled Fluoride Ion Channel.
Nature, 525, 2015
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5CWW
 | | Crystal structure of the Chaetomium thermophilum heterotrimeric Nup82 NTD-Nup159 TAIL-Nup145N APD complex | | Descriptor: | Nucleoporin NUP145N, Nucleoporin NUP159, Nucleoporin NUP82 | | Authors: | Stuwe, T, Bley, C.J, Thierbach, K, Petrovic, S, Schilbach, S, Mayo, D.J, Perriches, T, Rundlet, E.J, Jeon, Y.E, Collins, L.N, Lin, D.H, Paduch, M, Koide, A, Lu, V, Fischer, J, Hurt, E, Koide, S, Kossiakoff, A.A, Hoelz, A. | | Deposit date: | 2015-07-28 | | Release date: | 2015-09-16 | | Last modified: | 2024-03-06 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Architecture of the fungal nuclear pore inner ring complex.
Science, 350, 2015
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5A40
 | | Crystal structure of a dual topology fluoride ion channel. | | Descriptor: | MERCURY (II) ION, MONOBODIES, PUTATIVE FLUORIDE ION TRANSPORTER CRCB | | Authors: | Stockbridge, R.B, Kolmakova-Partensky, L, Shane, T, Koide, A, Koide, S, Miller, C, Newstead, S. | | Deposit date: | 2015-06-04 | | Release date: | 2015-09-02 | | Last modified: | 2024-05-08 | | Method: | X-RAY DIFFRACTION (3.6 Å) | | Cite: | Crystal Structures of a Double-Barrelled Fluoride Ion Channel.
Nature, 525, 2015
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5DC4
 | | CRYSTAL STRUCTURE OF MONOBODY AS25/ABL1 SH2 DOMAIN COMPLEX, CRYSTAL A | | Descriptor: | AS25 monobody, GLYCEROL, Tyrosine-protein kinase ABL1 | | Authors: | Wojcik, J.B, Koide, A, Koide, S. | | Deposit date: | 2015-08-23 | | Release date: | 2016-03-02 | | Last modified: | 2024-03-06 | | Method: | X-RAY DIFFRACTION (1.48 Å) | | Cite: | Allosteric Inhibition of Bcr-Abl Kinase by High Affinity Monobody Inhibitors Directed to the Src Homology 2 (SH2)-Kinase Interface.
J.Biol.Chem., 291, 2016
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8TTF
 | | NorA double mutant - E222QD307N at pH 7.5 | | Descriptor: | Heavy Chain of FabDA1 Variable Domain, Light Chain of FabDA1 Variable Domain, Quinolone resistance protein NorA | | Authors: | Li, J.P, Li, Y, Koide, A, Kuang, H.H, Torres, V.J, Koide, S, Wang, D.N, Traaseth, N.J. | | Deposit date: | 2023-08-13 | | Release date: | 2024-05-29 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.61 Å) | | Cite: | Proton-coupled transport mechanism of the efflux pump NorA.
Nat Commun, 15, 2024
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8TTH
 | | NorA single mutant - D307N at pH 7.5 | | Descriptor: | Heavy Chain of FabDA1 Variable Domain, Light Chain of FabDA1 Variable Domain, Quinolone resistance protein NorA | | Authors: | Li, J.P, Li, Y, Koide, A, Kuang, H.H, Torres, V.J, Koide, S, Wang, D.N, Traaseth, N.J. | | Deposit date: | 2023-08-13 | | Release date: | 2024-05-29 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.54 Å) | | Cite: | Proton-coupled transport mechanism of the efflux pump NorA.
Nat Commun, 15, 2024
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8TTE
 | | Protonated state of NorA at pH 5.0 | | Descriptor: | FabDA1 CDRH3 loop, Quinolone resistance protein NorA | | Authors: | Li, J.P, Li, Y, Koide, A, Kuang, H.H, Torres, V.J, Koide, S, Wang, D.N, Traaseth, N.J. | | Deposit date: | 2023-08-13 | | Release date: | 2024-05-29 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.26 Å) | | Cite: | Proton-coupled transport mechanism of the efflux pump NorA.
Nat Commun, 15, 2024
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8TTG
 | | NorA single mutant - E222Q at pH 7.5 | | Descriptor: | FabDA1 CDRH3 loop, Quinolone resistance protein NorA | | Authors: | Li, J.P, Li, Y, Koide, A, Kuang, H.H, Torres, V.J, Koide, S, Wang, D.N, Traaseth, N.J. | | Deposit date: | 2023-08-13 | | Release date: | 2024-05-29 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.35 Å) | | Cite: | Proton-coupled transport mechanism of the efflux pump NorA.
Nat Commun, 15, 2024
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6WW5
 | | Structure of VcINDY-Na-Fab84 in nanodisc | | Descriptor: | 1,2-DIHEXANOYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE, DASS family sodium-coupled anion symporter, Fab84 Heavy Chain, ... | | Authors: | Sauer, D.B, Marden, J, Song, J.M, Koide, A, Koide, S, Wang, D.N. | | Deposit date: | 2020-05-07 | | Release date: | 2020-09-16 | | Method: | ELECTRON MICROSCOPY (3.15 Å) | | Cite: | Structural basis for the reaction cycle of DASS dicarboxylate transporters.
Elife, 9, 2020
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7JXU
 | | Structure of monobody 32 human MLKL pseudokinase domain complex | | Descriptor: | 1,2-ETHANEDIOL, Mixed lineage kinase domain-like protein, Monobody 32 | | Authors: | Meng, Y, Garnish, S.E, Koide, A, Koide, S, Czabotar, P.E, Murphy, J.M. | | Deposit date: | 2020-08-28 | | Release date: | 2021-03-10 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.44 Å) | | Cite: | Conformational interconversion of MLKL and disengagement from RIPK3 precede cell death by necroptosis.
Nat Commun, 12, 2021
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7KZX
 | | Cryo-EM structure of YiiP-Fab complex in Apo state | | Descriptor: | Cadmium and zinc efflux pump FieF, Fab2R heavy chain, Fab2R light chain | | Authors: | Lopez-Redondo, M.L, Fan, S, Koide, A, Koide, S, Beckstein, O, Stokes, D.L. | | Deposit date: | 2020-12-10 | | Release date: | 2021-01-06 | | Last modified: | 2021-07-28 | | Method: | ELECTRON MICROSCOPY (4 Å) | | Cite: | Zinc binding alters the conformational dynamics and drives the transport cycle of the cation diffusion facilitator YiiP.
J.Gen.Physiol., 153, 2021
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7KZZ
 | | Cryo-EM structure of YiiP-Fab complex in Holo state | | Descriptor: | Cadmium and zinc efflux pump FieF, Fab2R heavy chain, Fab2R light chain, ... | | Authors: | Lopez-Redondo, M.L, Fan, S, Koide, A, Koide, S, Beckstein, O, Stokes, D.L. | | Deposit date: | 2020-12-10 | | Release date: | 2021-01-06 | | Last modified: | 2021-07-28 | | Method: | ELECTRON MICROSCOPY (3.42 Å) | | Cite: | Zinc binding alters the conformational dynamics and drives the transport cycle of the cation diffusion facilitator YiiP.
J.Gen.Physiol., 153, 2021
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5G15
 | | Structure Aurora A (122-403) bound to activating monobody Mb1 and AMPPCP | | Descriptor: | AURORA A KINASE, MAGNESIUM ION, MB1 MONOBODY, ... | | Authors: | Zorba, A, Kutter, S, Kern, D, Koide, S, Koide, A. | | Deposit date: | 2016-03-23 | | Release date: | 2018-03-14 | | Last modified: | 2024-01-10 | | Method: | X-RAY DIFFRACTION (2.06 Å) | | Cite: | Allosteric modulation of a human protein kinase with monobodies.
Proc.Natl.Acad.Sci.USA, 116, 2019
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7JW7
 | | Structure of monobody 27 human MLKL pseudokinase domain complex | | Descriptor: | Mixed lineage kinase domain-like protein, Monobody 27 | | Authors: | Meng, Y, Garnish, S.E, Koide, A, Koide, S, Czabotar, P.E, Murphy, J.M. | | Deposit date: | 2020-08-25 | | Release date: | 2021-03-10 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.63 Å) | | Cite: | Conformational interconversion of MLKL and disengagement from RIPK3 precede cell death by necroptosis.
Nat Commun, 12, 2021
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5CWU
 | | Crystal structure of Chaetomium thermophilum Nup188 TAIL domain | | Descriptor: | GLYCEROL, Nucleoporin NUP188 | | Authors: | Stuwe, T, Bley, C.J, Thierbach, K, Petrovic, S, Schilbach, S, Mayo, D.J, Perriches, T, Rundlet, E.J, Jeon, Y.E, Collins, L.N, Lin, D.H, Paduch, M, Koide, A, Lu, V, Fischer, J, Hurt, E, Koide, S, Kossiakoff, A.A, Hoelz, A. | | Deposit date: | 2015-07-28 | | Release date: | 2015-09-16 | | Last modified: | 2019-12-25 | | Method: | X-RAY DIFFRACTION (3.35 Å) | | Cite: | Architecture of the fungal nuclear pore inner ring complex.
Science, 350, 2015
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5CWV
 | | Crystal structure of Chaetomium thermophilum Nup192 TAIL domain | | Descriptor: | Nucleoporin NUP192 | | Authors: | Stuwe, T, Bley, C.J, Thierbach, K, Petrovic, S, Schilbach, S, Mayo, D.J, Perriches, T, Rundlet, E.J, Jeon, Y.E, Collins, L.N, Lin, D.H, Paduch, M, Koide, A, Lu, V, Fischer, J, Hurt, E, Koide, S, Kossiakoff, A.A, Hoelz, A. | | Deposit date: | 2015-07-28 | | Release date: | 2015-09-16 | | Last modified: | 2019-12-25 | | Method: | X-RAY DIFFRACTION (3.155 Å) | | Cite: | Architecture of the fungal nuclear pore inner ring complex.
Science, 350, 2015
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5E95
 | | Crystal Structure of Mb(NS1)/H-Ras Complex | | Descriptor: | GTPase HRas, GUANOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, ... | | Authors: | Eguchi, R.R, Sha, F, Gupta, A, Koide, A, Koide, S. | | Deposit date: | 2015-10-14 | | Release date: | 2016-11-02 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (1.402 Å) | | Cite: | Inhibition of RAS function through targeting an allosteric regulatory site.
Nat. Chem. Biol., 13, 2017
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5DC9
 | | CRYSTAL STRUCTURE OF MONOBODY AS25/ABL1 SH2 DOMAIN COMPLEX, CRYSTAL B | | Descriptor: | AS25 monobody, GLYCEROL, IMIDAZOLE, ... | | Authors: | Wojcik, J.B, Koide, A, Koide, S. | | Deposit date: | 2015-08-23 | | Release date: | 2016-03-02 | | Last modified: | 2024-03-06 | | Method: | X-RAY DIFFRACTION (1.56 Å) | | Cite: | Allosteric Inhibition of Bcr-Abl Kinase by High Affinity Monobody Inhibitors Directed to the Src Homology 2 (SH2)-Kinase Interface.
J.Biol.Chem., 291, 2016
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7LO8
 | | NorA in complex with Fab36 | | Descriptor: | Fab36 Heavy Chain, Fab36 Light Chain, Quinolone resistance protein NorA | | Authors: | Brawley, D.N, Sauer, D.B, Song, J.M, Koide, A, Koide, S, Traaseth, N.J, Wang, D.N. | | Deposit date: | 2021-02-09 | | Release date: | 2022-04-20 | | Last modified: | 2022-07-13 | | Method: | ELECTRON MICROSCOPY (3.16 Å) | | Cite: | Structural basis for inhibition of the drug efflux pump NorA from Staphylococcus aureus.
Nat.Chem.Biol., 18, 2022
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