3QHT
| Crystal Structure of the Monobody ySMB-1 bound to yeast SUMO | Descriptor: | GLYCEROL, Monobody ySMB-1, Ubiquitin-like protein SMT3 | Authors: | Koide, S, Gilbreth, R.N. | Deposit date: | 2011-01-26 | Release date: | 2011-05-11 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Isoform-specific monobody inhibitors of small ubiquitin-related modifiers engineered using structure-guided library design. Proc.Natl.Acad.Sci.USA, 108, 2011
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2QBW
| The crystal structure of PDZ-Fibronectin fusion protein | Descriptor: | PDZ-Fibronectin fusion protein, Polypeptide | Authors: | Huang, J, Makabe, K, Koide, A, Koide, S. | Deposit date: | 2007-06-18 | Release date: | 2008-04-22 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Design of protein function leaps by directed domain interface evolution. Proc.Natl.Acad.Sci.Usa, 105, 2008
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2R8S
| High resolution structure of a specific synthetic FAB bound to P4-P6 RNA ribozyme domain | Descriptor: | Fab heavy chain, Fab light chain, MAGNESIUM ION, ... | Authors: | Ye, J.D, Tereshko, V, Sidhu, S.S, Koide, S, Kossiakoff, A.A, Piccirilli, J.A. | Deposit date: | 2007-09-11 | Release date: | 2007-12-04 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (1.95 Å) | Cite: | Synthetic antibodies for specific recognition and crystallization of structured RNA Proc.Natl.Acad.Sci.Usa, 105, 2008
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7SFX
| 10A1 Fab in complex with CD99 peptide | Descriptor: | 10A1 Fab heavy chain, 10A1 Fab light chain, CD99 antigen peptide | Authors: | Romero, L.A, Hattori, T, Koide, S. | Deposit date: | 2021-10-04 | Release date: | 2021-12-29 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (3.1 Å) | Cite: | High-valency Anti-CD99 Antibodies Toward the Treatment of T Cell Acute Lymphoblastic Leukemia. J.Mol.Biol., 434, 2021
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5KVM
| Extracellular region of mouse GPR56/ADGRG1 in complex with FN3 monobody | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Adhesion G-protein coupled receptor G1, ... | Authors: | Salzman, G.S, Ding, C, Koide, S, Arac, D. | Deposit date: | 2016-07-14 | Release date: | 2016-09-28 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (2.449 Å) | Cite: | Structural Basis for Regulation of GPR56/ADGRG1 by Its Alternatively Spliced Extracellular Domains. Neuron, 91, 2016
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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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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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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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3UYO
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7TVJ
| Crystal Structure of Monobody Mb(SHP2PTP_13)/SHP2 PTP Domain Complex | Descriptor: | CITRATE ANION, Mb(SHP2PTP_13), Tyrosine-protein phosphatase non-receptor type 11 | Authors: | Sha, F, Koide, S. | Deposit date: | 2022-02-05 | Release date: | 2023-02-15 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.39 Å) | Cite: | Monobody Inhibitor Selective to the Phosphatase Domain of SHP2 and its Use as a Probe for Quantifying SHP2 Allosteric Regulation. J.Mol.Biol., 435, 2023
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2FKJ
| The crystal structure of engineered OspA | Descriptor: | Outer Surface Protein A | Authors: | Makabe, K, Terechko, V, Gawlak, G, Yan, S, Koide, S. | Deposit date: | 2006-01-04 | Release date: | 2006-11-21 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (3.1 Å) | Cite: | Atomic structures of peptide self-assembly mimics. Proc.Natl.Acad.Sci.Usa, 103, 2006
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2FKG
| The Crystal Structure of Engineered OspA | Descriptor: | Outer Surface Protein A | Authors: | Makabe, K, Terechko, V, Gawlak, G, Yan, S, Koide, S. | Deposit date: | 2006-01-04 | Release date: | 2006-11-21 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Atomic structures of peptide self-assembly mimics. Proc.Natl.Acad.Sci.Usa, 103, 2006
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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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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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5WOB
| Crystal Structure Analysis of Fab1-Bound Human Insulin Degrading Enzyme (IDE) in Complex with Insulin | Descriptor: | IDE-bound Fab heavy chain, IDE-bound Fab light chain, Insulin, ... | Authors: | McCord, L.A, Liang, W.G, Farcasanu, M, Wang, A.G, Koide, S, Tang, W.J. | Deposit date: | 2017-08-01 | Release date: | 2018-04-18 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (3.95 Å) | Cite: | Ensemble cryoEM elucidates the mechanism of insulin capture and degradation by human insulin degrading enzyme. Elife, 7, 2018
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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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7LO7
| NorA in complex with Fab25 | Descriptor: | Fab25 Heavy Chain, Fab25 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 (3.74 Å) | Cite: | Structural basis for inhibition of the drug efflux pump NorA from Staphylococcus aureus. Nat.Chem.Biol., 18, 2022
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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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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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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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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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3T04
| Crystal structure of monobody 7c12/abl1 sh2 domain complex | Descriptor: | GLYCEROL, MONOBODY 7C12, SULFATE ION, ... | Authors: | Wojcik, J.B, Wyrzucki, A.M, Koide, S. | Deposit date: | 2011-07-19 | Release date: | 2011-11-23 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Targeting the SH2-Kinase Interface in Bcr-Abl Inhibits Leukemogenesis. Cell(Cambridge,Mass.), 147, 2011
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4IOF
| Crystal structure analysis of Fab-bound human Insulin Degrading Enzyme (IDE) | Descriptor: | Fab-bound IDE, heavy chain, light chain, ... | Authors: | McCord, L.A, Liang, W.G, Hoey, R, Dowdell, E, Koide, A, Koide, S, Tang, W.J. | Deposit date: | 2013-01-07 | Release date: | 2013-07-24 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (3.353 Å) | Cite: | Conformational states and recognition of amyloidogenic peptides of human insulin-degrading enzyme. Proc.Natl.Acad.Sci.USA, 110, 2013
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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 | Method: | ELECTRON MICROSCOPY (3.54 Å) | Cite: | NorA single mutant - D307N at pH 7.5 To Be Published
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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 | Method: | ELECTRON MICROSCOPY (3.35 Å) | Cite: | NorA single mutant - E222Q at pH 7.5 To Be Published
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