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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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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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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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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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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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: | 2015-09-30 | | 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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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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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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6D0N
 | | Crystal structure of a CLC-type fluoride/proton antiporter, V319G mutant | | Descriptor: | (CARBAMOYLMETHYL-CARBOXYMETHYL-AMINO)-ACETIC ACID, CLC-type fluoride/proton antiporter, DECYL-BETA-D-MALTOPYRANOSIDE, ... | | Authors: | Last, N.B, Stockbridge, R.B, Wilson, A.E, Shane, T, Kolmakova-Partensky, L, Koide, A, Koide, S, Miller, C. | | Deposit date: | 2018-04-10 | | Release date: | 2018-07-04 | | Last modified: | 2023-10-04 | | Method: | X-RAY DIFFRACTION (3.12 Å) | | Cite: | A CLC-type F-/H+antiporter in ion-swapped conformations.
Nat. Struct. Mol. Biol., 25, 2018
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6D0K
 | | Crystal structure of a CLC-type fluoride/proton antiporter, E118Q mutant | | Descriptor: | (CARBAMOYLMETHYL-CARBOXYMETHYL-AMINO)-ACETIC ACID, CLC-type fluoride/proton antiporter, DECYL-BETA-D-MALTOPYRANOSIDE, ... | | Authors: | Last, N.B, Stockbridge, R.B, Wilson, A.E, Shane, T, Kolmakova-Partensky, L, Koide, A, Koide, S, Miller, C. | | Deposit date: | 2018-04-10 | | Release date: | 2018-07-04 | | Last modified: | 2023-10-04 | | Method: | X-RAY DIFFRACTION (3.35 Å) | | Cite: | A CLC-type F-/H+antiporter in ion-swapped conformations.
Nat. Struct. Mol. Biol., 25, 2018
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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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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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6D0J
 | | Crystal structure of a CLC-type fluoride/proton antiporter | | Descriptor: | (CARBAMOYLMETHYL-CARBOXYMETHYL-AMINO)-ACETIC ACID, CLC-type fluoride/proton antiporter, DECYL-BETA-D-MALTOPYRANOSIDE, ... | | Authors: | Last, N.B, Stockbridge, R.B, Wilson, A.E, Shane, T, Kolmakova-Partensky, L, Koide, A, Koide, S, Miller, C. | | Deposit date: | 2018-04-10 | | Release date: | 2018-07-04 | | Last modified: | 2023-10-04 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | A CLC-type F-/H+antiporter in ion-swapped conformations.
Nat. Struct. Mol. Biol., 25, 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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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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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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3UYO
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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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5MTN
 | | Monobody Mb(Lck_1) bound to Lck-Sh2 | | Descriptor: | Monobody Mb(Lck_1), SULFATE ION, Tyrosine-protein kinase Lck | | Authors: | Pojer, F, Kukenshoner, T, Koide, S, Hantschel, O. | | Deposit date: | 2017-01-10 | | Release date: | 2017-04-05 | | Last modified: | 2019-10-16 | | Method: | X-RAY DIFFRACTION (2.85 Å) | | Cite: | Selective Targeting of SH2 Domain-Phosphotyrosine Interactions of Src Family Tyrosine Kinases with Monobodies.
J. Mol. Biol., 429, 2017
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5MTJ
 | | Yes1-SH2 in complex with monobody Mb(Yes_1) | | Descriptor: | 3-CYCLOHEXYL-1-PROPYLSULFONIC ACID, Monobody Mb(Yes_1), SULFATE ION, ... | | Authors: | Sha, F, Kukenshoner, T, Koide, S, Hantschel, O. | | Deposit date: | 2017-01-09 | | Release date: | 2017-04-05 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (1.949 Å) | | Cite: | Selective Targeting of SH2 Domain-Phosphotyrosine Interactions of Src Family Tyrosine Kinases with Monobodies.
J. Mol. Biol., 429, 2017
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5MTM
 | | Monobody Mb(Lck_3) bound to Lck-SH2 domain | | Descriptor: | Monobody Mb(Lck_3), Tyrosine-protein kinase Lck, ZINC ION | | Authors: | Pojer, F, Kukenshoner, T, Koide, S, Hantschel, O. | | Deposit date: | 2017-01-10 | | Release date: | 2017-04-05 | | Last modified: | 2019-10-16 | | Method: | X-RAY DIFFRACTION (2.405 Å) | | Cite: | Selective Targeting of SH2 Domain-Phosphotyrosine Interactions of Src Family Tyrosine Kinases with Monobodies.
J. Mol. Biol., 429, 2017
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4YHZ
 | | Crystal structure of 304M3-B Fab in complex with H3K4me3 peptide | | Descriptor: | Fab Heavy Chain, Fab Light Chain, GLYCEROL, ... | | Authors: | Hattori, T, Dementieva, I.S, Montano, S.P, Koide, S. | | Deposit date: | 2015-02-27 | | Release date: | 2016-02-10 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (2.304 Å) | | Cite: | Antigen clasping by two antigen-binding sites of an exceptionally specific antibody for histone methylation.
Proc.Natl.Acad.Sci.USA, 113, 2016
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4YHY
 | | Crystal structure of 309M3-B in complex with trimethylated Lys | | Descriptor: | Fab Heavy Chain, Fab Light Chain, N-TRIMETHYLLYSINE | | Authors: | Hattori, T, Dementieva, I.S, Montano, S.P, Koide, S. | | Deposit date: | 2015-02-27 | | Release date: | 2016-02-10 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Antigen clasping by two antigen-binding sites of an exceptionally specific antibody for histone methylation.
Proc.Natl.Acad.Sci.USA, 113, 2016
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