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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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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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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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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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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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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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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3UYO
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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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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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3RZW
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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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4YHP
| Crystal structure of 309M3-B Fab in complex with H3K9me3 peptide | Descriptor: | Fab Heavy Chain, Fab Light Chain, H3K9me3 peptide | 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 (2.53 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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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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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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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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7L0F
| Monobody 12VC3 Bound to HRAS(WT) | Descriptor: | 5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE, GTPase HRas, MAGNESIUM ION, ... | Authors: | Teng, K.W, Hattori, T, Tsai, S, Koide, S. | Deposit date: | 2020-12-11 | Release date: | 2021-03-24 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (1.98 Å) | Cite: | Selective and noncovalent targeting of RAS mutants for inhibition and degradation. Nat Commun, 12, 2021
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