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3QHT
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BU of 3qht by Molmil
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
2AF5
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BU of 2af5 by Molmil
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
7TVJ
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BU of 7tvj by Molmil
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
8EZG
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BU of 8ezg by Molmil
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
8F0M
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BU of 8f0m by Molmil
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
5V7P
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BU of 5v7p by Molmil
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
5VG9
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BU of 5vg9 by Molmil
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
5A40
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BU of 5a40 by Molmil
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
5A43
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BU of 5a43 by Molmil
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
6D0N
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BU of 6d0n by Molmil
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
6D0K
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BU of 6d0k by Molmil
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
6D0J
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BU of 6d0j by Molmil
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
3T04
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BU of 3t04 by Molmil
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
3UYO
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BU of 3uyo by Molmil
Crystal structure of monobody SH13/ABL1 SH2 domain complex
Descriptor: Monobody SH13, SULFATE ION, Tyrosine-protein kinase ABL1
Authors:Wojcik, J.B, Koide, A, Koide, S.
Deposit date:2011-12-06
Release date:2011-12-28
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (1.83 Å)
Cite:Teaching an old scaffold new tricks: monobodies constructed using alternative surfaces of the FN3 scaffold.
J.Mol.Biol., 415, 2012
7KZX
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BU of 7kzx by Molmil
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
7KZZ
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BU of 7kzz by Molmil
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
7SFX
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BU of 7sfx by Molmil
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
3RZW
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BU of 3rzw by Molmil
Crystal Structure of the Monobody ySMB-9 bound to human SUMO1
Descriptor: GLYCEROL, Monobody ySMB-9, Small ubiquitin-related modifier 1
Authors:Gilbreth, R.N, Koide, S.
Deposit date:2011-05-12
Release date:2011-12-28
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Teaching an old scaffold new tricks: monobodies constructed using alternative surfaces of the FN3 scaffold.
J.Mol.Biol., 415, 2012
4YHZ
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BU of 4yhz by Molmil
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
4YHY
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BU of 4yhy by Molmil
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
4YHP
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BU of 4yhp by Molmil
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
5CWW
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BU of 5cww by Molmil
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
5CWV
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BU of 5cwv by Molmil
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
5CWU
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BU of 5cwu by Molmil
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
7L0F
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BU of 7l0f by Molmil
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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