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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
2KIR
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BU of 2kir by Molmil
Solution structure of a designer toxin, mokatoxin-1
Descriptor: Designer toxin
Authors:Biancalana, M, Koide, A, Takacs, Z, Goldstein, S, Koide, S.
Deposit date:2009-05-07
Release date:2009-12-29
Last modified:2022-03-16
Method:SOLUTION NMR
Cite:A designer ligand specific for Kv1.3 channels from a scorpion neurotoxin-based library.
Proc.Natl.Acad.Sci.USA, 106, 2009
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
5KVM
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BU of 5kvm by Molmil
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
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
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
2FKJ
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BU of 2fkj by Molmil
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
8VRB
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BU of 8vrb by Molmil
Structure of a synthetic antibody in complex with a class I MHC presenting a hapten-peptide conjugate
Descriptor: AMG 510 (bound form), Beta-2-microglobulin, GTPase KRas, ...
Authors:Maso, L, Bang, I, Koide, S.
Deposit date:2024-01-20
Release date:2024-09-04
Method:ELECTRON MICROSCOPY (3.25 Å)
Cite:Molecular basis for antibody recognition of multiple drug-peptide/MHC complexes.
Proc.Natl.Acad.Sci.USA, 121, 2024
8VR9
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BU of 8vr9 by Molmil
Structure of a synthetic antibody in complex with a class I MHC presenting a hapten-peptide conjugate
Descriptor: AMG 510 (bound form), Beta-2-microglobulin, GTPase KRas, ...
Authors:Maso, L, Bang, I, Koide, S.
Deposit date:2024-01-20
Release date:2024-09-04
Method:ELECTRON MICROSCOPY (3.06 Å)
Cite:Molecular basis for antibody recognition of multiple drug-peptide/MHC complexes.
Proc.Natl.Acad.Sci.USA, 121, 2024
8VRA
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BU of 8vra by Molmil
Structure of a synthetic antibody in complex with a class I MHC presenting a hapten-peptide conjugate
Descriptor: AMG 510 (bound form), Beta-2-microglobulin, GTPase KRas, ...
Authors:Maso, L, Bang, I, Koide, S.
Deposit date:2024-01-20
Release date:2024-09-04
Method:ELECTRON MICROSCOPY (3.12 Å)
Cite:Molecular basis for antibody recognition of multiple drug-peptide/MHC complexes.
Proc.Natl.Acad.Sci.USA, 121, 2024
2QBW
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BU of 2qbw by Molmil
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
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
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
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:2024-05-08
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
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
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
5WOB
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BU of 5wob by Molmil
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
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
8TTF
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BU of 8ttf by Molmil
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
8TTH
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BU of 8tth by Molmil
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
8TTE
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BU of 8tte by Molmil
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
8TTG
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BU of 8ttg by Molmil
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
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

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PDB entries from 2024-09-18

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