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7CD7
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BU of 7cd7 by Molmil
GFP-40/GFPuv complex, Form I
Descriptor: GFP-40, Green fluorescent protein
Authors:Yasui, N, Yamashita, A.
Deposit date:2020-06-18
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.704 Å)
Cite:A sweet protein monellin as a non-antibody scaffold for synthetic binding proteins.
J.Biochem., 169, 2021
7CD8
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BU of 7cd8 by Molmil
GFP-40/GFPuv complex, Form II
Descriptor: GFP-40, Green fluorescent protein
Authors:Yasui, N, Yamashita, A.
Deposit date:2020-06-18
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2 Å)
Cite:A sweet protein monellin as a non-antibody scaffold for synthetic binding proteins.
J.Biochem., 169, 2021
2E26
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BU of 2e26 by Molmil
Crystal structure of two repeat fragment of reelin
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ACETATE ION, ...
Authors:Yasui, N, Nogi, T, Kitao, T, Takagi, J.
Deposit date:2006-11-08
Release date:2007-05-22
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structure of a receptor-binding fragment of reelin and mutational analysis reveal a recognition mechanism similar to endocytic receptors.
Proc.Natl.Acad.Sci.Usa, 104, 2007
3A7Q
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BU of 3a7q by Molmil
Structural basis for specific recognition of reelin by its receptors
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, ...
Authors:Yasui, N, Nogi, T, Takagi, J.
Deposit date:2009-10-01
Release date:2010-03-23
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structural Basis for Specific Recognition of Reelin by Its Receptors
Structure, 18, 2010
4JMH
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BU of 4jmh by Molmil
Crystal structure of synthetic protein in complex with double pY peptide
Descriptor: Clamp Shc1_pY239/240, SHC-transforming protein 1
Authors:Yasui, N, Smith, L, Koide, S.
Deposit date:2013-03-14
Release date:2014-04-23
Last modified:2023-12-06
Method:X-RAY DIFFRACTION (2.408 Å)
Cite:Directed network wiring identifies a key protein interaction in embryonic stem cell differentiation.
Mol.Cell, 54, 2014
4JMG
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BU of 4jmg by Molmil
Crystal structure of the synthetic protein in complex with pY peptide
Descriptor: Clamp Ptpn11_pY580, MAGNESIUM ION, Tyrosine-protein phosphatase non-receptor type 11
Authors:Yasui, N, Smith, L, Koide, S.
Deposit date:2013-03-14
Release date:2014-04-23
Last modified:2014-08-06
Method:X-RAY DIFFRACTION (1.403 Å)
Cite:Directed network wiring identifies a key protein interaction in embryonic stem cell differentiation.
Mol.Cell, 54, 2014
8JZ0
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BU of 8jz0 by Molmil
Crystal structure of a single-chain monellin mutant C41A
Descriptor: Monellin chain B,Monellin chain A
Authors:Yasui, N, Ohnuma, K, Yamashita, A.
Deposit date:2023-07-04
Release date:2023-10-11
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.229 Å)
Cite:Investigating the Effect of Substituting a Single Cysteine Residue on the Thermal Stability of an Engineered Sweet Protein, Single-Chain Monellin.
Protein J., 42, 2023
8JZ1
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BU of 8jz1 by Molmil
Crystal structure of a single-chain monellin mutant C41V
Descriptor: Monellin chain B,Monellin chain A
Authors:Yasui, N, Ohnuma, K, Yamashita, A.
Deposit date:2023-07-04
Release date:2023-10-11
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.239 Å)
Cite:Investigating the Effect of Substituting a Single Cysteine Residue on the Thermal Stability of an Engineered Sweet Protein, Single-Chain Monellin.
Protein J., 42, 2023
5B4X
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BU of 5b4x by Molmil
Crystal structure of the ApoER2 ectodomain in complex with the Reelin R56 fragment
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, Low density lipoprotein receptor-related protein 8, ...
Authors:Yasui, N, Hirai, H, Yamashita, K, Takagi, J, Nogi, T.
Deposit date:2016-04-20
Release date:2017-04-26
Last modified:2020-07-29
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Crystal structure of the ectodomain from a LDLR close homologue in complex with its physiological ligand.
To Be Published
3AFC
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BU of 3afc by Molmil
Mouse Semaphorin 6A extracellular domain
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Semaphorin-6A
Authors:Yasui, N, Nogi, T, Mihara, E, Takagi, J.
Deposit date:2010-02-26
Release date:2010-10-06
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structural basis for semaphorin signalling through the plexin receptor.
Nature, 467, 2010
6IR7
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BU of 6ir7 by Molmil
Green fluorescent protein variant GFPuv with the modification to 6-hydroxynorleucine at the C-terminus
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 6-HYDROXY-L-NORLEUCINE, Green fluorescent protein, ...
Authors:Nakatani, T, Yasui, N, Yamashita, A.
Deposit date:2018-11-12
Release date:2019-04-03
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.277 Å)
Cite:Specific modification at the C-terminal lysine residue of the green fluorescent protein variant, GFPuv, expressed in Escherichia coli.
Sci Rep, 9, 2019
6IR6
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BU of 6ir6 by Molmil
Green fluorescent protein variant GFPuv with the native lysine residue at the C-terminus
Descriptor: Green fluorescent protein, SULFATE ION
Authors:Nakatani, T, Yasui, N, Yamashita, A.
Deposit date:2018-11-12
Release date:2019-04-03
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.642 Å)
Cite:Specific modification at the C-terminal lysine residue of the green fluorescent protein variant, GFPuv, expressed in Escherichia coli.
Sci Rep, 9, 2019
5B4Y
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BU of 5b4y by Molmil
Crystal structure of the LA12 fragment of ApoER2
Descriptor: CALCIUM ION, Low-density lipoprotein receptor-related protein 8
Authors:Nogi, T, Tabata, S, Hirai, H, Yasui, N, Takagi, J.
Deposit date:2016-04-20
Release date:2017-04-26
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal structure of the ectodomain from a LDLR close homologue in complex with its physiological ligand.
To Be Published
3AL8
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BU of 3al8 by Molmil
Plexin A2 / Semaphorin 6A complex
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-A2, ...
Authors:Nogi, T, Yasui, N, Mihara, E, Takagi, J.
Deposit date:2010-07-28
Release date:2010-10-06
Last modified:2020-07-29
Method:X-RAY DIFFRACTION (3.6 Å)
Cite:Structural basis for semaphorin signalling through the plexin receptor.
Nature, 467, 2010
3AL9
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BU of 3al9 by Molmil
Mouse Plexin A2 extracellular domain
Descriptor: 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-A2
Authors:Nogi, T, Yasui, N, Mihara, E, Takagi, J.
Deposit date:2010-07-28
Release date:2010-10-06
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Structural basis for semaphorin signalling through the plexin receptor.
Nature, 467, 2010
5X2M
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BU of 5x2m by Molmil
Crystal structure of the medaka fish taste receptor T1r2a-T1r3 ligand binding domains in complex with L-glutamine
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, CHLORIDE ION, ...
Authors:Nuemket, N, Yasui, N, Atsumi, N, Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.206 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017
5X2P
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BU of 5x2p by Molmil
Crystal structure of the medaka fish taste receptor T1r2a-T1r3 ligand binding domains in complex with L-glutamate
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, ...
Authors:Nuemket, N, Yasui, N, Atsumi, N, Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.608 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017
5X2N
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BU of 5x2n by Molmil
Crystal structure of the medaka fish taste receptor T1r2a-T1r3 ligand binding domains in complex with L-alanine
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, ALANINE, CHLORIDE ION, ...
Authors:Nuemket, N, Yasui, N, Atsumi, N, Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017
5X2Q
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BU of 5x2q by Molmil
Crystal structure of the medaka fish taste receptor T1r2a-T1r3 ligand binding domains in complex with glycine
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, ...
Authors:Nuemket, N, Yasui, N, Atsumi, N, Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017
5X2O
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BU of 5x2o by Molmil
Crystal structure of the medaka fish taste receptor T1r2a-T1r3 ligand binding domains in complex with L-arginine
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, ARGININE, CALCIUM ION, ...
Authors:Nuemket, N, Yasui, N, Atsumi, N, Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017
2DDU
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BU of 2ddu by Molmil
Crystal structure of the third repeat domain of reelin
Descriptor: CALCIUM ION, CHLORIDE ION, MAGNESIUM ION, ...
Authors:Nogi, T, Yasui, N, Takagi, J.
Deposit date:2006-02-03
Release date:2006-09-26
Last modified:2011-10-05
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Structure of a signaling-competent reelin fragment revealed by X-ray crystallography and electron tomography
Embo J., 25, 2006
3ASI
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BU of 3asi by Molmil
Alpha-Neurexin-1 ectodomain fragment; LNS5-EGF3-LNS6
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, Neurexin-1-alpha
Authors:Tanaka, H, Nogi, T, Yasui, N, Takagi, J.
Deposit date:2010-12-13
Release date:2011-04-13
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structural Basis for Variant-Specific Neuroligin-Binding by alpha-Neurexin
Plos One, 6, 2011
2ZOU
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BU of 2zou by Molmil
Crystal structure of human F-spondin reeler domain (fragment 2)
Descriptor: 1,2-ETHANEDIOL, Spondin-1
Authors:Nagae, M, Nogi, T, Takagi, J.
Deposit date:2008-06-07
Release date:2008-10-14
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:Structure of the F-spondin reeler domain reveals a unique beta-sandwich fold with a deformable disulfide-bonded loop
Acta Crystallogr.,Sect.D, 64, 2008
2ZOT
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BU of 2zot by Molmil
Crystal structure of human F-spondin reeler domain (fragment 1)
Descriptor: Spondin-1
Authors:Nagae, M, Nogi, T, Takagi, J.
Deposit date:2008-06-07
Release date:2008-10-14
Last modified:2016-12-21
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Structure of the F-spondin reeler domain reveals a unique beta-sandwich fold with a deformable disulfide-bonded loop
Acta Crystallogr.,Sect.D, 64, 2008
2ZPK
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BU of 2zpk by Molmil
Crystal structure of P20.1 Fab fragment in complex with its antigen peptide
Descriptor: GLYCEROL, IgG1-lambda P20.1 Fab (heavy chain), IgG1-lambda P20.1 Fab (light chain), ...
Authors:Nogi, T, Sanagawa, T, Takagi, J.
Deposit date:2008-07-16
Release date:2008-12-23
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Novel affinity tag system using structurally defined antibody-tag interaction: application to single-step protein purification
Protein Sci., 17, 2008

 

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