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1HBH
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BU of 1hbh by Molmil
STRUCTURE OF DEOXYHAEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA BERNACCHII AND STRUCTURAL BASIS OF THE ROOT EFFECT
Descriptor: HEMOGLOBIN (DEOXY) (ALPHA CHAIN), HEMOGLOBIN (DEOXY) (BETA CHAIN), PROTOPORPHYRIN IX CONTAINING FE
Authors:Ito, N, Komiyama, N.H, Fermi, G.
Deposit date:1995-02-22
Release date:1995-04-20
Last modified:2019-08-14
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structure of deoxyhaemoglobin of the antarctic fish Pagothenia bernacchii with an analysis of the structural basis of the root effect by comparison of the liganded and unliganded haemoglobin structures.
J.Mol.Biol., 250, 1995
1V33
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BU of 1v33 by Molmil
Crystal structure of DNA primase from Pyrococcus horikoshii
Descriptor: DNA primase small subunit, PHOSPHATE ION, ZINC ION
Authors:Ito, N, Nureki, O, Shirouzu, M, Yokoyama, S, Hanaoka, F, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2003-10-25
Release date:2004-03-23
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal structure of the Pyrococcus horikoshii DNA primase-UTP complex: implications for the mechanism of primer synthesis.
Genes Cells, 8, 2003
1V34
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BU of 1v34 by Molmil
Crystal structure of Pyrococcus horikoshii DNA primase-UTP complex
Descriptor: DNA primase small subunit, URIDINE 5'-TRIPHOSPHATE, ZINC ION
Authors:Ito, N, Nureki, O, Shirouzu, M, Yokoyama, S, Hanaoka, F, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2003-10-25
Release date:2004-03-23
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Crystal structure of the Pyrococcus horikoshii DNA primase-UTP complex: implications for the mechanism of primer synthesis.
Genes Cells, 8, 2003
1GOH
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BU of 1goh by Molmil
NOVEL THIOETHER BOND REVEALED BY A 1.7 ANGSTROMS CRYSTAL STRUCTURE OF GALACTOSE OXIDASE
Descriptor: GALACTOSE OXIDASE, SODIUM ION
Authors:Ito, N, Phillips, S.E.V, Knowles, P.F.
Deposit date:1993-09-30
Release date:1994-01-31
Last modified:2023-07-26
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Novel thioether bond revealed by a 1.7 A crystal structure of galactose oxidase.
Nature, 350, 1991
1GOG
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BU of 1gog by Molmil
NOVEL THIOETHER BOND REVEALED BY A 1.7 ANGSTROMS CRYSTAL STRUCTURE OF GALACTOSE OXIDASE
Descriptor: COPPER (II) ION, GALACTOSE OXIDASE, SODIUM ION
Authors:Ito, N, Phillips, S.E.V, Knowles, P.F.
Deposit date:1993-09-30
Release date:1994-01-31
Last modified:2023-07-26
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Novel thioether bond revealed by a 1.7 A crystal structure of galactose oxidase.
Nature, 350, 1991
1GOF
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BU of 1gof by Molmil
NOVEL THIOETHER BOND REVEALED BY A 1.7 ANGSTROMS CRYSTAL STRUCTURE OF GALACTOSE OXIDASE
Descriptor: ACETIC ACID, COPPER (II) ION, GALACTOSE OXIDASE, ...
Authors:Ito, N, Phillips, S.E.V, Knowles, P.F.
Deposit date:1993-09-30
Release date:1994-01-31
Last modified:2023-07-26
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Novel thioether bond revealed by a 1.7 A crystal structure of galactose oxidase.
Nature, 350, 1991
2Z8H
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BU of 2z8h by Molmil
Structure of mouse Bach1 BTB domain
Descriptor: Transcription regulator protein BACH1
Authors:Ito, N, Murayama, K.
Deposit date:2007-09-05
Release date:2008-09-09
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structure of mouse Bach1 BTB domain
To be Published
2DLA
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BU of 2dla by Molmil
Primase large subunit amino terminal domain from Pyrococcus horikoshii
Descriptor: 397aa long hypothetical protein
Authors:Ito, N.
Deposit date:2006-04-17
Release date:2007-02-27
Last modified:2024-04-03
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Molecular basis for the subunit assembly of the primase from an archaeon Pyrococcus horikoshii
Febs J., 274, 2007
3VYC
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BU of 3vyc by Molmil
Crystal structure of unliganded Saccharomyces cerevisiae CRM1 (Xpo1p)
Descriptor: Exportin-1
Authors:Saito, N, Matsuura, Y.
Deposit date:2012-09-22
Release date:2012-11-28
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:A 2.1- angstrom -resolution crystal structure of unliganded CRM1 reveals the mechanism of autoinhibition
J.Mol.Biol., 425, 2013
5XQW
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BU of 5xqw by Molmil
Catalytic antibody 7B9
Descriptor: Fab fragment of catalytic antibody 7B9, heavy chain, light chain, ...
Authors:Ito, N, Fujii, I, Tsumuraya, T.
Deposit date:2017-06-07
Release date:2018-04-18
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural basis of the broad substrate tolerance of the antibody 7B9-catalyzed hydrolysis of p-nitrobenzyl esters.
Bioorg. Med. Chem., 26, 2018
7D4C
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BU of 7d4c by Molmil
Structure of L-lysine oxidase precursor
Descriptor: FLAVIN-ADENINE DINUCLEOTIDE, L-Lysine alpha-oxidase, PHOSPHATE ION
Authors:Ito, N, Kitagawa, M, Matsumoto, Y, Inagaki, K, Imada, K.
Deposit date:2020-09-23
Release date:2021-02-10
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.97 Å)
Cite:Structural basis of enzyme activity regulation by the propeptide of l-lysine alpha-oxidase precursor from Trichoderma viride .
J Struct Biol X, 5, 2021
7E0D
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BU of 7e0d by Molmil
Structure of L-glutamate oxidase R305E mutant in complex with L-arginine
Descriptor: ARGININE, FLAVIN-ADENINE DINUCLEOTIDE, L-glutamate oxidase
Authors:Ito, N, Matsuo, S, Inagaki, K, Imada, K.
Deposit date:2021-01-27
Release date:2021-04-07
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:A new l-arginine oxidase engineered from l-glutamate oxidase.
Protein Sci., 30, 2021
7E0C
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BU of 7e0c by Molmil
Structure of L-glutamate oxidase R305E mutant
Descriptor: FLAVIN-ADENINE DINUCLEOTIDE, L-glutamate oxidase
Authors:Ito, N, Matsuo, S, Inagaki, K, Imada, K.
Deposit date:2021-01-27
Release date:2021-04-07
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:A new l-arginine oxidase engineered from l-glutamate oxidase.
Protein Sci., 30, 2021
4WUA
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BU of 4wua by Molmil
Crystal structure of human SRPK1 complexed to an inhibitor SRPIN340
Descriptor: CITRIC ACID, N-[2-(1-piperidinyl)-5-(trifluoromethyl)phenyl]-4-pyridinecarboxamide, SRSF protein kinase 1, ...
Authors:Hoshina, M, Ikura, T, Hosoya, T, Hagiwara, M, Ito, N.
Deposit date:2014-10-31
Release date:2015-09-16
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2 Å)
Cite:Identification of a Dual Inhibitor of SRPK1 and CK2 That Attenuates Pathological Angiogenesis of Macular Degeneration in Mice
Mol.Pharmacol., 88, 2015
4X42
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BU of 4x42 by Molmil
Crystal structure of DEN4 ED3 mutant with epitope two residues substituted from DEN3 ED3
Descriptor: Envelope protein E, SULFATE ION
Authors:Kulkarni, M.R, Islam, M.M, Numoto, N, Elahi, M.M, Ito, N, Kuroda, Y.
Deposit date:2014-12-02
Release date:2015-09-09
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.78 Å)
Cite:Structural and biophysical analysis of sero-specific immune responses using epitope grafted Dengue ED3 mutants.
Biochim.Biophys.Acta, 1854, 2015
6ICH
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BU of 6ich by Molmil
Grb2 SH2 domain in domain swapped dimer form
Descriptor: Growth factor receptor-bound protein 2
Authors:Hosoe, Y, Numoto, N, Inaba, S, Ogawa, S, Morii, H, Abe, R, Ito, N, Oda, M.
Deposit date:2018-09-06
Release date:2019-07-17
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural and functional properties of Grb2 SH2 dimer in CD28 binding.
Biophys Physicobio., 16, 2019
6ICG
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BU of 6icg by Molmil
Grb2 SH2 domain in phosphopeptide free form
Descriptor: GLYCEROL, Growth factor receptor-bound protein 2, SULFATE ION
Authors:Hosoe, Y, Numoto, N, Inaba, S, Ogawa, S, Morii, H, Abe, R, Ito, N, Oda, M.
Deposit date:2018-09-06
Release date:2019-07-17
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.15 Å)
Cite:Structural and functional properties of Grb2 SH2 dimer in CD28 binding.
Biophys Physicobio., 16, 2019
1URN
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BU of 1urn by Molmil
U1A MUTANT/RNA COMPLEX + GLYCEROL
Descriptor: CHLORIDE ION, GLYCEROL, PROTEIN (U1A), ...
Authors:Oubridge, C, Ito, N, Evans, P.R, Teo, C.-H, Nagai, K.
Deposit date:1995-01-04
Release date:1996-03-08
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (1.92 Å)
Cite:Crystal structure at 1.92 A resolution of the RNA-binding domain of the U1A spliceosomal protein complexed with an RNA hairpin.
Nature, 372, 1994
5GJH
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BU of 5gjh by Molmil
Gads SH2 domain/CD28-derived peptide complex
Descriptor: GRB2-related adapter protein 2, T-cell-specific surface glycoprotein CD28
Authors:Inaba, S, Numoto, N, Morii, H, Ogawa, S, Ikura, T, Abe, R, Ito, N, Oda, M.
Deposit date:2016-06-30
Release date:2016-12-14
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (1.2 Å)
Cite:Crystal Structures and Thermodynamic Analysis Reveal Distinct Mechanisms of CD28 Phosphopeptide Binding to the Src Homology 2 (SH2) Domains of Three Adaptor Proteins
J. Biol. Chem., 292, 2017
1X1U
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BU of 1x1u by Molmil
Water-mediate interaction at aprotein-protein interface
Descriptor: Barstar, Ribonuclease
Authors:Ikura, T, Urakubo, Y, Ito, N.
Deposit date:2005-04-13
Release date:2005-04-26
Last modified:2024-05-29
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Water-mediated interaction at a protein-protein interface
Chem.Phys., 307, 2004
1X1Y
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BU of 1x1y by Molmil
Water-mediate interaction at aprotein-protein interface
Descriptor: Barstar, Ribonuclease
Authors:Ikura, T, Urakubo, Y, Ito, N.
Deposit date:2005-04-15
Release date:2005-04-26
Last modified:2024-05-29
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Water-mediated interaction at a protein-protein interface
Chem.Phys., 307, 2004
1X1X
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BU of 1x1x by Molmil
Water-mediate interaction at aprotein-protein interface
Descriptor: Barstar, Ribonuclease
Authors:Ikura, T, Urakubo, Y, Ito, N.
Deposit date:2005-04-15
Release date:2005-04-26
Last modified:2024-05-29
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Water-mediated interaction at a protein-protein interface
Chem.Phys., 307, 2004
1X1W
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BU of 1x1w by Molmil
Water-mediate interaction at aprotein-protein interface
Descriptor: Barstar, Ribonuclease
Authors:Ikura, T, Urakubo, Y, Ito, N.
Deposit date:2005-04-14
Release date:2005-04-26
Last modified:2024-05-29
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Water-mediated interaction at a protein-protein interface
Chem.Phys., 307, 2004
5GJI
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BU of 5gji by Molmil
PI3K p85 N-terminal SH2 domain/CD28-derived peptide complex
Descriptor: GLYCEROL, Phosphatidylinositol 3-kinase regulatory subunit alpha, SULFATE ION, ...
Authors:Inaba, S, Numoto, N, Morii, H, Ogawa, S, Ikura, T, Abe, R, Ito, N, Oda, M.
Deposit date:2016-06-30
Release date:2016-12-14
Last modified:2017-05-10
Method:X-RAY DIFFRACTION (0.9 Å)
Cite:Crystal Structures and Thermodynamic Analysis Reveal Distinct Mechanisms of CD28 Phosphopeptide Binding to the Src Homology 2 (SH2) Domains of Three Adaptor Proteins
J. Biol. Chem., 292, 2017
8YTN
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BU of 8ytn by Molmil
Single-chain Fv antibody of E11
Descriptor: GLYCEROL, Single-chain Fv antibody of E11
Authors:Yoshida, M, Hanazono, Y, Numoto, N, Ito, N, Oda, M.
Deposit date:2024-03-26
Release date:2024-07-03
Last modified:2024-07-10
Method:X-RAY DIFFRACTION (1.72 Å)
Cite:Affinity-matured antibody with a disulfide bond in H-CDR3 loop.
Arch.Biochem.Biophys., 758, 2024

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