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7DCF
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BU of 7dcf by Molmil
Crystal structure of EHMT2 SET domain in complex with compound 10
Descriptor: 5'-methoxy-6'-(1-methyl-2,3,4,7-tetrahydroazepin-5-yl)spiro[cyclobutane-1,3'-indole]-2'-amine, Histone-lysine N-methyltransferase EHMT2, S-ADENOSYLMETHIONINE, ...
Authors:Suzuki, M, Katayama, K.
Deposit date:2020-10-26
Release date:2021-02-10
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Discovery of DS79932728: A Potent, Orally Available G9a/GLP Inhibitor for Treating beta-Thalassemia and Sickle Cell Disease.
Acs Med.Chem.Lett., 12, 2021
7CPK
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BU of 7cpk by Molmil
Xylanase R from Bacillus sp. TAR-1
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, CALCIUM ION, Endo-1,4-beta-xylanase A, ...
Authors:Kuwata, K, Suzuki, M, Takita, T, Nakatani, K, Li, T, Katano, Y, Kojima, K, Mizutani, K, Mikami, B, Yatsunami, R, Nakamura, S, Yasukawa, K.
Deposit date:2020-08-07
Release date:2020-09-02
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Insight into the mechanism of thermostabilization of GH10 xylanase from Bacillus sp. strain TAR-1 by the mutation of S92 to E.
Biosci.Biotechnol.Biochem., 85, 2021
7CPL
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BU of 7cpl by Molmil
Xylanase R from Bacillus sp. TAR-1
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, CALCIUM ION, Endo-1,4-beta-xylanase A, ...
Authors:Kuwata, K, Suzuki, M, Takita, T, Nakatani, K, Li, T, Katano, Y, Kojima, K, Mizutani, K, Mikami, B, Yatsunami, R, Nakamura, S, Yasukawa, K.
Deposit date:2020-08-07
Release date:2020-09-02
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.52 Å)
Cite:Insight into the mechanism of thermostabilization of GH10 xylanase from Bacillus sp. strain TAR-1 by the mutation of S92 to E.
Biosci.Biotechnol.Biochem., 85, 2021
7C6B
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BU of 7c6b by Molmil
Crystal structure of Ago2 MID domain in complex with 6-(3-(2-carboxyethyl)phenyl)purine riboside monophosphate
Descriptor: 3-[3-[9-[(2R,3R,4S,5R)-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]purin-6-yl]phenyl]propanoic acid, PHOSPHATE ION, Protein argonaute-2
Authors:Suzuki, M, Takahashi, Y, Saito, J, Miyagi, H, Shinohara, F.
Deposit date:2020-05-21
Release date:2020-11-25
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:siRNA potency enhancement via chemical modifications of nucleotide bases at the 5'-end of the siRNA guide strand.
Rna, 27, 2021
7D7U
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BU of 7d7u by Molmil
Crystal structure of Ago2 MID domain in complex with 8-Br-adenosin-5'-monophosphate
Descriptor: 8-BROMO-ADENOSINE-5'-MONOPHOSPHATE, Protein argonaute-2
Authors:Suzuki, M, Takahashi, Y, Saito, J, Miyagi, H, Shinohara, F.
Deposit date:2020-10-06
Release date:2020-11-25
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2 Å)
Cite:siRNA potency enhancement via chemical modifications of nucleotide bases at the 5'-end of the siRNA guide strand.
Rna, 27, 2021
3V66
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BU of 3v66 by Molmil
HUMAN SQUALENE SYNTHASE IN COMPLEX WITH 2-(1-{2-[(4R,6S)-8-chloro-6-(2,3-dimethoxyphenyl)-4H,6H-pyrrolo[1,2-a][4,1]benzoxazepin-4-yl]acetyl}-4-piperidinyl)acetic acid
Descriptor: (1-{[(4R,6S)-8-chloro-6-(2,3-dimethoxyphenyl)-4H,6H-pyrrolo[1,2-a][4,1]benzoxazepin-4-yl]acetyl}piperidin-4-yl)acetic acid, PHOSPHATE ION, Squalene synthase
Authors:Suzuki, M, Ohtsuka, M, Ohki, H, Haginoya, N, Itoh, M, Sugita, K, Usui, H, Ichikawa, M, Higashihashi, N.
Deposit date:2011-12-18
Release date:2012-12-19
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Discovery of novel tricyclic compounds as squalene synthase inhibitors
Bioorg.Med.Chem., 20, 2012
3TK5
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BU of 3tk5 by Molmil
Factor Xa in complex with D102-4380
Descriptor: 4-{3-[(4-chlorophenyl)amino]-3-oxopropyl}-3-({[5-(propan-2-yl)-4,5,6,7-tetrahydro[1,3]thiazolo[5,4-c]pyridin-2-yl]carbonyl}amino)benzoic acid, CALCIUM ION, Factor X heavy chain, ...
Authors:Suzuki, M, Mochizuki, A, Nagata, T, Takano, H, Kanno, H, Kishida, M, Ohta, T.
Deposit date:2011-08-25
Release date:2012-08-29
Last modified:2017-11-08
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Zwitter ionic potent durable orally active Factor Xa inhibitor.
To be Published
3TK6
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BU of 3tk6 by Molmil
factor Xa in complex with D46-5241
Descriptor: CALCIUM ION, Factor X heavy chain, Factor X light chain, ...
Authors:Suzuki, M, Mochizuki, A, Nagata, T, Takano, H, Kanno, H, Kishida, M, Ohta, T.
Deposit date:2011-08-25
Release date:2012-08-29
Last modified:2017-11-08
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Zwitter ionic potent durable orally active Factor Xa inhibitor.
To be Published
3FI6
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BU of 3fi6 by Molmil
apo-H49AFr with high content of Pd ions
Descriptor: CADMIUM ION, Ferritin light chain, PALLADIUM ION, ...
Authors:Abe, M, Ueno, T, Hirata, K, Suzuki, M, Abe, S, Shimizu, N, Yamaoto, M, Takata, M, Watanabe, Y.
Deposit date:2008-12-11
Release date:2009-04-07
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Process of Accumulation of Metal Ions on the Interior Surface of apo-Ferritin: Crystal Structures of a Series of apo-Ferritins Containing Variable Quantities of Pd(II) Ions
J.Am.Chem.Soc., 131, 2009
1JWG
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BU of 1jwg by Molmil
VHS Domain of human GGA1 complexed with cation-independent M6PR C-terminal Peptide
Descriptor: ADP-ribosylation factor binding protein GGA1, Cation-independent mannose-6-phosphate receptor, IODIDE ION
Authors:Shiba, T, Takatsu, H, Nogi, T, Matsugaki, N, Kawasaki, M, Igarashi, N, Suzuki, M, Kato, R, Earnest, T, Nakayama, K, Wakatsuki, S.
Deposit date:2001-09-04
Release date:2002-03-06
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural basis for recognition of acidic-cluster dileucine sequence by GGA1.
Nature, 415, 2002
4W4Q
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BU of 4w4q by Molmil
Glucose isomerase structure determined by serial femtosecond crystallography at SACLA
Descriptor: CALCIUM ION, Xylose isomerase
Authors:Nango, E, Tanaka, T, Sugahara, M, Suzuki, M, Iwata, S.
Deposit date:2014-08-15
Release date:2014-11-05
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2 Å)
Cite:Grease matrix as a versatile carrier of proteins for serial crystallography
Nat.Methods, 12, 2015
3KLR
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BU of 3klr by Molmil
Bovine H-protein at 0.88 angstrom resolution
Descriptor: GLYCEROL, Glycine cleavage system H protein, SULFATE ION
Authors:Higashiura, A, Kurakane, T, Matsuda, M, Suzuki, M, Inaka, K, Sato, M, Tanaka, H, Fujiwara, K, Nakagawa, A.
Deposit date:2009-11-09
Release date:2010-06-09
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (0.88 Å)
Cite:High-resolution X-ray crystal structure of bovine H-protein at 0.88 A resolution
Acta Crystallogr.,Sect.D, 66, 2010
5GVO
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BU of 5gvo by Molmil
Solution NMR structure of a new lasso peptide sphaericin
Descriptor: Uncharacterized protein
Authors:Hemmi, H, Kodani, S, Inoue, Y, Suzuki, M, Dohra, H, Suzuki, T, Ohnishi-Kameyama, M.
Deposit date:2016-09-06
Release date:2017-04-05
Method:SOLUTION NMR
Cite:Sphaericin, a Lasso Peptide from the Rare Actinomycete Planomonospora sphaerica
Eur.J.Org.Chem., 2017
3GCC
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BU of 3gcc by Molmil
SOLUTION STRUCTURE OF THE GCC-BOX BINDING DOMAIN, NMR, 46 STRUCTURES
Descriptor: ATERF1
Authors:Allen, M.D, Yamasaki, K, Ohme-Takagi, M, Tateno, M, Suzuki, M.
Deposit date:1998-03-13
Release date:1999-03-23
Last modified:2024-05-22
Method:SOLUTION NMR
Cite:A novel mode of DNA recognition by a beta-sheet revealed by the solution structure of the GCC-box binding domain in complex with DNA.
EMBO J., 17, 1998
5KXU
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BU of 5kxu by Molmil
Structure Proteinase K determined by SACLA
Descriptor: CALCIUM ION, NITRATE ION, Proteinase K
Authors:Masuda, T, Suzuki, M, Inoue, S, Numata, K, Sugahara, M.
Deposit date:2016-07-20
Release date:2017-06-07
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.2 Å)
Cite:Atomic resolution structure of serine protease proteinase K at ambient temperature.
Sci Rep, 7, 2017
5KXV
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BU of 5kxv by Molmil
Structure Proteinase K at 0.98 Angstroms
Descriptor: CALCIUM ION, GLYCEROL, NITRATE ION, ...
Authors:Masuda, T, Suzuki, M, Inoue, S, Numata, K, Sugahara, M.
Deposit date:2016-07-20
Release date:2017-06-07
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (0.98 Å)
Cite:Atomic resolution structure of serine protease proteinase K at ambient temperature.
Sci Rep, 7, 2017
1SQJ
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BU of 1sqj by Molmil
Crystal Structure Analysis of Oligoxyloglucan reducing-end-specific cellobiohydrolase (OXG-RCBH)
Descriptor: oligoxyloglucan reducing-end-specific cellobiohydrolase
Authors:Yaoi, K, Kondo, H, Noro, N, Suzuki, M, Tsuda, S, Mitsuishi, Y.
Deposit date:2004-03-19
Release date:2004-07-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Tandem Repeat of a Seven-Bladed beta-Propeller Domain in Oligoxyloglucan Reducing-End-Specific Cellobiohydrolase
Structure, 12, 2004
1O3X
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BU of 1o3x by Molmil
Crystal structure of human GGA1 GAT domain
Descriptor: ADP-ribosylation factor binding protein GGA1
Authors:Shiba, T, Kawasaki, M, Takatsu, H, Nogi, T, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Nakayama, K, Wakatsuki, S.
Deposit date:2003-05-08
Release date:2003-05-20
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Molecular Mechanism of Membrane Recruitment of Gga by Arf in Lysosomal Protein Transport
Nat.Struct.Biol., 10, 2003
1O3Y
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BU of 1o3y by Molmil
Crystal structure of mouse ARF1 (delta17-Q71L), GTP form
Descriptor: ADP-ribosylation factor 1, GUANOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION
Authors:Shiba, T, Kawasaki, M, Takatsu, H, Nogi, T, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Nakayama, K, Wakatsuki, S.
Deposit date:2003-05-08
Release date:2003-05-20
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Molecular mechanism of membrane recruitment of GGA by ARF in lysosomal protein transport
Nat.Struct.Biol., 10, 2003
5Y5N
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BU of 5y5n by Molmil
Crystal structure of human Sirtuin 2 in complex with a selective inhibitor
Descriptor: 2-[[3-(2-phenylethoxy)phenyl]amino]benzamide, NAD-dependent protein deacetylase sirtuin-2, ZINC ION
Authors:Mellini, P, Itoh, Y, Tsumoto, H, Li, Y, Suzuki, M, Tokuda, N, Kakizawa, T, Miura, Y, Takeuchi, J, Lahtela-Kakkonen, M, Suzuki, T.
Deposit date:2017-08-09
Release date:2017-09-06
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Potent mechanism-based sirtuin-2-selective inhibition by anin situ-generated occupant of the substrate-binding site, "selectivity pocket" and NAD+-binding site.
Chem Sci, 8, 2017
2CZQ
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BU of 2czq by Molmil
A novel cutinase-like protein from Cryptococcus sp.
Descriptor: 1,2-ETHANEDIOL, CITRIC ACID, cutinase-like protein
Authors:Masaki, K, Kamini, N.R, Ikeda, H, Iefuji, H, Kondo, H, Suzuki, M, Tsuda, S.
Deposit date:2005-07-14
Release date:2006-07-14
Last modified:2012-06-13
Method:X-RAY DIFFRACTION (1.05 Å)
Cite:Crystal structure and enhanced activity of a cutinase-like enzyme from Cryptococcus sp. strain S-2
Proteins, 77, 2009
5SW0
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BU of 5sw0 by Molmil
Thaumatin Structure at pH 4.0
Descriptor: PHOSPHATE ION, Thaumatin I
Authors:Masuda, T, Okubo, K, Suzuki, M, Mikami, B.
Deposit date:2016-08-08
Release date:2017-08-09
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.269 Å)
Cite:Thaumatin Structure at pH 4.0
To Be Published
5SW1
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BU of 5sw1 by Molmil
Thaumatin Structure at pH 6.0
Descriptor: (CARBAMOYLMETHYL-CARBOXYMETHYL-AMINO)-ACETIC ACID, Thaumatin I
Authors:Masuda, T, Sano, A, Murata, K, Okubo, K, Suzuki, M, Mikami, B.
Deposit date:2016-08-08
Release date:2017-08-09
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.1 Å)
Cite:Thaumatin Structure at pH 6.0
To Be Published
5SW2
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BU of 5sw2 by Molmil
Thaumatin Structure at pH 6.0, orthorhombic type1
Descriptor: GLYCEROL, Thaumatin I
Authors:Masuda, T, Sano, A, Murata, K, Okubo, K, Suzuki, M, Mikami, B.
Deposit date:2016-08-08
Release date:2017-08-09
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.2 Å)
Cite:Thaumatin Structure at pH 6.0, orthorhombic type1
To Be Published
7CE4
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BU of 7ce4 by Molmil
Tankyrase2 catalytic domain in complex with K-476
Descriptor: 5-[3-[[1-(6,7-dimethoxyquinazolin-4-yl)piperidin-4-yl]methyl]-2-oxidanylidene-4H-quinazolin-1-yl]-2-fluoranyl-benzenecarbonitrile, Poly [ADP-ribose] polymerase tankyrase-2, SULFATE ION, ...
Authors:Takahashi, Y, Suzuki, M, Saito, J.
Deposit date:2020-06-22
Release date:2021-05-12
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:The dual pocket binding novel tankyrase inhibitor K-476 enhances the efficacy of immune checkpoint inhibitor by attracting CD8 + T cells to tumors.
Am J Cancer Res, 11, 2021

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