6A87
 
 | | Pholiota squarrosa lectin (PhoSL) in complex with fucose(alpha1-6)GlcNAc | | Descriptor: | METHANETHIOL, alpha-L-fucopyranose, alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | Authors: | Yamasaki, K, Yamasaki, T, Kubota, T. | | Deposit date: | 2018-07-06 | | Release date: | 2019-04-10 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.41 Å) | | Cite: | Structural basis for specific recognition of core fucosylation in N-glycans by Pholiota squarrosa lectin (PhoSL).
Glycobiology, 29, 2019
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6ITD
 | | Crystal structure of BioU (K124A) from Synechocystis sp.PCC6803 in complex with the analog of reaction intermediate, 3-(1-aminoethyl)-nonanedioic acid | | Descriptor: | 3-(1-AMINOETHYL)NONANEDIOIC ACID, Slr0355 protein | | Authors: | Sakaki, K, Tomita, T, Kuzuyama, T, Nishiyama, M. | | Deposit date: | 2018-11-21 | | Release date: | 2020-01-15 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | A suicide enzyme catalyzes multiple reactions for biotin biosynthesis in cyanobacteria.
Nat.Chem.Biol., 16, 2020
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6K37
 | | Crystal structure of BioU (K124A) from Synechocystis sp.PCC6803 in complex with NAD+ and the analog of reaction intermediate, 3-(1-aminoethyl)-nonanedioic acid | | Descriptor: | (3R)-3-[(1R)-1-azanylethyl]nonanedioic acid, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, Slr0355 protein | | Authors: | Sakaki, K, Tomita, T, Nishiyama, M. | | Deposit date: | 2019-05-16 | | Release date: | 2020-02-26 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | A suicide enzyme catalyzes multiple reactions for biotin biosynthesis in cyanobacteria.
Nat.Chem.Biol., 16, 2020
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4JP8
 | | Crystal structure of Pro-F17H/S324A | | Descriptor: | CALCIUM ION, Tk-subtilisin | | Authors: | Yuzaki, K, You, D.J, Uehara, R, Koga, Y, Kanaya, S. | | Deposit date: | 2013-03-19 | | Release date: | 2014-01-29 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.21 Å) | | Cite: | Increase in activation rate of Pro-Tk-subtilisin by a single nonpolar-to-polar amino acid substitution at the hydrophobic core of the propeptide domain
Protein Sci., 22, 2013
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1CTO
 | | NMR STRUCTURE OF THE C-TERMINAL DOMAIN OF THE LIGAND-BINDING REGION OF MURINE GRANULOCYTE COLONY-STIMULATING FACTOR RECEPTOR, MINIMIZED AVERAGE STRUCTURE | | Descriptor: | GRANULOCYTE COLONY-STIMULATING FACTOR RECEPTOR | | Authors: | Yamasaki, K, Naito, S, Anaguchi, H, Ohkubo, T, Ota, Y. | | Deposit date: | 1996-09-25 | | Release date: | 1997-10-22 | | Last modified: | 2018-03-14 | | Method: | SOLUTION NMR | | Cite: | Solution structure of an extracellular domain containing the WSxWS motif of the granulocyte colony-stimulating factor receptor and its interaction with ligand.
Nat.Struct.Biol., 4, 1997
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1GCF
 | | NMR STRUCTURE OF THE C-TERMINAL DOMAIN OF THE LIGAND-BINDING REGION OF MURINE GRANULOCYTE COLONY-STIMULATING FACTOR RECEPTOR, 12 STRUCTURES | | Descriptor: | GRANULOCYTE COLONY-STIMULATING FACTOR RECEPTOR | | Authors: | Yamasaki, K, Naito, S, Anaguchi, H, Ohkubo, T, Ota, Y. | | Deposit date: | 1997-04-10 | | Release date: | 1997-10-22 | | Last modified: | 2018-03-14 | | Method: | SOLUTION NMR | | Cite: | Solution structure of an extracellular domain containing the WSxWS motif of the granulocyte colony-stimulating factor receptor and its interaction with ligand.
Nat.Struct.Biol., 4, 1997
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5XZK
 | | Pholiota squarrosa lectin trimer | | Descriptor: | lectin (PhoSL) | | Authors: | Yamasaki, K. | | Deposit date: | 2017-07-12 | | Release date: | 2018-06-06 | | Last modified: | 2024-05-01 | | Method: | SOLUTION NMR | | Cite: | The trimeric solution structure and fucose-binding mechanism of the core fucosylation-specific lectin PhoSL.
Sci Rep, 8, 2018
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2RRK
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2DWN
 | | Crystal structure of the PriA protein complexed with oligonucleotides | | Descriptor: | DNA (5'-D(*A*G)-3'), Primosomal protein N' | | Authors: | Sasaki, K, Ose, T, Tanaka, T, Masai, H, Maenaka, K, Kohda, D. | | Deposit date: | 2006-08-15 | | Release date: | 2006-11-07 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (3.35 Å) | | Cite: | Structural basis of the 3'-end recognition of a leading strand in stalled replication forks by PriA.
EMBO J., 26, 2007
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2DWL
 | | Crystal structure of the PriA protein complexed with oligonucleotides | | Descriptor: | 5'-D(*AP*(DC))-3', Primosomal protein N | | Authors: | Sasaki, K, Ose, T, Tanaka, T, Masai, H, Maenaka, K, Kohda, D. | | Deposit date: | 2006-08-15 | | Release date: | 2006-11-07 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (3.2 Å) | | Cite: | Structural basis of the 3'-end recognition of a leading strand in stalled replication forks by PriA.
EMBO J., 26, 2007
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2DWM
 | | Crystal structure of the PriA protein complexed with oligonucleotides | | Descriptor: | 5'-D(*AP*T)-3', Primosomal protein N | | Authors: | Sasaki, K, Ose, T, Tanaka, T, Masai, H, Maenaka, K, Kohda, D. | | Deposit date: | 2006-08-15 | | Release date: | 2006-11-07 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (3.15 Å) | | Cite: | Structural basis of the 3'-end recognition of a leading strand in stalled replication forks by PriA.
EMBO J., 26, 2007
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1ISP
 | | Crystal structure of Bacillus subtilis lipase at 1.3A resolution | | Descriptor: | GLYCEROL, lipase | | Authors: | Kawasaki, K, Kondo, H, Suzuki, M, Ohgiya, S, Tsuda, S. | | Deposit date: | 2001-12-19 | | Release date: | 2002-12-19 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.3 Å) | | Cite: | Alternate conformations observed in catalytic serine of Bacillus subtilis lipase determined at 1.3 A resolution.
Acta Crystallogr.,Sect.D, 58, 2002
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3WT1
 | | Crystal structure of the b'-a' domain of thermophilic fungal protein disulfide isomerase (reduced form) | | Descriptor: | GLYCEROL, Protein disulfide-isomerase | | Authors: | Inagaki, K, Satoh, T, Itoh, S.G, Okumura, H, Kato, K. | | Deposit date: | 2014-04-02 | | Release date: | 2014-11-26 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Redox-dependent conformational transition of catalytic domain of protein disulfide isomerase indicated by crystal structure-based molecular dynamics simulation
Chem.Phys.Lett., 618, 2015
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3WVF
 | | Crystal structure of YidC from Escherichia coli | | Descriptor: | Membrane protein insertase YidC | | Authors: | Kumazaki, K, Tsukazaki, T, Kishimoto, T, Ishitani, R, Nureki, O. | | Deposit date: | 2014-05-20 | | Release date: | 2014-12-17 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.2 Å) | | Cite: | Crystal structure of Escherichia coli YidC, a membrane protein chaperone and insertase
Sci Rep, 4, 2014
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3WT2
 | | Crystal structure of the b'-a' domain of thermophilic fungal protein disulfide isomerase (oxidized form) | | Descriptor: | Protein disulfide-isomerase | | Authors: | Inagaki, K, Satoh, T, Itoh, S.G, Okumura, H, Kato, K. | | Deposit date: | 2014-04-02 | | Release date: | 2014-11-26 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.3 Å) | | Cite: | Redox-dependent conformational transition of catalytic domain of protein disulfide isomerase indicated by crystal structure-based molecular dynamics simulation
Chem.Phys.Lett., 618, 2015
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1GCN
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7WKZ
 | | Crystal structure of the HSA complex with mycophenolate and aripiprazole | | Descriptor: | 7-[4-[4-[2,3-bis(chloranyl)phenyl]piperazin-1-yl]butoxy]-3,4-dihydro-1H-quinolin-2-one, MYCOPHENOLIC ACID, Serum albumin | | Authors: | Kawai, A, Yamasaki, K. | | Deposit date: | 2022-01-12 | | Release date: | 2022-12-28 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.992 Å) | | Cite: | Structural Basis of the Change in the Interaction Between Mycophenolic Acid and Subdomain IIA of Human Serum Albumin During Renal Failure.
J.Med.Chem., 66, 2023
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7D6J
 | | Human serum albumin complexed with benzbromarone | | Descriptor: | Serum albumin, [3,5-bis(bromanyl)-4-oxidanyl-phenyl]-(2-ethyl-1-benzofuran-3-yl)methanone | | Authors: | Kawai, A, Yamasaki, K. | | Deposit date: | 2020-09-30 | | Release date: | 2021-02-03 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (3.29 Å) | | Cite: | Interaction of Benzbromarone with Subdomains IIIA and IB/IIA on Human Serum Albumin as the Primary and Secondary Binding Regions.
Mol Pharm., 18, 2021
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3W3D
 | | Crystal structure of smooth muscle G actin DNase I complex | | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, Actin, gamma-enteric smooth muscle, ... | | Authors: | Sakabe, N, Sakabe, K, Sasaki, K, Kondo, H, Shimomur, M. | | Deposit date: | 2012-12-20 | | Release date: | 2013-01-30 | | Last modified: | 2020-07-29 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Refined structure and solvent network of chicken gizzard G-actin DNase 1 complex at 1.8A resolution
Acta Crystallogr.,Sect.A, 49, 1993
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1C9F
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2CZQ
 | | 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
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6LFF
 | | transcription factor SATB1 CUTr1 domain in complex with a phosphorothioate DNA | | Descriptor: | DNA (5'-D(*GP*(C7R)P*(PST)P*AP*AP*TP*AP*TP*AP*TP*GP*C)-3'), DNA (5'-D(*GP*CP*AP*TP*(AS)P*(PST)P*(AS)P*(PST)P*TP*AP*GP*C)-3'), DNA-binding protein SATB1 | | Authors: | Akutsu, Y, Kubota, T, Yamasaki, T, Yamasaki, K. | | Deposit date: | 2019-12-02 | | Release date: | 2020-04-01 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.79 Å) | | Cite: | Enhanced affinity of racemic phosphorothioate DNA with transcription factor SATB1 arising from diastereomer-specific hydrogen bonds and hydrophobic contacts.
Nucleic Acids Res., 48, 2020
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2RTS
 | | Chitin binding domain1 | | Descriptor: | chitinase | | Authors: | Uegaki, K. | | Deposit date: | 2013-08-19 | | Release date: | 2014-04-23 | | Last modified: | 2024-05-01 | | Method: | SOLUTION NMR | | Cite: | Solution structure of the chitin-binding domain 1 (ChBD1) of a hyperthermophilic chitinase from Pyrococcus furiosus.
J.Biochem., 155, 2014
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2CWR
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1YSE
 | | Solution structure of the MAR-binding domain of SATB1 | | Descriptor: | DNA-binding protein SATB1 | | Authors: | Yamasaki, K, Yamaguchi, H. | | Deposit date: | 2005-02-08 | | Release date: | 2006-01-03 | | Last modified: | 2024-05-29 | | Method: | SOLUTION NMR | | Cite: | Solution Structure and DNA-binding Mode of the Matrix Attachment Region-binding Domain of the Transcription Factor SATB1 That Regulates the T-cell Maturation
J.Biol.Chem., 281, 2006
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