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5AWG
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BU of 5awg by Molmil
Crystal structure of Hg-bound SufB-SufC-SufD complex from Escherichia coli
Descriptor: FeS cluster assembly protein SufB, FeS cluster assembly protein SufD, MERCURY (II) ION, ...
Authors:Hirabayashi, K, Wada, K.
Deposit date:2015-07-03
Release date:2015-11-11
Last modified:2021-08-11
Method:X-RAY DIFFRACTION (4.278 Å)
Cite:Functional Dynamics Revealed by the Structure of the SufBCD Complex, a Novel ATP-binding Cassette (ABC) Protein That Serves as a Scaffold for Iron-Sulfur Cluster Biogenesis
J.Biol.Chem., 290, 2015
5AWF
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BU of 5awf by Molmil
Crystal structure of SufB-SufC-SufD complex from Escherichia coli
Descriptor: FeS cluster assembly protein SufB, FeS cluster assembly protein SufD, Probable ATP-dependent transporter SufC
Authors:Hirabayashi, K, Wada, K.
Deposit date:2015-07-03
Release date:2015-11-11
Last modified:2021-08-11
Method:X-RAY DIFFRACTION (2.957 Å)
Cite:Functional Dynamics Revealed by the Structure of the SufBCD Complex, a Novel ATP-binding Cassette (ABC) Protein That Serves as a Scaffold for Iron-Sulfur Cluster Biogenesis
J.Biol.Chem., 290, 2015
5ZHS
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BU of 5zhs by Molmil
Crystal structure of OsD14 in complex with covalently bound KK052
Descriptor: (4-phenylpiperazin-1-yl)(1H-1,2,3-triazol-1-yl)methanone, Strigolactone esterase D14
Authors:Hirabayashi, K, Miyakawa, T, Tanokura, M.
Deposit date:2018-03-13
Release date:2018-11-21
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.49 Å)
Cite:Triazole Ureas Covalently Bind to Strigolactone Receptor and Antagonize Strigolactone Responses.
Mol Plant, 12, 2019
5ZHT
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BU of 5zht by Molmil
Crystal structure of OsD14 in complex with covalently bound KK073
Descriptor: (1H-1,2,3-triazol-1-yl){4-[4-(trifluoromethyl)phenyl]piperazin-1-yl}methanone, Strigolactone esterase D14
Authors:Hirabayashi, K, Miyakawa, T, Tanokura, M.
Deposit date:2018-03-13
Release date:2018-11-21
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.532 Å)
Cite:Triazole Ureas Covalently Bind to Strigolactone Receptor and Antagonize Strigolactone Responses.
Mol Plant, 12, 2019
5ZHR
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BU of 5zhr by Molmil
Crystal structure of OsD14 in complex with covalently bound KK094
Descriptor: (2,3-dihydro-1H-indol-1-yl)(1H-1,2,3-triazol-1-yl)methanone, Strigolactone esterase D14
Authors:Hirabayashi, K, Miyakawa, T, Tanokura, M.
Deposit date:2018-03-13
Release date:2018-11-21
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:Triazole Ureas Covalently Bind to Strigolactone Receptor and Antagonize Strigolactone Responses.
Mol Plant, 12, 2019
5YZ7
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BU of 5yz7 by Molmil
Crystal structure of OsD14 in complex with D-ring-opened 7'-carba-4BD
Descriptor: (2Z,4S)-5-(4-bromophenyl)-4-hydroxy-2-methylpent-2-enoic acid, Strigolactone esterase D14
Authors:Hirabayashi, K, Jiang, K, Xu, Y, Miyakawa, T, Asami, T, Tanokura, M.
Deposit date:2017-12-13
Release date:2018-05-30
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.898 Å)
Cite:Rationally Designed Strigolactone Analogs as Antagonists of the D14 Receptor.
Plant Cell Physiol., 59, 2018
3AV8
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BU of 3av8 by Molmil
Refined Structure of Plant-type [2Fe-2S] Ferredoxin I from Aphanothece sacrum at 1.46 A Resolution
Descriptor: FE2/S2 (INORGANIC) CLUSTER, Ferredoxin-1, SULFATE ION
Authors:Kameda, H, Hirabayashi, K, Wada, K, Fukuyama, K.
Deposit date:2011-02-28
Release date:2012-01-11
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.46 Å)
Cite:Mapping of protein-protein interaction sites in the plant-type [2Fe-2S] ferredoxin.
Plos One, 6, 2011
7CD0
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BU of 7cd0 by Molmil
Crystal structure of the 2-iodoporphobilinogen-bound ES2 intermediate form of human hydroxymethylbilane synthase
Descriptor: 3-[4-(2-hydroxy-2-oxoethyl)-5-[[4-(2-hydroxy-2-oxoethyl)-5-[[4-(2-hydroxy-2-oxoethyl)-5-[[4-(2-hydroxy-2-oxoethyl)-3-(3-hydroxy-3-oxopropyl)-5-methyl-1~{H}-pyrrol-2-yl]methyl]-3-(3-hydroxy-3-oxopropyl)-1~{H}-pyrrol-2-yl]methyl]-3-(3-hydroxy-3-oxopropyl)-1~{H}-pyrrol-2-yl]methyl]-1~{H}-pyrrol-3-yl]propanoic acid, 3-[5-(aminomethyl)-4-(carboxymethyl)-2-iodo-1H-pyrrol-3-yl]propanoic acid, Porphobilinogen deaminase
Authors:Sato, H, Sugishima, M, Wada, K, Hirabayashi, K, Tsukaguchi, M.
Deposit date:2020-06-18
Release date:2021-03-17
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.31 Å)
Cite:Crystal structures of hydroxymethylbilane synthase complexed with a substrate analog: a single substrate-binding site for four consecutive condensation steps.
Biochem.J., 478, 2021
7CCX
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BU of 7ccx by Molmil
Crystal structure of the holo form of human hydroxymethylbilane synthase
Descriptor: 3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid, Porphobilinogen deaminase
Authors:Sato, H, Sugishima, M, Wada, K, Hirabayashi, K, Tsukaguchi, M.
Deposit date:2020-06-18
Release date:2021-03-17
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.84 Å)
Cite:Crystal structures of hydroxymethylbilane synthase complexed with a substrate analog: a single substrate-binding site for four consecutive condensation steps.
Biochem.J., 478, 2021
7CCZ
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BU of 7ccz by Molmil
Crystal structure of the ES2 intermediate form of human hydroxymethylbilane synthase
Descriptor: 3-[4-(2-hydroxy-2-oxoethyl)-5-[[4-(2-hydroxy-2-oxoethyl)-5-[[4-(2-hydroxy-2-oxoethyl)-5-[[4-(2-hydroxy-2-oxoethyl)-3-(3-hydroxy-3-oxopropyl)-5-methyl-1~{H}-pyrrol-2-yl]methyl]-3-(3-hydroxy-3-oxopropyl)-1~{H}-pyrrol-2-yl]methyl]-3-(3-hydroxy-3-oxopropyl)-1~{H}-pyrrol-2-yl]methyl]-1~{H}-pyrrol-3-yl]propanoic acid, Porphobilinogen deaminase
Authors:Sato, H, Sugishima, M, Wada, K, Hirabayashi, K, Tsukaguchi, M.
Deposit date:2020-06-18
Release date:2021-03-17
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.79 Å)
Cite:Crystal structures of hydroxymethylbilane synthase complexed with a substrate analog: a single substrate-binding site for four consecutive condensation steps.
Biochem.J., 478, 2021
7CCY
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BU of 7ccy by Molmil
Crystal structure of the 2-iodoporphobilinogen-bound holo form of human hydroxymethylbilane synthase
Descriptor: 3-[5-(aminomethyl)-4-(carboxymethyl)-2-iodo-1H-pyrrol-3-yl]propanoic acid, 3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid, Porphobilinogen deaminase
Authors:Sato, H, Sugishima, M, Wada, K, Hirabayashi, K, Tsukaguchi, M.
Deposit date:2020-06-18
Release date:2021-03-17
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structures of hydroxymethylbilane synthase complexed with a substrate analog: a single substrate-binding site for four consecutive condensation steps.
Biochem.J., 478, 2021
5ZD4
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BU of 5zd4 by Molmil
Crystal structure of MBP-fused BIL1/BZR1 in complex with double-stranded DNA
Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*TP*TP*CP*AP*CP*AP*CP*GP*TP*GP*TP*GP*AP*AP*A)-3'), Maltose-binding periplasmic protein,Protein BRASSINAZOLE-RESISTANT 1, ...
Authors:Nosaki, S, Miyakawa, T, Xu, Y, Nakamura, A, Hirabayashi, K, Tanokura, M.
Deposit date:2018-02-22
Release date:2018-08-29
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.17 Å)
Cite:Structural basis for brassinosteroid response by BIL1/BZR1.
Nat Plants, 4, 2018
4PAE
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BU of 4pae by Molmil
Crystal structure of catalase-peroxidase (KatG) W78F mutant from Synechococcus elongatus PCC7942
Descriptor: Catalase-peroxidase, HEME B/C, SODIUM ION, ...
Authors:Kamachi, S, Wada, K, Tada, T.
Deposit date:2014-04-08
Release date:2015-01-14
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (3.206 Å)
Cite:Crystal structure of the catalase-peroxidase KatG W78F mutant from Synechococcus elongatus PCC7942 in complex with the antitubercular pro-drug isoniazid.
Febs Lett., 589, 2015
8K5G
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BU of 8k5g by Molmil
Structure of the SARS-CoV-2 BA.1 RBD with UT28-RD
Descriptor: Spike protein S1, UT28K-RD Fab Heavy chain, UT28K-RD Fab Light chain
Authors:Chen, L, Kita, S, Anraku, Y, Maenaka, K.
Deposit date:2023-07-21
Release date:2023-12-27
Method:ELECTRON MICROSCOPY (3.41 Å)
Cite:In silico-designed UT28K with two amino acid substitutions is capable of neutralization of resistant SARS-CoV2 Omicrons BA.1 valiant.
To Be Published
8K5H
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BU of 8k5h by Molmil
Structure of the SARS-CoV-2 BA.1 spike with UT28-RD
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, ...
Authors:Chen, L, Kita, S, Anraku, Y, Maenaka, K.
Deposit date:2023-07-21
Release date:2023-12-27
Method:ELECTRON MICROSCOPY (3.22 Å)
Cite:In silico-designed UT28K with two amino acid substitutions is capable of neutralization of resistant SARS-CoV2 Omicrons BA.1 valiant.
To Be Published
5B3T
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BU of 5b3t by Molmil
Crystal structure of apo-form biliverdin reductase from Synechocystis sp. PCC 6803
Descriptor: Biliverdin reductase, PHOSPHATE ION
Authors:Takao, H, Wada, K.
Deposit date:2016-03-12
Release date:2017-02-15
Last modified:2021-08-11
Method:X-RAY DIFFRACTION (2.099 Å)
Cite:A substrate-bound structure of cyanobacterial biliverdin reductase identifies stacked substrates as critical for activity
Nat Commun, 8, 2017
5B3V
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BU of 5b3v by Molmil
Crystal structure of biliverdin reductase in complex with biliverdin and NADP+ from Synechocystis sp. PCC 6803
Descriptor: BILIVERDINE IX ALPHA, Biliverdin reductase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Authors:Takao, H, Wada, K.
Deposit date:2016-03-13
Release date:2017-02-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.594 Å)
Cite:A substrate-bound structure of cyanobacterial biliverdin reductase identifies stacked substrates as critical for activity
Nat Commun, 8, 2017
5B3U
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BU of 5b3u by Molmil
Crystal structure of biliverdin reductase in complex with NADP+ from Synechocystis sp. PCC 6803
Descriptor: Biliverdin reductase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, PHOSPHATE ION
Authors:Takao, H, Wada, K.
Deposit date:2016-03-13
Release date:2017-02-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.698 Å)
Cite:A substrate-bound structure of cyanobacterial biliverdin reductase identifies stacked substrates as critical for activity
Nat Commun, 8, 2017
3WXO
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BU of 3wxo by Molmil
Crystal structure of isoniazid bound KatG catalase peroxidase from Synechococcus elongatus PCC7942
Descriptor: Catalase-peroxidase, PROTOPORPHYRIN IX CONTAINING FE, SODIUM ION, ...
Authors:Wada, K, Tada, T, Kamachi, S.
Deposit date:2014-08-04
Release date:2015-01-21
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.12 Å)
Cite:The crystal structure of isoniazid-bound KatG catalase-peroxidase from Synechococcus elongatus PCC7942.
Febs J., 282, 2015
3X16
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BU of 3x16 by Molmil
Crystal structure of the catalase-peroxidase KatG W78F mutant from Synechococcus elongatus PCC7942
Descriptor: Catalase-peroxidase, HEME B/C, SODIUM ION
Authors:Tada, T, Wada, K, Kamachi, S.
Deposit date:2014-10-30
Release date:2014-12-24
Last modified:2022-08-24
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:Crystal structure of the catalase-peroxidase KatG W78F mutant from Synechococcus elongatus PCC7942 in complex with the antitubercular pro-drug isoniazid.
Febs Lett., 589, 2015

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