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3WII
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BU of 3wii by Molmil
Crystal structure of the Fab fragment of B2212A, a murine monoclonal antibody specific for the third fibronectin domain (Fn3) of human ROBO1.
Descriptor: anti-human ROBO1 antibody B2212A Fab heavy chain, anti-human ROBO1 antibody B2212A Fab light chain
Authors:Nakayama, T, Mizohata, E, Yamashita, T, Nagatoishi, S, Nakakido, M, Iwanari, H, Mochizuki, Y, Kado, Y, Yokota, Y, Sato, R, Tsumoto, K, Fujitani, H, Kodama, T, Hamakubo, T, Inoue, T.
Deposit date:2013-09-12
Release date:2015-01-21
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Structural features of interfacial tyrosine residue in ROBO1 fibronectin domain-antibody complex: Crystallographic, thermodynamic, and molecular dynamic analyses
Protein Sci., 24, 2015
3WIH
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BU of 3wih by Molmil
Crystal structure of the third fibronectin domain (Fn3) of human ROBO1 in complex with the Fab fragment of murine monoclonal antibody B2212A.
Descriptor: GLYCEROL, Roundabout homolog 1, anti-human ROBO1 antibody B2212A Fab heavy chain, ...
Authors:Nakayama, T, Mizohata, E, Yamashita, T, Nagatoishi, M, Iwanari, H, Mochizuki, Y, Kado, Y, Yokota, Y, Sato, R, Tsumoto, K, Fujitani, H, Kodama, T, Hamakubo, T, Inoue, T.
Deposit date:2013-09-12
Release date:2015-01-21
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.701 Å)
Cite:Structural features of interfacial tyrosine residue in ROBO1 fibronectin domain-antibody complex: Crystallographic, thermodynamic, and molecular dynamic analyses
Protein Sci., 24, 2015
8X35
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BU of 8x35 by Molmil
Neryl diphosphate synthase from Solanum lycopersicum complexed with DMSAPP, IPP, and magnesium ion (form A)
Descriptor: 1,2-ETHANEDIOL, 3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE, DI(HYDROXYETHYL)ETHER, ...
Authors:Imaizumi, R, Matsuura, H, Yanai, T, Takeshita, K, Misawa, S, Yamaguchi, H, Sakai, N, Miyagi-Inoue, Y, Suenaga-Hiromori, M, Kataoka, K, Nakayama, T, Yamamoto, M, Takahashi, S, Yamashita, S.
Deposit date:2023-11-12
Release date:2024-02-07
Method:X-RAY DIFFRACTION (1.92 Å)
Cite:Structural-Functional Correlations between Unique N-terminal Region and C-terminal Conserved Motif in Short-chain cis-Prenyltransferase from Tomato.
Chembiochem, 2024
8X36
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BU of 8x36 by Molmil
Neryl diphosphate synthase from Solanum lycopersicum complexed with DMSAPP, IPP, and magnesium ion (form B)
Descriptor: 3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE, DIMETHYLALLYL S-THIOLODIPHOSPHATE, MAGNESIUM ION, ...
Authors:Imaizumi, R, Matsuura, H, Yanai, T, Takeshita, K, Misawa, S, Yamaguchi, H, Sakai, N, Miyagi-Inoue, Y, Suenaga-Hiromori, M, Kataoka, K, Nakayama, T, Yamamoto, M, Takahashi, S, Yamashita, S.
Deposit date:2023-11-12
Release date:2024-02-07
Method:X-RAY DIFFRACTION (2.28 Å)
Cite:Structural-Functional Correlations between Unique N-terminal Region and C-terminal Conserved Motif in Short-chain cis-Prenyltransferase from Tomato.
Chembiochem, 2024
8X37
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BU of 8x37 by Molmil
Neryl diphosphate synthase from Solanum lycopersicum complexed with DMSAPP
Descriptor: DIMETHYLALLYL S-THIOLODIPHOSPHATE, MAGNESIUM ION, Neryl-diphosphate synthase 1
Authors:Imaizumi, R, Matsuura, H, Yanai, T, Takeshita, K, Misawa, S, Yamaguchi, H, Sakai, N, Miyagi-Inoue, Y, Suenaga-Hiromori, M, Kataoka, K, Nakayama, T, Yamamoto, M, Takahashi, S, Yamashita, S.
Deposit date:2023-11-12
Release date:2024-02-07
Method:X-RAY DIFFRACTION (1.98 Å)
Cite:Structural-Functional Correlations between Unique N-terminal Region and C-terminal Conserved Motif in Short-chain cis-Prenyltransferase from Tomato.
Chembiochem, 2024
6JEM
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BU of 6jem by Molmil
Structure of Phytolacca americana UGT2 complexed with UDP-2fluoro-glucose and resveratrol
Descriptor: Glycosyltransferase, RESVERATROL, URIDINE-5'-DIPHOSPHATE-2-DEOXY-2-FLUORO-ALPHA-D-GLUCOSE
Authors:Maharjan, R, Fukuda, Y, Nakayama, T, Hamada, H, Ozaki, S, Inoue, T.
Deposit date:2019-02-06
Release date:2020-03-11
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:An Ambidextrous Polyphenol GlycosyltransferasePaGT2 fromPhytolacca americana.
Biochemistry, 59, 2020
6JEN
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BU of 6jen by Molmil
Structure of Phytolacca americana UGT2 complexed with UDP-2fluoro-glucose and pterostilbene
Descriptor: Glycosyltransferase, Pterostilbene, URIDINE-5'-DIPHOSPHATE-2-DEOXY-2-FLUORO-ALPHA-D-GLUCOSE
Authors:Maharjan, R, Fukuda, Y, Nakayama, T, Hamada, H, Ozaki, S, Inoue, T.
Deposit date:2019-02-06
Release date:2020-03-11
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:An Ambidextrous Polyphenol GlycosyltransferasePaGT2 fromPhytolacca americana.
Biochemistry, 59, 2020
5AZ2
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BU of 5az2 by Molmil
Crystal structure of the Fab fragment of 9E5, a murine monoclonal antibody specific for human epiregulin
Descriptor: anti-human epiregulin antibody 9E5 Fab heavy chain, anti-human epiregulin antibody 9E5 Fab light chain
Authors:Kado, Y, Mizohata, E, Nagatoishi, S, Iijima, M, Shinoda, K, Miyafusa, T, Nakayama, T, Yoshizumi, T, Sugiyama, A, Kawamura, T, Lee, Y.H, Matsumura, H, Doi, H, Fujitani, H, Kodama, T, Shibasaki, Y, Tsumoto, K, Inoue, T.
Deposit date:2015-09-16
Release date:2015-12-09
Last modified:2020-02-26
Method:X-RAY DIFFRACTION (1.603 Å)
Cite:Epiregulin Recognition Mechanisms by Anti-epiregulin Antibody 9E5: STRUCTURAL, FUNCTIONAL, AND MOLECULAR DYNAMICS SIMULATION ANALYSES
J.Biol.Chem., 291, 2016
5E8D
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BU of 5e8d by Molmil
Crystal structure of human epiregulin in complex with the Fab fragment of murine monoclonal antibody 9E5
Descriptor: CHLORIDE ION, GLYCEROL, Proepiregulin, ...
Authors:Kado, Y, Mizohata, E, Nagatoishi, S, Iijima, M, Shinoda, K, Miyafusa, T, Nakayama, T, Yoshizumi, T, Sugiyama, A, Kawamura, T, Lee, Y.H, Matsumura, H, Doi, H, Fujitani, H, Kodama, T, Shibasaki, Y, Tsumoto, K, Inoue, T.
Deposit date:2015-10-14
Release date:2015-12-09
Last modified:2020-02-19
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Epiregulin Recognition Mechanisms by Anti-epiregulin Antibody 9E5: STRUCTURAL, FUNCTIONAL, AND MOLECULAR DYNAMICS SIMULATION ANALYSES
J.Biol.Chem., 291, 2016
7VEK
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BU of 7vek by Molmil
Crystal structure of Phytolacca americana UGT3 with capsaicin and UDP-2fluoroglucose
Descriptor: (6E)-N-(4-hydroxy-3-methoxybenzyl)-8-methylnon-6-enamide, 1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE, Glycosyltransferase, ...
Authors:Maharjan, R, Fukuda, Y, Nakayama, T, Nakayama, T, Hamada, H, Ozaki, S, Inoue, T.
Deposit date:2021-09-09
Release date:2022-03-02
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structural basis for substrate recognition in the Phytolacca americana glycosyltransferase PaGT3.
Acta Crystallogr D Struct Biol, 78, 2022
7VEJ
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BU of 7vej by Molmil
Crystal structure of Phytolacca americana UGT3 with kaempferol and UDP-2fluoroglucose
Descriptor: 1,2-ETHANEDIOL, 1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE, 3,5,7-TRIHYDROXY-2-(4-HYDROXYPHENYL)-4H-CHROMEN-4-ONE, ...
Authors:Maharjan, R, Fukuda, Y, Nakayama, T, Nakayama, T, Hamada, H, Ozaki, S, Inoue, T.
Deposit date:2021-09-09
Release date:2022-03-02
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Structural basis for substrate recognition in the Phytolacca americana glycosyltransferase PaGT3.
Acta Crystallogr D Struct Biol, 78, 2022
7VEL
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BU of 7vel by Molmil
Crystal structure of Phytolacca americana UGT3 with UDP-2fluoroglucose
Descriptor: 1,2-ETHANEDIOL, 1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE, Glycosyltransferase, ...
Authors:Maharjan, R, Fukuda, Y, Nakayama, T, Nakayama, T, Hamada, H, Ozaki, S, Inoue, T.
Deposit date:2021-09-09
Release date:2022-03-02
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Structural basis for substrate recognition in the Phytolacca americana glycosyltransferase PaGT3.
Acta Crystallogr D Struct Biol, 78, 2022
6LZY
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BU of 6lzy by Molmil
Structure of Phytolacca americana UGT3 with 18-crown-6
Descriptor: 1,2-ETHANEDIOL, 1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE, BROMIDE ION, ...
Authors:Maharjan, R, Fukuda, Y, Nakayama, T, Nakayama, T, Hamada, H, Ozaki, S, Inoue, T.
Deposit date:2020-02-19
Release date:2020-06-10
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crown-ether-mediated crystal structures of the glycosyltransferase PaGT3 from Phytolacca americana.
Acta Crystallogr D Struct Biol, 76, 2020
6LZX
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BU of 6lzx by Molmil
Structure of Phytolacca americana UGT3 with 15-crown-5
Descriptor: 1,2-ETHANEDIOL, 1,4,7,10,13-pentaoxacyclopentadecane, BROMIDE ION, ...
Authors:Maharjan, R, Fukuda, Y, Nakayama, T, Nakayama, T, Hamada, H, Ozaki, S, Inoue, T.
Deposit date:2020-02-19
Release date:2020-06-10
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.101 Å)
Cite:Crown-ether-mediated crystal structures of the glycosyltransferase PaGT3 from Phytolacca americana.
Acta Crystallogr D Struct Biol, 76, 2020
5B2C
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BU of 5b2c by Molmil
Crystal structure of Mumps virus hemagglutinin-neuraminidase
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, HN protein, SULFATE ION
Authors:Kubota, M, Takeuchi, K, Watanabe, S, Ohno, S, Matsuoka, R, Kohda, D, Hiramatsu, H, Suzuki, Y, Nakayama, T, Terada, T, Shimizu, K, Shimizu, N, Yanagi, Y, Hashiguchi, T.
Deposit date:2016-01-14
Release date:2016-09-28
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.238 Å)
Cite:Trisaccharide containing alpha 2,3-linked sialic acid is a receptor for mumps virus
Proc.Natl.Acad.Sci.USA, 113, 2016
5B2D
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BU of 5b2d by Molmil
Crystal structure of Mumps virus hemagglutinin-neuraminidase bound to 3-sialyllactose
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, HN protein, N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-alpha-D-glucopyranose, ...
Authors:Kubota, M, Takeuchi, K, Watanabe, S, Ohno, S, Matsuoka, R, Kohda, D, Hiramatsu, H, Suzuki, Y, Nakayama, T, Terada, T, Shimizu, K, Shimizu, N, Yanagi, Y, Hashiguchi, T.
Deposit date:2016-01-14
Release date:2016-09-28
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.177 Å)
Cite:Trisaccharide containing alpha 2,3-linked sialic acid is a receptor for mumps virus
Proc.Natl.Acad.Sci.USA, 113, 2016
6JEL
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BU of 6jel by Molmil
Structure of Phytolacca americana apo UGT2
Descriptor: Glycosyltransferase
Authors:Maharjan, R, Fukuda, Y, Nakayama, T, Hamada, H, Ozaki, S, Inoue, T.
Deposit date:2019-02-06
Release date:2020-03-11
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:An Ambidextrous Polyphenol GlycosyltransferasePaGT2 fromPhytolacca americana.
Biochemistry, 59, 2020
7BUR
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BU of 7bur by Molmil
Chalcone synthase from Glycine max (L.) Merr (soybean) complexed with naringenin
Descriptor: CITRIC ACID, Chalcone synthase 1, NARINGENIN
Authors:Imaizumi, R, Mameda, R, Takeshita, K, Waki, T, Kubo, H, Sakai, N, Nakata, S, Takahashi, S, Kataoka, K, Yamamoto, M, Yamashita, S, Nakayama, T.
Deposit date:2020-04-08
Release date:2020-08-19
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.82 Å)
Cite:Crystal structure of chalcone synthase, a key enzyme for isoflavonoid biosynthesis in soybean.
Proteins, 2020
7BUS
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BU of 7bus by Molmil
Chalcone synthase from Glycine max (L.) Merr (soybean)
Descriptor: Chalcone synthase
Authors:Imaizumi, R, Mameda, R, Takeshita, K, Waki, T, Kubo, H, Sakai, N, Nakata, S, Takahashi, S, Kataoka, K, Yamamoto, M, Yamashita, S, Nakayama, T.
Deposit date:2020-04-08
Release date:2020-08-19
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.52 Å)
Cite:Crystal structure of chalcone synthase, a key enzyme for isoflavonoid biosynthesis in soybean.
Proteins, 2020
1SIO
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BU of 1sio by Molmil
Structure of Kumamolisin-As complexed with a covalently-bound inhibitor, AcIPF
Descriptor: Ace-ILE-PRO-PHL peptide inhibitor, CALCIUM ION, SULFATE ION, ...
Authors:Li, M, Wlodawer, A, Gustchina, A, Tsuruoka, N, Ashida, M, Minakata, H, Oyama, H, Oda, K, Nishino, T, Nakayama, T.
Deposit date:2004-03-01
Release date:2004-03-30
Last modified:2023-08-23
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystallographic and biochemical investigations of kumamolisin-As, a serine-carboxyl peptidase with collagenase activity
J.Biol.Chem., 279, 2004
6A77
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BU of 6a77 by Molmil
Crystal structure of the fifth immunoglobulin domain (Ig5) of human Robo1 in complex with the Fab fragment of murine monoclonal antibody B5209B
Descriptor: Heavy chain of the anti-human Robo1 antibody B5209B Fab, Light chain of the anti-human Robo1 antibody B5209B Fab, Roundabout homolog 1
Authors:Mizohata, E, Nakayama, T, Kado, Y, Inoue, T.
Deposit date:2018-07-02
Release date:2019-01-30
Last modified:2019-03-20
Method:X-RAY DIFFRACTION (2 Å)
Cite:Affinity Improvement of a Cancer-Targeted Antibody through Alanine-Induced Adjustment of Antigen-Antibody Interface.
Structure, 27, 2019
6A76
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BU of 6a76 by Molmil
Crystal structure of the Fab fragment of B5209B, a murine monoclonal antibody specific for the fifth immunoglobulin domain (Ig5) of human ROBO1
Descriptor: GLYCEROL, Heavy chain of the anti-human Robo1 antibody B5209B Fab, Light chain of the anti-human Robo1 antibody B5209B Fab, ...
Authors:Mizohata, E, Nakayama, T, Kado, Y, Inoue, T.
Deposit date:2018-07-02
Release date:2019-01-30
Last modified:2019-03-20
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Affinity Improvement of a Cancer-Targeted Antibody through Alanine-Induced Adjustment of Antigen-Antibody Interface.
Structure, 27, 2019
6A79
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BU of 6a79 by Molmil
Crystal structure of the fifth immunoglobulin domain (Ig5) of human Robo1 in complex with the mutant scFv fragment (P103A) of murine monoclonal antibody B5209B
Descriptor: Heavy chain of the anti-human Robo1 antibody B5209B scFv, Light chain region of the anti-human Robo1 antibody B5209B scFv, Roundabout homolog 1, ...
Authors:Mizohata, E, Nakayama, T, Kado, Y, Yokota, Y, Inoue, T.
Deposit date:2018-07-02
Release date:2019-01-30
Last modified:2019-03-20
Method:X-RAY DIFFRACTION (2.31 Å)
Cite:Affinity Improvement of a Cancer-Targeted Antibody through Alanine-Induced Adjustment of Antigen-Antibody Interface.
Structure, 27, 2019
6A78
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BU of 6a78 by Molmil
Crystal structure of the fifth immunoglobulin domain (Ig5) of human Robo1 in complex with the scFv fragment of murine monoclonal antibody B5209B
Descriptor: Heavy chain and linker region of the anti-human Robo1 antibody B5209B scFv, Light chain region of the anti-human Robo1 antibody B5209B scFv, Roundabout homolog 1, ...
Authors:Mizohata, E, Nakayama, T, Kado, Y, Inoue, T.
Deposit date:2018-07-02
Release date:2019-01-30
Last modified:2019-03-20
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Affinity Improvement of a Cancer-Targeted Antibody through Alanine-Induced Adjustment of Antigen-Antibody Interface.
Structure, 27, 2019
7VPC
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BU of 7vpc by Molmil
Neryl diphosphate synthase from Solanum lycopersicum
Descriptor: 1,2-ETHANEDIOL, D-MALATE, Neryl-diphosphate synthase 1
Authors:Imaizumi, R, Misawa, S, Takeshita, K, Sakai, N, Yamamoto, M, Kataoka, K, Nakayama, T, Takahashi, S, Yamashita, S.
Deposit date:2021-10-15
Release date:2022-05-18
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.94 Å)
Cite:Structure-based engineering of a short-chain cis-prenyltransferase to biosynthesize nonnatural all-cis-polyisoprenoids: molecular mechanisms for primer substrate recognition and ultimate product chain-length determination.
Febs J., 289, 2022

 

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