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4V4O
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BU of 4v4o by Molmil
Crystal Structure of the Chaperonin Complex Cpn60/Cpn10/(ADP)7 from Thermus Thermophilus
Descriptor: ADENOSINE-5'-DIPHOSPHATE, DIMETHYL SULFOXIDE, MAGNESIUM ION, ...
Authors:Shimamura, T, Koike-Takeshita, A, Yokoyama, K, Masui, R, Murai, N, Yoshida, M, Taguchi, H, Iwata, S.
Deposit date:2004-05-23
Release date:2014-07-09
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal structure of the native chaperonin complex from Thermus thermophilus revealed unexpected asymmetry at the cis-cavity
STRUCTURE, 12, 2004
1IYO
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BU of 1iyo by Molmil
Toho-1 beta-Lactamase In Complex With Cefotaxime
Descriptor: CEFOTAXIME, C3' cleaved, open, ...
Authors:Shimamura, T, Ibuka, A, Fushinobu, S, Wakagi, T, Ishiguro, M, Ishii, Y, Matsuzawa, H.
Deposit date:2002-09-04
Release date:2002-12-11
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Acyl-intermediate Structures of the Extended-spectrum Class A beta -Lactamase, Toho-1, in Complex with Cefotaxime, Cephalothin, and Benzylpenicillin.
J.Biol.Chem., 277, 2002
1IYQ
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BU of 1iyq by Molmil
Toho-1 beta-Lactamase In Complex With Benzylpenicillin
Descriptor: OPEN FORM - PENICILLIN G, SULFATE ION, Toho-1 beta-lactamase
Authors:Shimamura, T, Ibuka, A, Fushinobu, S, Wakagi, T, Ishiguro, M, Ishii, Y, Matsuzawa, H.
Deposit date:2002-09-04
Release date:2002-12-11
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Acyl-intermediate Structures of the Extended-spectrum Class A beta -Lactamase, Toho-1, in Complex with Cefotaxime, Cephalothin, and Benzylpenicillin.
J.Biol.Chem., 277, 2002
1IYP
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BU of 1iyp by Molmil
Toho-1 beta-Lactamase In Complex With Cephalothin
Descriptor: CEPHALOTHIN GROUP, SULFATE ION, Toho-1 beta-lactamase
Authors:Shimamura, T, Ibuka, A, Fushinobu, S, Wakagi, T, Ishiguro, M, Ishii, Y, Matsuzawa, H.
Deposit date:2002-09-04
Release date:2002-12-11
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2 Å)
Cite:Acyl-intermediate Structures of the Extended-spectrum Class A beta -Lactamase, Toho-1, in Complex with Cefotaxime, Cephalothin, and Benzylpenicillin.
J.Biol.Chem., 277, 2002
2ZQ8
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BU of 2zq8 by Molmil
Apo structure of class a beta-lactamase Toho-1 R274N/R276N double mutant
Descriptor: Beta-lactamase Toho-1, SULFATE ION
Authors:Shimamura, T, Nitanai, Y, Uchiyama, T, Ago, H, Matsuzawa, H, Miyano, M.
Deposit date:2008-08-07
Release date:2009-07-28
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.03 Å)
Cite:Improvement of crystal quality by surface mutations of beta-lactamase Toho-1
Acta Crystallogr.,Sect.F, 65, 2009
2ZQ7
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BU of 2zq7 by Molmil
Apo structure of Class A beta-lactamase Toho-1 E166A/R274N/R276N triple mutant
Descriptor: Beta-lactamase Toho-1, SULFATE ION
Authors:Shimamura, T, Nitanai, Y, Uchiyama, T, Ago, H, Matsuzawa, H, Miyano, M.
Deposit date:2008-08-07
Release date:2009-07-28
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (0.94 Å)
Cite:Improvement of the Crystal Quality by the Surface Mutations on a Beta-Lactamase Toho-1
To be Published
2X79
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BU of 2x79 by Molmil
Inward facing conformation of Mhp1
Descriptor: HYDANTOIN TRANSPORT PROTEIN
Authors:Shimamura, T, Weyand, S, Beckstein, O, Rutherford, N.G, Hadden, J.M, Sharples, D, Sansom, M.S.P, Iwata, S, Henderson, P.J.F, Cameron, A.D.
Deposit date:2010-02-25
Release date:2010-05-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3.8 Å)
Cite:Molecular Basis of Alternating Access Membrane Transport by the Sodium-Hydantoin Transporter Mhp1.
Science, 328, 2010
3RZE
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BU of 3rze by Molmil
Structure of the human histamine H1 receptor in complex with doxepin
Descriptor: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, (3E)-3-(dibenzo[b,e]oxepin-11(6H)-ylidene)-N,N-dimethylpropan-1-amine, (3Z)-3-(dibenzo[b,e]oxepin-11(6H)-ylidene)-N,N-dimethylpropan-1-amine, ...
Authors:Shimamura, T, Han, G.W, Shiroishi, M, Weyand, S, Tsujimoto, H, Winter, G, Katritch, V, Abagyan, R, Cherezov, V, Liu, W, Kobayashi, T, Stevens, R, Iwata, S, GPCR Network (GPCR)
Deposit date:2011-05-11
Release date:2011-06-15
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (3.1 Å)
Cite:Structure of the human histamine H1 receptor complex with doxepin.
Nature, 475, 2011
8HPJ
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BU of 8hpj by Molmil
Crystal structure of the bacterial oxalate transporter OxlT in a ligand-free outward-facing form
Descriptor: Fv fragment Heavy chain, Fv fragment Light chain, Oxalate:formate antiporter
Authors:Shimamura, T, Hirai, T, Yamashita, A.
Deposit date:2022-12-12
Release date:2023-02-15
Last modified:2023-04-12
Method:X-RAY DIFFRACTION (3.3 Å)
Cite:Structure and mechanism of oxalate transporter OxlT in an oxalate-degrading bacterium in the gut microbiota.
Nat Commun, 14, 2023
8HPK
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BU of 8hpk by Molmil
Crystal structure of the bacterial oxalate transporter OxlT in an oxalate-bound occluded form
Descriptor: Fab fragment Heavy chein, Fab fragment Light chain, OXALATE ION, ...
Authors:Shimamura, T, Hirai, T, Yamashita, A.
Deposit date:2022-12-12
Release date:2023-02-15
Last modified:2023-04-12
Method:X-RAY DIFFRACTION (3 Å)
Cite:Structure and mechanism of oxalate transporter OxlT in an oxalate-degrading bacterium in the gut microbiota.
Nat Commun, 14, 2023
2ZIY
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BU of 2ziy by Molmil
Crystal structure of squid rhodopsin
Descriptor: PALMITIC ACID, RETINAL, Rhodopsin
Authors:Miyano, M, Shimamura, T.
Deposit date:2008-02-27
Release date:2008-05-06
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (3.7 Å)
Cite:Crystal structure of squid rhodopsin with intracellularly extended cytoplasmic region
J.Biol.Chem., 283, 2008
6JOD
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BU of 6jod by Molmil
Angiotensin II type 2 receptor with ligand
Descriptor: Angiotensin II, Heavy chain of 4A03Fab, Light chain of 4A03Fab, ...
Authors:Asada, H, Iwata, S, Hirata, K, Shimamura, T.
Deposit date:2019-03-20
Release date:2020-01-15
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:The Crystal Structure of Angiotensin II Type 2 Receptor with Endogenous Peptide Hormone.
Structure, 28, 2020
2DCH
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BU of 2dch by Molmil
Crystal structure of archaeal intron-encoded homing endonuclease I-Tsp061I
Descriptor: CHLORIDE ION, SULFATE ION, putative homing endonuclease
Authors:Nakayama, H, Tsuge, H, Shimamura, T, Miyano, M, Nomura, N, Sako, Y.
Deposit date:2006-01-06
Release date:2006-07-06
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.06 Å)
Cite:Structure of a hyperthermophilic archaeal homing endonuclease, I-Tsp061I: contribution of cross-domain polar networks to thermostability.
J.Mol.Biol., 365, 2007
4X8Y
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BU of 4x8y by Molmil
Crystal structure of human PGRMC1 cytochrome b5-like domain
Descriptor: Membrane-associated progesterone receptor component 1, PROTOPORPHYRIN IX CONTAINING FE
Authors:Nakane, T, Yamamoto, T, Shimamura, T, Kobayashi, T, Kabe, Y, Suematsu, M.
Deposit date:2014-12-11
Release date:2016-03-23
Last modified:2020-02-05
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Haem-dependent dimerization of PGRMC1/Sigma-2 receptor facilitates cancer proliferation and chemoresistance
Nat Commun, 7, 2016
4YBQ
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BU of 4ybq by Molmil
Rat GLUT5 with Fv in the outward-open form
Descriptor: Solute carrier family 2, facilitated glucose transporter member 5, antibody Fv fragment heavy chain, ...
Authors:Nomura, N, Shimamura, T, Iwata, S.
Deposit date:2015-02-19
Release date:2015-10-07
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3.27 Å)
Cite:Structure and mechanism of the mammalian fructose transporter GLUT5
Nature, 526, 2015
2JLN
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BU of 2jln by Molmil
Structure of Mhp1, a nucleobase-cation-symport-1 family transporter
Descriptor: MERCURY (II) ION, MHP1, SODIUM ION
Authors:Weyand, S, Shimamura, T, Yajima, S, Suzuki, S, Mirza, O, Krusong, K, Carpenter, E.P, Rutherford, N.G, Hadden, J.M, O'Reilly, J, Ma, P, Saidijam, M, Patching, S.G, Hope, R.J, Norbertczak, H.T, Roach, P.C.J, Iwata, S, Henderson, P.J.F, Cameron, A.D.
Deposit date:2008-09-11
Release date:2008-10-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.85 Å)
Cite:Structure and Molecular Mechanism of a Nucleobase-Cation-Symport-1 Family Transporter.
Science, 322, 2008
2PNO
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BU of 2pno by Molmil
Crystal structure of human leukotriene C4 synthase
Descriptor: DODECYL-BETA-D-MALTOSIDE, GLUTATHIONE, Leukotriene C4 synthase
Authors:Ago, H, Kanaoka, Y, Irikura, D, Lam, B.K, Shimamura, T, Austen, K.F, Miyano, M.
Deposit date:2007-04-24
Release date:2007-08-07
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (3.3 Å)
Cite:Crystal structure of a human membrane protein involved in cysteinyl leukotriene biosynthesis
Nature, 448, 2007
6JZH
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BU of 6jzh by Molmil
Structure of human A2A adenosine receptor in complex with ZM241385 obtained from SFX experiments under atmospheric pressure
Descriptor: 4-{2-[(7-amino-2-furan-2-yl[1,2,4]triazolo[1,5-a][1,3,5]triazin-5-yl)amino]ethyl}phenol, Adenosine receptor A2a,Soluble cytochrome b562,Adenosine receptor A2a, CHOLESTEROL, ...
Authors:Nango, E, Shimamura, T, Nakane, T, Yamanaka, Y, Mori, C, Kimura, K.T, Fujiwara, T, Tanaka, T, Iwata, S.
Deposit date:2019-05-02
Release date:2019-10-30
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:High-viscosity sample-injection device for serial femtosecond crystallography at atmospheric pressure.
J.Appl.Crystallogr., 52, 2019
6IY9
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BU of 6iy9 by Molmil
Crystal structure of aminoglycoside 7"-phoshotransferase-Ia (APH(7")-Ia/HYG) from Streptomyces hygroscopicus complexed with hygromycin B
Descriptor: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID, CITRATE ANION, HYGROMYCIN B VARIANT, ...
Authors:Takenoya, M, Shimamura, T, Yamanaka, R, Adachi, Y, Ito, S, Sasaki, Y, Nakamura, A, Yajima, S.
Deposit date:2018-12-14
Release date:2019-09-11
Last modified:2019-11-20
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural basis for the substrate recognition of aminoglycoside 7''-phosphotransferase-Ia from Streptomyces hygroscopicus.
Acta Crystallogr.,Sect.F, 75, 2019
3AIB
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BU of 3aib by Molmil
Crystal Structure of Glucansucrase
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, CALCIUM ION, Glucosyltransferase-SI, ...
Authors:Ito, K, Ito, S, Shimamura, T, Iwata, S.
Deposit date:2010-05-12
Release date:2011-03-23
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (3.09 Å)
Cite:Crystal structure of glucansucrase from the dental caries pathogen Streptococcus mutans.
J.Mol.Biol., 408, 2011
3AIC
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BU of 3aic by Molmil
Crystal Structure of Glucansucrase from Streptococcus mutans
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose, CALCIUM ION, ...
Authors:Ito, K, Ito, S, Shimamura, T, Iwata, S.
Deposit date:2010-05-12
Release date:2011-03-23
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (3.11 Å)
Cite:Crystal structure of glucansucrase from the dental caries pathogen Streptococcus mutans.
J.Mol.Biol., 408, 2011
3AIE
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BU of 3aie by Molmil
Crystal Structure of glucansucrase from Streptococcus mutans
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, CALCIUM ION, Glucosyltransferase-SI
Authors:Ito, K, Ito, S, Shimamura, T, Iwata, S.
Deposit date:2010-05-12
Release date:2011-03-23
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structure of glucansucrase from the dental caries pathogen Streptococcus mutans.
J.Mol.Biol., 408, 2011
7C86
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BU of 7c86 by Molmil
Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: Dark state structure
Descriptor: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, RETINAL, ...
Authors:Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O.
Deposit date:2020-05-28
Release date:2021-04-07
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin.
Elife, 10, 2021
7E6Z
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Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 50 microsecond structure
Descriptor: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ...
Authors:Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O.
Deposit date:2021-02-24
Release date:2021-04-07
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin.
Elife, 10, 2021
7E6Y
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Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 1 microsecond structure
Descriptor: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ...
Authors:Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O.
Deposit date:2021-02-24
Release date:2021-04-07
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin.
Elife, 10, 2021

 

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