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1PIP
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BU of 1pip by Molmil
CRYSTAL STRUCTURE OF PAPAIN-SUCCINYL-GLN-VAL-VAL-ALA-ALA-P-NITROANILIDE COMPLEX AT 1.7 ANGSTROMS RESOLUTION: NONCOVALENT BINDING MODE OF A COMMON SEQUENCE OF ENDOGENOUS THIOL PROTEASE INHIBITORS
Descriptor: PAPAIN, SUCCINYL-GLN-VAL-VAL-ALA-ALA-P-NITROANILIDE
Authors:Yamamoto, A, Tomoo, K, Doi, M, Ohishi, H, Inoue, M, Ishida, T, Yamamoto, D, Tsuboi, S, Okamoto, H, Okada, Y.
Deposit date:1992-10-03
Release date:1993-10-31
Last modified:2017-11-29
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal structure of papain-succinyl-Gln-Val-Val-Ala-Ala-p-nitroanilide complex at 1.7-A resolution: noncovalent binding mode of a common sequence of endogenous thiol protease inhibitors.
Biochemistry, 31, 1992
1QDQ
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BU of 1qdq by Molmil
X-RAY CRYSTAL STRUCTURE OF BOVINE CATHEPSIN B-CA074 COMPLEX
Descriptor: CATHEPSIN B, [PROPYLAMINO-3-HYDROXY-BUTAN-1,4-DIONYL]-ISOLEUCYL-PROLINE
Authors:Yamamoto, A.
Deposit date:1999-07-10
Release date:2000-07-10
Last modified:2018-01-31
Method:X-RAY DIFFRACTION (2.18 Å)
Cite:Substrate specificity of bovine cathepsin B and its inhibition by CA074, based on crystal structure refinement of the complex.
J.Biochem.(Tokyo), 127, 2000
1ITO
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BU of 1ito by Molmil
Crystal Structure Analysis of Bovine Spleen Cathepsin B-E64c complex
Descriptor: Cathepsin B, N-[1-HYDROXYCARBOXYETHYL-CARBONYL]LEUCYLAMINO-2-METHYL-BUTANE
Authors:Yamamoto, A, Tomoo, T, Matsugi, K, Hara, T, In, Y, Murata, M, Kitamura, K, Ishida, T.
Deposit date:2002-01-19
Release date:2003-01-19
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.286 Å)
Cite:Structural basis for development of cathepsin B-specific noncovalent-type inhibitor: crystal structure of cathepsin B-E64c complex
BIOCHIM.BIOPHYS.ACTA, 1597, 2002
8I5I
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BU of 8i5i by Molmil
Crystal structure of SARS-CoV-2 delta variant spike receptor-binding domain (RBD) in complex with NCV2SG53 Fab
Descriptor: Fab Heavy chain, Fab Light chain, Spike protein S1
Authors:Yamamoto, A, Higashiura, A.
Deposit date:2023-01-25
Release date:2023-04-19
Method:X-RAY DIFFRACTION (3.06 Å)
Cite:Structural basis of spike RBM-specific human antibodies counteracting broad SARS-CoV-2 variants.
Commun Biol, 6, 2023
8I5H
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BU of 8i5h by Molmil
Crystal structure of SARS-CoV-2 delta variant spike receptor-binding domain (RBD) in complex with NCV2SG48 Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Fab Heavy chain, Fab Light chain, ...
Authors:Yamamoto, A, Higashiura, A.
Deposit date:2023-01-25
Release date:2023-04-19
Method:X-RAY DIFFRACTION (2.38 Å)
Cite:Structural basis of spike RBM-specific human antibodies counteracting broad SARS-CoV-2 variants.
Commun Biol, 6, 2023
7WN2
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BU of 7wn2 by Molmil
Crystal structure of SARS-CoV-2 spike receptor-binding domain (RBD) in complex with NCV2SG53 Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Fab Heavy chain, Fab Light chain, ...
Authors:Yamamoto, A, Higashiura, A.
Deposit date:2022-01-17
Release date:2023-04-19
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.35 Å)
Cite:Structural basis of spike RBM-specific human antibodies counteracting broad SARS-CoV-2 variants.
Commun Biol, 6, 2023
7WNB
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BU of 7wnb by Molmil
Crystal structure of SARS-CoV-2 spike receptor-binding domain (RBD) in complex with NCV2SG48 Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Fab Heavy chain, Fab Light chain, ...
Authors:Yamamoto, A, Higashiura, A.
Deposit date:2022-01-18
Release date:2023-04-19
Method:X-RAY DIFFRACTION (2.18 Å)
Cite:Structural basis of spike RBM-specific human antibodies counteracting broad SARS-CoV-2 variants.
Commun Biol, 6, 2023
7YOW
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BU of 7yow by Molmil
Crystal structure of SARS-CoV-2 omicron variant spike receptor-binding domain (RBD) in complex with NCV2SG48 Fab
Descriptor: Fab Heavy chain, Fab Light chain, SULFATE ION, ...
Authors:Yamamoto, A, Higashiura, A.
Deposit date:2022-08-02
Release date:2023-04-19
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.3 Å)
Cite:Structural basis of spike RBM-specific human antibodies counteracting broad SARS-CoV-2 variants.
Commun Biol, 6, 2023
4YTN
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BU of 4ytn by Molmil
Crystal structure of Mitochondrial rhodoquinol-fumarate reductase from Ascaris suum with N-[3-(pentafluorophenoxy)phenyl]-2-(trifluoromethyl)benzamide
Descriptor: Cytochrome b-large subunit, FE2/S2 (INORGANIC) CLUSTER, FE3-S4 CLUSTER, ...
Authors:Harada, S, Shiba, T, Sato, D, Yamamoto, A, Nagahama, M, Yone, A, Inaoka, D.K, Sakamoto, K, Inoue, M, Honma, T, Kita, K.
Deposit date:2015-03-18
Release date:2015-08-05
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3 Å)
Cite:New Insights into the Design of Inhibitors Targeted for Parasitic Anaerobic Energy Metabolism
To Be Published
5C3J
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BU of 5c3j by Molmil
Crystal structure of Mitochondrial rhodoquinol-fumarate reductase from Ascaris suum with Ubiquinone-1
Descriptor: Cytochrome b-large subunit, FE2/S2 (INORGANIC) CLUSTER, FE3-S4 CLUSTER, ...
Authors:Harada, S, Shiba, T, Sato, D, Yamamoto, A, Nagahama, M, Yone, A, Inaoka, D.K, Sakamoto, K, Inoue, M, Honma, T, Kita, K.
Deposit date:2015-06-17
Release date:2016-06-22
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Structural Insights into the Molecular Design of Flutolanil Derivatives Targeted for Fumarate Respiration of Parasite Mitochondria
To Be Published
1J2E
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BU of 1j2e by Molmil
Crystal structure of Human Dipeptidyl peptidase IV
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Dipeptidyl peptidase IV
Authors:Hiramatsu, H, Kyono, K, Higashiyama, Y, Fukushima, C, Shima, H, Sugiyama, S, Inaka, K, Yamamoto, A, Shimizu, R.
Deposit date:2002-12-30
Release date:2003-12-30
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:The structure and function of human dipeptidyl peptidase IV, possessing a unique eight-bladed beta-propeller fold.
Biochem.Biophys.Res.Commun., 302, 2003
1WCY
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BU of 1wcy by Molmil
Crystal Structure Of Human Dipeptidyl Peptidase IV (DPPIV) Complex With Diprotin A
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Dipeptidyl peptidase IV, ...
Authors:Hiramatsu, H, Yamamoto, A, Kyono, K, Higashiyama, Y, Fukushima, C, Shima, H, Sugiyama, S, Inaka, K, Shimizu, R.
Deposit date:2004-05-07
Release date:2005-05-07
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:The crystal structure of human dipeptidyl peptidase IV (DPPIV) complex with diprotin A
Biol.Chem., 385, 2004
1WXC
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BU of 1wxc by Molmil
Crystal Structure of the copper-free Streptomyces castaneoglobisporus tyrosinase complexed with a caddie protein
Descriptor: MelC, NITRATE ION, tyrosinase
Authors:Matoba, Y, Kumagai, T, Yamamoto, A, Yoshitsu, H, Sugiyama, M.
Deposit date:2005-01-20
Release date:2006-01-31
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.2 Å)
Cite:Crystallographic Evidence That the Dinuclear Copper Center of Tyrosinase Is Flexible during Catalysis
J.Biol.Chem., 281, 2006
1WX5
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BU of 1wx5 by Molmil
Crystal Structure of the copper-free Streptomyces castaneoglobisporus tyrosinase complexed with a caddie protein in the monoclinic crystal
Descriptor: CHLORIDE ION, MelC, SODIUM ION, ...
Authors:Matoba, Y, Kumagai, T, Yamamoto, A, Yoshitsu, H, Sugiyama, M.
Deposit date:2005-01-19
Release date:2006-01-31
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.02 Å)
Cite:Crystallographic Evidence That the Dinuclear Copper Center of Tyrosinase Is Flexible during Catalysis
J.Biol.Chem., 281, 2006
1WX2
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BU of 1wx2 by Molmil
Crystal Structure of the oxy-form of the copper-bound Streptomyces castaneoglobisporus tyrosinase complexed with a caddie protein prepared by the addition of hydrogenperoxide
Descriptor: COPPER (II) ION, MelC, NITRATE ION, ...
Authors:Matoba, Y, Kumagai, T, Yamamoto, A, Yoshitsu, H, Sugiyama, M.
Deposit date:2005-01-19
Release date:2006-01-31
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystallographic Evidence That the Dinuclear Copper Center of Tyrosinase Is Flexible during Catalysis
J.Biol.Chem., 281, 2006
1WX4
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BU of 1wx4 by Molmil
Crystal structure of the oxy-form of the copper-bound Streptomyces castaneoglobisporus tyrosinase complexed with a caddie protein prepared by the addition of dithiothreitol
Descriptor: COPPER (II) ION, MelC, NITRATE ION, ...
Authors:Matoba, Y, Kumagai, T, Yamamoto, A, Yoshitsu, H, Sugiyama, M.
Deposit date:2005-01-19
Release date:2006-01-31
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Crystallographic Evidence That the Dinuclear Copper Center of Tyrosinase Is Flexible during Catalysis
J.Biol.Chem., 281, 2006
3ANU
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BU of 3anu by Molmil
Crystal structure of D-serine dehydratase from chicken kidney
Descriptor: CHLORIDE ION, D-serine dehydratase, PYRIDOXAL-5'-PHOSPHATE, ...
Authors:Tanaka, H, Senda, M, Venugopalan, N, Yamamoto, A, Senda, T, Ishida, T, Horiike, K.
Deposit date:2010-09-09
Release date:2011-06-15
Last modified:2013-08-07
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal structure of a zinc-dependent D-serine dehydratase from chicken kidney
J.Biol.Chem., 286, 2011
3ANV
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BU of 3anv by Molmil
Crystal structure of D-serine dehydratase from chicken kidney (2,3-DAP complex)
Descriptor: 3-amino-D-alanine, CHLORIDE ION, D-serine dehydratase, ...
Authors:Tanaka, H, Senda, M, Venugopalan, N, Yamamoto, A, Senda, T, Ishida, T, Horiike, K.
Deposit date:2010-09-09
Release date:2011-06-15
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.09 Å)
Cite:Crystal structure of a zinc-dependent D-serine dehydratase from chicken kidney
J.Biol.Chem., 286, 2011
3AWN
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BU of 3awn by Molmil
Crystal structure of D-serine dehydratase from chicken kidney (EDTA treated)
Descriptor: D-serine dehydratase, PYRIDOXAL-5'-PHOSPHATE
Authors:Tanaka, H, Senda, M, Venugopalan, N, Yamamoto, A, Senda, T, Ishida, T, Horiike, K.
Deposit date:2011-03-25
Release date:2011-06-15
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal structure of a zinc-dependent D-serine dehydratase from chicken kidney.
J.Biol.Chem., 286, 2011
3AWO
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BU of 3awo by Molmil
Crystal structure of D-serine dehydratase in complex with D-serine from chicken kidney (EDTA-treated)
Descriptor: D-SERINE, D-serine dehydratase, PYRIDOXAL-5'-PHOSPHATE
Authors:Tanaka, H, Senda, M, Venugopalan, N, Yamamoto, A, Senda, T, Ishida, T, Horiike, K.
Deposit date:2011-03-25
Release date:2011-06-15
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:Crystal structure of a zinc-dependent D-serine dehydratase from chicken kidney.
J.Biol.Chem., 286, 2011
2AHL
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BU of 2ahl by Molmil
Crystal structure of the hydroxylamine-induced deoxy-form of the copper-bound Streptomyces castaneoglobisporus tyrosinase in complex with a caddie protein
Descriptor: CADDIE PROTEIN ORF378, COPPER (I) ION, NITRATE ION, ...
Authors:Matoba, Y, Kumagai, T, Yamamoto, A, Yoshitsu, H, Sugiyama, M.
Deposit date:2005-07-28
Release date:2006-01-31
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystallographic Evidence That the Dinuclear Copper Center of Tyrosinase Is Flexible during Catalysis
J.Biol.Chem., 281, 2006
2AHK
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BU of 2ahk by Molmil
Crystal structure of the met-form of the copper-bound Streptomyces castaneoglobisporus tyrosinase in complex with a caddie protein obtained by soking in cupric sulfate for 6 months
Descriptor: CADDIE PROTEIN ORF378, COPPER (II) ION, NITRATE ION, ...
Authors:Matoba, Y, Kumagai, T, Yamamoto, A, Yoshitsu, H, Sugiyama, M.
Deposit date:2005-07-28
Release date:2006-01-31
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.71 Å)
Cite:Crystallographic Evidence That the Dinuclear Copper Center of Tyrosinase Is Flexible during Catalysis
J.Biol.Chem., 281, 2006
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
6W9N
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BU of 6w9n by Molmil
Solution structure of the FYVE domain of ALFY
Descriptor: WD repeat and FYVE domain-containing protein 3, ZINC ION
Authors:Reinhart, E.F, Pellegrini, M, Ragusa, M.J.
Deposit date:2020-03-23
Release date:2020-12-23
Last modified:2023-06-14
Method:SOLUTION NMR
Cite:A highly conserved glutamic acid in ALFY inhibits membrane binding to aid in aggregate clearance.
Traffic, 22, 2021
4BU2
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BU of 4bu2 by Molmil
60S ribosomal protein L27A histidine hydroxylase (MINA53) in complex with Ni(II) and 2-oxoglutarate (2OG)
Descriptor: 1,2-ETHANEDIOL, 2-OXOGLUTARIC ACID, BIFUNCTIONAL LYSINE-SPECIFIC DEMETHYLASE AND HISTIDYL-HYDROXYLASE MINA, ...
Authors:Chowdhury, R, Clifton, I.J, McDonough, M.A, Ng, S.S, Pilka, E, Oppermann, U, Schofield, C.J.
Deposit date:2013-06-19
Release date:2014-05-14
Last modified:2019-02-06
Method:X-RAY DIFFRACTION (2.78 Å)
Cite:Ribosomal oxygenases are structurally conserved from prokaryotes to humans.
Nature, 510, 2014

 

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