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1CRY
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BU of 1cry by Molmil
APPLICATION OF AN AUTOMATIC MOLECULAR REPLACEMENT PROCEDURE TO CRYSTAL STRUCTURE OF CYTOCHROME C2 FROM RHODOPSEUDOMONAS VIRIDIS
Descriptor: CYTOCHROME C2, HEME C
Authors:Miki, K, Sogabe, S.
Deposit date:1993-12-27
Release date:1994-04-30
Last modified:2021-03-03
Method:X-RAY DIFFRACTION (3 Å)
Cite:Application of an automatic molecular-replacement procedure to crystal structure analysis of cytochrome c2 from Rhodopseudomonas viridis.
Acta Crystallogr.,Sect.D, 50, 1994
1CO6
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BU of 1co6 by Molmil
CRYSTAL STRUCTURE OF FERROCYTOCHROME C2 FROM RHODOPSEUDOMONAS VIRIDIS
Descriptor: HEME C, PROTEIN (CYTOCHROME C2)
Authors:Miki, K, Sogabe, S.
Deposit date:1999-06-05
Release date:1999-06-18
Last modified:2023-08-09
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Refined crystal structure of ferrocytochrome c2 from Rhodopseudomonas viridis at 1.6 A resolution.
J.Mol.Biol., 252, 1995
1QNF
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BU of 1qnf by Molmil
STRUCTURE OF PHOTOLYASE
Descriptor: 8-HYDROXY-10-(D-RIBO-2,3,4,5-TETRAHYDROXYPENTYL)-5-DEAZAISOALLOXAZINE, FLAVIN-ADENINE DINUCLEOTIDE, PHOTOLYASE
Authors:Miki, K, Kitadokoro, K.
Deposit date:1997-07-04
Release date:1998-01-14
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal structure of DNA photolyase from Anacystis nidulans
Nat.Struct.Biol., 4, 1997
1IO3
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BU of 1io3 by Molmil
CRYSTAL STRUCTURE OF FERRICYTOCHROME C2 FROM RHODOPSEUDOMONAS VIRIDIS
Descriptor: CYTOCHROME C2, HEME C
Authors:Miki, K, Sogabe, S.
Deposit date:2001-01-06
Release date:2001-04-18
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal structure of the oxidized cytochrome c(2) from Blastochloris viridis.
FEBS Lett., 491, 2001
2YQH
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BU of 2yqh by Molmil
Crystal structure of uridine-diphospho-N-acetylglucosamine pyrophosphorylase from Candida albicans, in the substrate-binding form
Descriptor: 2-acetamido-2-deoxy-1-O-phosphono-alpha-D-glucopyranose, GLYCEROL, MAGNESIUM ION, ...
Authors:Miki, K, Maruyama, D, Nishitani, Y, Nonaka, T, Kita, A.
Deposit date:2007-03-30
Release date:2007-05-22
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystal Structure of Uridine-diphospho-N-acetylglucosamine Pyrophosphorylase from Candida albicans and Catalytic Reaction Mechanism
J.Biol.Chem., 282, 2007
2YQS
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BU of 2yqs by Molmil
Crystal structure of uridine-diphospho-N-acetylglucosamine pyrophosphorylase from Candida albicans, in the product-binding form
Descriptor: GLYCEROL, MAGNESIUM ION, SULFATE ION, ...
Authors:Miki, K, Maruyama, D, Nishitani, Y, Nonaka, T, Kita, A.
Deposit date:2007-03-30
Release date:2007-05-22
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystal Structure of Uridine-diphospho-N-acetylglucosamine Pyrophosphorylase from Candida albicans and Catalytic Reaction Mechanism
J.Biol.Chem., 282, 2007
2YQC
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BU of 2yqc by Molmil
Crystal Structure of uridine-diphospho-N-acetylglucosamine pyrophosphorylase from Candida albicans, in the apo-like form
Descriptor: GLYCEROL, MAGNESIUM ION, UDP-N-acetylglucosamine pyrophosphorylase
Authors:Miki, K, Maruyama, D, Nishitani, Y, Nonaka, T, Kita, A.
Deposit date:2007-03-30
Release date:2007-05-22
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal Structure of Uridine-diphospho-N-acetylglucosamine Pyrophosphorylase from Candida albicans and Catalytic Reaction Mechanism
J.Biol.Chem., 282, 2007
2YQJ
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BU of 2yqj by Molmil
Crystal Structure of uridine-diphospho-N-acetylglucosamine pyrophosphorylase from Candida albicans, in the reaction-completed form
Descriptor: GLYCEROL, MAGNESIUM ION, SULFATE ION, ...
Authors:Miki, K, Maruyama, D, Nishitani, Y, Nonaka, T, Kita, A.
Deposit date:2007-03-30
Release date:2007-05-22
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.31 Å)
Cite:Crystal Structure of Uridine-diphospho-N-acetylglucosamine Pyrophosphorylase from Candida albicans and Catalytic Reaction Mechanism
J.Biol.Chem., 282, 2007
4V8K
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BU of 4v8k by Molmil
Crystal structure of the LH1-RC complex from Thermochromatium tepidum in P21 form
Descriptor: BACTERIOCHLOROPHYLL A, BACTERIOPHEOPHYTIN A, CALCIUM ION, ...
Authors:Niwa, S, Takeda, K, Wang-Otomo, Z.-Y, Miki, K.
Deposit date:2013-11-22
Release date:2014-07-09
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (3.006 Å)
Cite:Structure of the LH1-RC complex from Thermochromatium tepidum at 3.0 angstrom
Nature, 508, 2014
7BXV
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BU of 7bxv by Molmil
11A1 antibody-peptide complex
Descriptor: 1,2-ETHANEDIOL, Fab of the 11A1 antibody H chain, Fab of the 11A1 antibody L chain, ...
Authors:Irie, K, Irie, Y, Kita, A, Miki, K.
Deposit date:2020-04-21
Release date:2021-04-21
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:APOE epsilon 4 allele advances the age-dependent decline of amyloid beta clearance in the human cortex.
Biorxiv, 2022
5WQR
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BU of 5wqr by Molmil
High resolution structure of high-potential iron-sulfur protein in the reduced state
Descriptor: GLYCEROL, High-potential iron-sulfur protein, IRON/SULFUR CLUSTER, ...
Authors:Ohno, H, Takeda, K, Niwa, S, Tsujinaka, T, Hanazono, Y, Hirano, Y, Miki, K.
Deposit date:2016-11-28
Release date:2017-06-07
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (0.8 Å)
Cite:Crystallographic characterization of the high-potential iron-sulfur protein in the oxidized state at 0.8 angstrom resolution
PLoS ONE, 12, 2017
8H8Q
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BU of 8h8q by Molmil
Fab-amyloid beta fragment complex at neutral pH
Descriptor: CHLORIDE ION, Fab, GLN-LYS-CYS-VAL-PHE-PHE-ALA-GLU-ASP-VAL-GLY-SER-ASN-CYS-GLY, ...
Authors:Kita, A, Irie, K, Irie, Y, Matsushima, Y, Miki, K.
Deposit date:2022-10-24
Release date:2023-10-25
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Fab-amyloid beta fragment complex at neutral pH
To Be Published
3HRX
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BU of 3hrx by Molmil
Crystal structure of phenylacetic acid degradation protein PaaG
Descriptor: Probable enoyl-CoA hydratase
Authors:Kichise, T, Hisano, T, Takeda, K, Miki, K.
Deposit date:2009-06-10
Release date:2009-06-23
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Crystal structure of phenylacetic acid degradation protein PaaG from Thermus thermophilus HB8
Proteins, 76, 2009
5AUQ
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BU of 5auq by Molmil
Crystal structure of ATPase-type HypB in the nucleotide free state
Descriptor: ATPase involved in chromosome partitioning, ParA/MinD family, Mrp homolog, ...
Authors:Watanabe, S, Kawashima, T, Nishitani, Y, Miki, K.
Deposit date:2015-05-27
Release date:2015-06-24
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.525 Å)
Cite:Structural basis of a Ni acquisition cycle for [NiFe] hydrogenase by Ni-metallochaperone HypA and its enhancer
Proc.Natl.Acad.Sci.USA, 112, 2015
3KDO
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BU of 3kdo by Molmil
Crystal structure of Type III Rubisco SP6 mutant complexed with 2-CABP
Descriptor: 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE, MAGNESIUM ION, Ribulose bisphosphate carboxylase
Authors:Nishitani, Y, Fujihashi, M, Doi, T, Yoshida, S, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2009-10-23
Release date:2010-10-06
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.36 Å)
Cite:Structure-based catalytic optimization of a type III Rubisco from a hyperthermophile
J.Biol.Chem., 285, 2010
3KDN
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BU of 3kdn by Molmil
Crystal structure of Type III Rubisco SP4 mutant complexed with 2-CABP
Descriptor: 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE, MAGNESIUM ION, Ribulose bisphosphate carboxylase
Authors:Nishitani, Y, Fujihashi, M, Doi, T, Yoshida, S, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2009-10-23
Release date:2010-10-06
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.09 Å)
Cite:Structure-based catalytic optimization of a type III Rubisco from a hyperthermophile
J.Biol.Chem., 285, 2010
5GV8
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BU of 5gv8 by Molmil
Structure of NADH-cytochrome b5 reductase refined with the multipolar atomic model at 0.78A
Descriptor: FLAVIN-ADENINE DINUCLEOTIDE, GLYCEROL, NADH-cytochrome b5 reductase 3
Authors:Takaba, K, Takeda, K, Miki, K.
Deposit date:2016-09-03
Release date:2017-04-05
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (0.78 Å)
Cite:Distribution of valence electrons of the flavin cofactor in NADH-cytochrome b5 reductase.
Sci Rep, 7, 2017
5GV7
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BU of 5gv7 by Molmil
Structure of NADH-cytochrome b5 reductase refined with the multipolar atomic model at 0.80 A
Descriptor: FLAVIN-ADENINE DINUCLEOTIDE, GLYCEROL, NADH-cytochrome b5 reductase 3
Authors:Takaba, K, Takeda, K, Miki, K.
Deposit date:2016-09-03
Release date:2017-04-05
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (0.8 Å)
Cite:Distribution of valence electrons of the flavin cofactor in NADH-cytochrome b5 reductase.
Sci Rep, 7, 2017
7VOS
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BU of 7vos by Molmil
High-resolution neutron and X-ray joint refined structure of high-potential iron-sulfur protein in the oxidized state
Descriptor: AMMONIUM ION, GLYCEROL, High-potential iron-sulfur protein, ...
Authors:Hanazono, Y, Hirano, Y, Takeda, K, Kusaka, K, Tamada, T, Miki, K.
Deposit date:2021-10-14
Release date:2022-06-01
Method:NEUTRON DIFFRACTION (0.66 Å), X-RAY DIFFRACTION
Cite:Revisiting the concept of peptide bond planarity in an iron-sulfur protein by neutron structure analysis.
Sci Adv, 8, 2022
6KL1
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BU of 6kl1 by Molmil
Crystal structure of the S65T/F99S/M153T/V163A variant of non-deuterated GFP at pD 8.5
Descriptor: Green fluorescent protein
Authors:Tai, Y, Takaba, K, Hanazono, Y, Dao, H.A, Miki, K, Takeda, K.
Deposit date:2019-07-28
Release date:2019-12-11
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (0.851 Å)
Cite:X-ray crystallographic studies on the hydrogen isotope effects of green fluorescent protein at sub-angstrom resolutions
Acta Crystallogr.,Sect.D, 75, 2019
6KL0
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BU of 6kl0 by Molmil
Crystal structure of the S65T/F99S/M153T/V163A variant of perdeuterated GFP at pD 7.0
Descriptor: Green fluorescent protein
Authors:Tai, Y, Takaba, K, Hanazono, Y, Miki, K, Takeda, K.
Deposit date:2019-07-28
Release date:2019-12-11
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (0.798 Å)
Cite:X-ray crystallographic studies on the hydrogen isotope effects of green fluorescent protein at sub-angstrom resolutions
Acta Crystallogr.,Sect.D, 75, 2019
6KKZ
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BU of 6kkz by Molmil
Crystal structure of the S65T/F99S/M153T/V163A variant of perdeuterated GFP at pD 8.5
Descriptor: Green fluorescent protein
Authors:Tai, Y, Takaba, K, Hanazono, Y, Dao, H.A, Miki, K, Takeda, K.
Deposit date:2019-07-28
Release date:2019-12-11
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (0.9 Å)
Cite:X-ray crystallographic studies on the hydrogen isotope effects of green fluorescent protein at sub-angstrom resolutions
Acta Crystallogr.,Sect.D, 75, 2019
6JGH
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BU of 6jgh by Molmil
Crystal structure of the F99S/M153T/V163A/T203I variant of GFP at 0.94 A
Descriptor: CHLORIDE ION, Green fluorescent protein
Authors:Eki, H, Tai, Y, Takaba, K, Hanazono, Y, Miki, K, Takeda, K.
Deposit date:2019-02-14
Release date:2019-04-17
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (0.94 Å)
Cite:Subatomic resolution X-ray structures of green fluorescent protein.
Iucrj, 6, 2019
6JGJ
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BU of 6jgj by Molmil
Crystal structure of the F99S/M153T/V163A/E222Q variant of GFP at 0.78 A
Descriptor: Green fluorescent protein, MAGNESIUM ION
Authors:Takaba, K, Tai, Y, Hanazono, Y, Miki, K, Takeda, K.
Deposit date:2019-02-14
Release date:2019-04-17
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (0.78 Å)
Cite:Subatomic resolution X-ray structures of green fluorescent protein.
Iucrj, 6, 2019
6JGI
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BU of 6jgi by Molmil
Crystal structure of the S65T/F99S/M153T/V163A variant of GFP at 0.85 A
Descriptor: Green fluorescent protein
Authors:Tai, Y, Takaba, K, Hanazono, Y, Miki, K, Takeda, K.
Deposit date:2019-02-14
Release date:2019-04-17
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (0.85 Å)
Cite:Subatomic resolution X-ray structures of green fluorescent protein.
Iucrj, 6, 2019

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