1V9K
 
 | | The crystal structure of the catalytic domain of pseudouridine synthase RluC from Escherichia coli | | Descriptor: | Ribosomal large subunit pseudouridine synthase C, SULFATE ION | | Authors: | Machida, Y, Mizutani, K, Unzai, S, Park, S.-Y, Tame, J.R.H. | | Deposit date: | 2004-01-26 | | Release date: | 2004-05-18 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystal structures of the catalytic domains of pseudouridine synthases RluC and RluD from Escherichia coli
Biochemistry, 43, 2004
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5WTL
 | | Crystal structure of the periplasmic portion of outer membrane protein A (OmpA) from Capnocytophaga gingivalis | | Descriptor: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, CALCIUM ION, OmpA family protein, ... | | Authors: | Dai, S, Tan, K, Ye, S, Zhang, R. | | Deposit date: | 2016-12-13 | | Release date: | 2017-12-13 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.298 Å) | | Cite: | Structure of thrombospondin type 3 repeats in bacterial outer membrane protein A reveals its intra-repeat disulfide bond-dependent calcium-binding capability.
Cell Calcium, 66, 2017
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5WTP
 | | Crystal structure of the C-terminal domain of outer membrane protein A (OmpA) from Capnocytophaga gingivalis | | Descriptor: | OmpA family protein, SULFATE ION | | Authors: | Dai, S, Tan, K, Ye, S, Zhang, R. | | Deposit date: | 2016-12-13 | | Release date: | 2017-12-13 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.15 Å) | | Cite: | Structure of thrombospondin type 3 repeats in bacterial outer membrane protein A reveals its intra-repeat disulfide bond-dependent calcium-binding capability.
Cell Calcium, 66, 2017
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5WTQ
 | | Crystal structure of human proteasome-assembling chaperone PAC4 | | Descriptor: | CHLORIDE ION, NICKEL (II) ION, Proteasome assembly chaperone 4 | | Authors: | Kurimoto, E, Satoh, T, Ito, Y, Ishihara, E, Tanaka, K, Kato, K. | | Deposit date: | 2016-12-13 | | Release date: | 2017-03-22 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of human proteasome assembly chaperone PAC4 involved in proteasome formation
Protein Sci., 26, 2017
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8I09
 | | Crystal structure of serine acetyltransferase from Salmonella typhimurium complexed with butyl gallate | | Descriptor: | CYSTEINE, PHOSPHATE ION, Serine acetyltransferase, ... | | Authors: | Toyomoto, T, Ono, K, Shiba, T, Momitani, K, Zhang, T, Tsutsuki, H, Ishikawa, T, Hoso, K, Hamada, K, Rahman, A, Zhong, H, Akaike, T, Yamamoto, K, Matsuoka, M, Hanaoka, K, Niidome, T, Sawa, T. | | Deposit date: | 2023-01-10 | | Release date: | 2023-11-22 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Alkyl gallates inhibit serine O -acetyltransferase in bacteria and enhance susceptibility of drug-resistant Gram-negative bacteria to antibiotics.
Front Microbiol, 14, 2023
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8I06
 | | Crystal structure of serine acetyltransferase from Salmonella typhimurium complexed with CoA | | Descriptor: | COENZYME A, CYSTEINE, Serine acetyltransferase | | Authors: | Toyomoto, T, Ono, K, Shiba, T, Momitani, K, Zhang, T, Tsutsuki, H, Ishikawa, T, Hoso, K, Hamada, K, Rahman, A, Zhong, H, Akaike, T, Yamamoto, K, Matsuoka, M, Hanaoka, K, Niidome, T, Sawa, T. | | Deposit date: | 2023-01-10 | | Release date: | 2023-11-22 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Alkyl gallates inhibit serine O -acetyltransferase in bacteria and enhance susceptibility of drug-resistant Gram-negative bacteria to antibiotics.
Front Microbiol, 14, 2023
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8I04
 | | Crystal structure of serine acetyltransferase from Salmonella typhimurium complexed with serine | | Descriptor: | PHOSPHATE ION, SERINE, Serine acetyltransferase | | Authors: | Toyomoto, T, Ono, K, Shiba, T, Momitani, K, Zhang, T, Tsutsuki, H, Ishikawa, T, Hoso, K, Hamada, K, Rahman, A, Zhong, H, Akaike, T, Yamamoto, K, Matsuoka, M, Hanaoka, K, Niidome, T, Sawa, T. | | Deposit date: | 2023-01-10 | | Release date: | 2023-11-22 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Alkyl gallates inhibit serine O -acetyltransferase in bacteria and enhance susceptibility of drug-resistant Gram-negative bacteria to antibiotics.
Front Microbiol, 14, 2023
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4V8X
 | | Structure of Thermus thermophilus ribosome | | Descriptor: | 16S ribosomal RNA, 23S ribosomal RNA, 30S RIBOSOMAL PROTEIN S10, ... | | Authors: | Feng, S, Chen, Y, Kamada, K, Wang, H, Tang, K, Wang, M, Gao, Y.G. | | Deposit date: | 2013-07-19 | | Release date: | 2014-07-09 | | Last modified: | 2024-01-10 | | Method: | X-RAY DIFFRACTION (3.35 Å) | | Cite: | Yoeb-Ribosome Structure: A Canonical Rnase that Requires the Ribosome for its Specific Activity.
Nucleic Acids Res., 41, 2013
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1WDW
 | | Structural basis of mutual activation of the tryptophan synthase a2b2 complex from a hyperthermophile, Pyrococcus furiosus | | Descriptor: | PYRIDOXAL-5'-PHOSPHATE, Tryptophan synthase alpha chain, Tryptophan synthase beta chain 1 | | Authors: | Lee, S.J, Ogasahara, K, Ma, J, Nishio, K, Ishida, M, Yamagata, Y, Tsukihara, T, Yutani, K, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2004-05-19 | | Release date: | 2005-07-12 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Conformational Changes in the Tryptophan Synthase from a Hyperthermophile upon alpha(2)beta(2) Complex Formation: Crystal Structure of the Complex
Biochemistry, 44, 2005
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2HED
 | | CONTRIBUTION OF WATER MOLECULES IN THE INTERIOR OF A PROTEIN TO THE CONFORMATIONAL STABILITY | | Descriptor: | LYSOZYME, SODIUM ION | | Authors: | Takano, K, Funahashi, J, Yamagata, Y, Fujii, S, Yutani, K. | | Deposit date: | 1997-09-16 | | Release date: | 1998-01-14 | | Last modified: | 2021-11-03 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Contribution of water molecules in the interior of a protein to the conformational stability.
J.Mol.Biol., 274, 1997
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7YVW
 | | NMR determination of the 2:1 binding motif structure involving cytosine flipping out for the recognition of the CGG/CGG triad DNA | | Descriptor: | 3-[3-[(7-methyl-1,8-naphthyridin-2-yl)carbamoyloxy]propylamino]propyl ~{N}-(7-methyl-1,8-naphthyridin-2-yl)carbamate, DNA (5'-D(*CP*AP*TP*TP*CP*GP*GP*TP*TP*AP*G)-3'), DNA (5'-D(*CP*TP*AP*AP*CP*GP*GP*AP*AP*TP*G)-3') | | Authors: | Furuita, K, Yamada, T, Sakurabayashi, S, Nomura, M, Kojima, C, Nakatani, K. | | Deposit date: | 2022-08-19 | | Release date: | 2023-06-14 | | Last modified: | 2024-05-15 | | Method: | SOLUTION NMR | | Cite: | NMR determination of the 2:1 binding complex of naphthyridine carbamate dimer (NCD) and CGG/CGG triad in double-stranded DNA.
Nucleic Acids Res., 50, 2022
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4PDT
 | | Japanese Marasmius oreades lectin | | Descriptor: | Mannose recognizing lectin, SULFATE ION | | Authors: | Noma, Y, Shimokawa, M, Maeganeku, C, Motoshima, H, Watanabe, K, Minami, Y, Yagi, F. | | Deposit date: | 2014-04-22 | | Release date: | 2015-04-29 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.4 Å) | | Cite: | The structure of Japanese Marasmius oreades lectin at 1.40 Angstroms resolution.
To Be Published
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5IAU
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5INX
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4UX2
 | | Cryo-EM structure of antagonist-bound E2P gastric H,K-ATPase (SCH.E2. MgF) | | Descriptor: | POTASSIUM-TRANSPORTING ATPASE ALPHA CHAIN 1, POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA | | Authors: | Abe, K, Tani, K, Fujiyoshi, Y. | | Deposit date: | 2014-08-18 | | Release date: | 2014-09-17 | | Last modified: | 2014-11-12 | | Method: | ELECTRON CRYSTALLOGRAPHY (7 Å) | | Cite: | Systematic Comparison of Molecular Conformations of H+,K+-ATPase Reveals an Important Contribution of the A-M2 Linker for the Luminal Gating.
J.Biol.Chem., 289, 2014
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4UX1
 | | Cryo-EM structure of antagonist-bound E2P gastric H,K-ATPase (SCH.E2. AlF) | | Descriptor: | POTASSIUM-TRANSPORTING ATPASE ALPHA CHAIN 1, POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA | | Authors: | Abe, K, Tani, K, Fujiyoshi, Y. | | Deposit date: | 2014-08-18 | | Release date: | 2014-09-17 | | Last modified: | 2014-11-12 | | Method: | ELECTRON CRYSTALLOGRAPHY (8 Å) | | Cite: | Systematic Comparison of Molecular Conformations of H+,K+-ATPase Reveals an Important Contribution of the A-M2 Linker for the Luminal Gating.
J.Biol.Chem., 289, 2014
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6LL8
 | | Type II inorganic pyrophosphatase (PPase) from the psychrophilic bacterium Shewanella sp. AS-11, Mg-PNP form | | Descriptor: | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, CALCIUM ION, FLUORIDE ION, ... | | Authors: | Horitani, M, Kusubayashi, K, Oshima, K, Yato, A, Sugimoto, H, Watanabe, K. | | Deposit date: | 2019-12-21 | | Release date: | 2020-03-25 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.3 Å) | | Cite: | X-ray Crystallography and Electron Paramagnetic Resonance Spectroscopy Reveal Active Site Rearrangement of Cold-Adapted Inorganic Pyrophosphatase.
Sci Rep, 10, 2020
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2RJ2
 | | Crystal Structure of the Sugar Recognizing SCF Ubiquitin Ligase at 1.7 Resolution | | Descriptor: | CHLORIDE ION, F-box only protein 2, NICKEL (II) ION | | Authors: | Vaijayanthimala, S, Velmurugan, D, Mizushima, T, Yamane, T, Yoshida, Y, Tanaka, K. | | Deposit date: | 2007-10-14 | | Release date: | 2008-10-14 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Crystal Structure of the Sugar Recognizing SCF Ubiquitin Ligase at 1.7 Resolution
To be Published
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7YRK
 | | Crystal structure of the hen egg lysozyme-2-oxidobenzylidene-threoninato-copper (II) complex | | Descriptor: | (6~{S})-6-[(1~{R})-1-oxidanylethyl]-2,4-dioxa-7$l^{4}-aza-3$l^{3}-cupratricyclo[7.4.0.0^{3,7}]trideca-1(13),7,9,11-tetraen-5-one, 1,2-ETHANEDIOL, CHLORIDE ION, ... | | Authors: | Unno, M, Furuya, T, Kitanishi, K, Akitsu, T. | | Deposit date: | 2022-08-10 | | Release date: | 2023-05-10 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (0.92 Å) | | Cite: | A novel hybrid protein composed of superoxide-dismutase-active Cu(II) complex and lysozyme.
Sci Rep, 13, 2023
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7DQE
 | | Crystal structure of the ADP-bound mutant A(S23C)3B(N64C)3 complex from enterococcus hirae V-ATPase | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, SULFATE ION, ... | | Authors: | Maruyama, S, Nakamoto, K, Suzuki, K, Mizutani, K, Imai, F.L, Ishizuka-Katsura, Y, Shirouzu, M, Murata, T. | | Deposit date: | 2020-12-23 | | Release date: | 2021-12-29 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.694 Å) | | Cite: | The Combination of High-Speed AFM and X-ray Crystallography Reveals Rotary Catalytic Mechanism of Shaftless V1-ATPase
To Be Published
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7DQD
 | | Crystal structure of the AMP-PNP-bound mutant A(S23C)3B(N64C)3 complex from enterococcus hirae V-ATPase | | Descriptor: | GLYCEROL, MAGNESIUM ION, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, ... | | Authors: | Maruyama, S, Suzuki, K, Mizutani, K, Imai, F.L, Ishizuka-Katsura, Y, Shirouzu, M, Murata, T. | | Deposit date: | 2020-12-23 | | Release date: | 2021-12-29 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (3.383 Å) | | Cite: | The combination of high-speed AFM and X-ray crystallography reveals rotary catalysis
To Be Published
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7DQC
 | | Crystal structure of nucleotide-free mutant A(S23C)3B(N64C)3 complex from Enterococcus hirae V-ATPase | | Descriptor: | GLYCEROL, V-type sodium ATPase catalytic subunit A, V-type sodium ATPase subunit B | | Authors: | Maruyama, S, Suzuki, K, Mizutani, K, Imai, F.L, Ishizuka-Katsura, Y, Shirouzu, M, Murata, M. | | Deposit date: | 2020-12-23 | | Release date: | 2021-12-29 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.706 Å) | | Cite: | The combination of high-speed AFM and X-ray crystallography reveals rotary catalytic mechanism of shaftless V1-ATPase
To Be Published
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3VLE
 | | Crystal structure of yeast proteasome interacting protein | | Descriptor: | DNA mismatch repair protein HSM3 | | Authors: | Takagi, K, Kim, S, Kato, K, Tanaka, K, Saeki, Y, Mizushima, T. | | Deposit date: | 2011-12-01 | | Release date: | 2012-02-22 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.41 Å) | | Cite: | Structural basis for specific recognition of Rpt1, an ATPase subunit of the 26S proteasome, by a proteasome-dedicated chaperone Hsm3
J.Biol.Chem., 287, 2012
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3VLD
 | | Crystal structure of yeast proteasome interacting protein | | Descriptor: | DNA mismatch repair protein HSM3 | | Authors: | Takagi, K, Kim, S, Kato, K, Tanaka, K, Saeki, Y, Mizushima, T. | | Deposit date: | 2011-12-01 | | Release date: | 2012-02-22 | | Last modified: | 2012-04-18 | | Method: | X-RAY DIFFRACTION (2.05 Å) | | Cite: | Structural basis for specific recognition of Rpt1, an ATPase subunit of the 26S proteasome, by a proteasome-dedicated chaperone Hsm3
J.Biol.Chem., 287, 2012
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3VLF
 | | Crystal structure of yeast proteasome interacting protein | | Descriptor: | 26S protease regulatory subunit 7 homolog, DNA mismatch repair protein HSM3 | | Authors: | Takagi, K, Kim, S, Kato, K, Tanaka, K, Saeki, Y, Mizushima, T. | | Deposit date: | 2011-12-01 | | Release date: | 2012-02-22 | | Last modified: | 2023-12-06 | | Method: | X-RAY DIFFRACTION (3.8 Å) | | Cite: | Structural basis for specific recognition of Rpt1, an ATPase subunit of the 26S proteasome, by a proteasome-dedicated chaperone Hsm3
J.Biol.Chem., 287, 2012
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