1T0D
 
 | | Crystal Structure of 2-aminopurine labelled bacterial decoding site RNA | | Descriptor: | 5'-R(*CP*AP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*AP*CP*CP*C)-3', 5'-R(*GP*GP*UP*GP*GP*UP*GP*(MTU)P*AP*GP*UP*CP*GP*CP*UP*GP*G)-3' | | Authors: | Shandrick, S, Zhao, Q, Han, Q, Ayida, B.K, Takahashi, M, Winters, G.C, Simonsen, K.B, Vourloumis, D, Hermann, T. | | Deposit date: | 2004-04-08 | | Release date: | 2004-06-15 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Monitoring molecular recognition of the ribosomal decoding site.
Angew.Chem.Int.Ed.Engl., 43, 2004
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1T0E
 | | Crystal Structure of 2-aminopurine labelled bacterial decoding site RNA | | Descriptor: | 5'-R(*CP*GP*AP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*AP*CP*CP*C)-3', 5'-R(*GP*GP*UP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*CP*UP*CP*GP*G)-3', SULFATE ION | | Authors: | Shandrick, S, Zhao, Q, Han, Q, Ayida, B.K, Takahashi, M, Winters, G.C, Simonsen, K.B, Vourloumis, D, Hermann, T. | | Deposit date: | 2004-04-08 | | Release date: | 2004-06-15 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Monitoring molecular recognition of the ribosomal decoding site.
Angew.Chem.Int.Ed.Engl., 43, 2004
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3B0L
 | | M175G mutant of assimilatory nitrite reductase (Nii3) from tobbaco leaf | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-06-10 | | Release date: | 2012-02-22 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures
Protein Sci., 21, 2012
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3B0M
 | | M175K mutant of assimilatory nitrite reductase (Nii3) from tobbaco leaf | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-06-10 | | Release date: | 2012-02-22 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures
Protein Sci., 21, 2012
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3B0N
 | | Q448K mutant of assimilatory nitrite reductase (Nii3) from tobbaco leaf | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-06-10 | | Release date: | 2012-02-22 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures
Protein Sci., 21, 2012
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3B0G
 | | Assimilatory nitrite reductase (Nii3) from tobbaco leaf | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-06-09 | | Release date: | 2012-02-22 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.25 Å) | | Cite: | Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures
Protein Sci., 21, 2012
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2DDS
 | | Crystal structure of sphingomyelinase from Bacillus cereus with cobalt ion | | Descriptor: | COBALT (II) ION, Sphingomyelin phosphodiesterase | | Authors: | Ago, H, Oda, M, Takahashi, M, Tsuge, H, Ochi, S, Katunuma, N, Miyano, M, Sakurai, J, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2006-02-02 | | Release date: | 2006-05-02 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural Basis of the Sphingomyelin Phosphodiesterase Activity in Neutral Sphingomyelinase from Bacillus cereus.
J.Biol.Chem., 281, 2006
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2DDR
 | | Crystal structure of sphingomyelinase from Bacillus cereus with calcium ion | | Descriptor: | CALCIUM ION, Sphingomyelin phosphodiesterase | | Authors: | Ago, H, Oda, M, Takahashi, M, Tsuge, H, Ochi, S, Katunuma, N, Miyano, M, Sakurai, J, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2006-02-02 | | Release date: | 2006-05-02 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.4 Å) | | Cite: | Structural Basis of the Sphingomyelin Phosphodiesterase Activity in Neutral Sphingomyelinase from Bacillus cereus.
J.Biol.Chem., 281, 2006
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2CYA
 | | Crystal structure of tyrosyl-tRNA synthetase from Aeropyrum pernix | | Descriptor: | SULFATE ION, Tyrosyl-tRNA synthetase | | Authors: | Kuratani, M, Sakai, H, Takahashi, M, Yanagisawa, T, Kobayashi, T, Murayama, K, Chen, L, Liu, Z.J, Wang, B.C, Kuroishi, C, Kuramitsu, S, Terada, T, Bessho, Y, Shirouzu, M, Sekine, S.I, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2005-07-06 | | Release date: | 2005-11-22 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal Structures of Tyrosyl-tRNA Synthetases from Archaea
J.Mol.Biol., 355, 2005
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2CYC
 | | Crystal structure of Tyrosyl-tRNA Synthetase complexed with L-tyrosine from Pyrococcus horikoshii | | Descriptor: | TYROSINE, tyrosyl-tRNA synthetase | | Authors: | Kuratani, M, Sakai, H, Takahashi, M, Yanagisawa, T, Kobayashi, T, Sakamoto, K, Terada, T, Shirouzu, M, Sekine, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2005-07-06 | | Release date: | 2005-11-22 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal Structures of Tyrosyl-tRNA Synthetases from Archaea
J.Mol.Biol., 355, 2006
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2CYB
 | | Crystal structure of Tyrosyl-tRNA Synthetase complexed with L-tyrosine from Archaeoglobus fulgidus | | Descriptor: | TYROSINE, Tyrosyl-tRNA synthetase | | Authors: | Kuratani, M, Sakai, H, Takahashi, M, Yanagisawa, T, Kobayashi, T, Terada, T, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2005-07-06 | | Release date: | 2005-11-22 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Crystal Structures of Tyrosyl-tRNA Synthetases from Archaea
J.Mol.Biol., 355, 2006
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7DKE
 | | Stenotrophomonas maltophilia DPP7 in complex with Phe-Tyr | | Descriptor: | Dipeptidyl-peptidase, GLYCEROL, PHENYLALANINE, ... | | Authors: | Sakamoto, Y, Nakamura, A, Suzuki, Y, Honma, N, Roppongi, S, Kushibiki, C, Yonezawa, N, Takahashi, M, Shida, Y, Gouda, H, Nonaka, T, Ogasawara, W, Tanaka, N. | | Deposit date: | 2020-11-23 | | Release date: | 2021-11-03 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.91 Å) | | Cite: | Structural basis for an exceptionally strong preference for asparagine residue at the S2 subsite of Stenotrophomonas maltophilia dipeptidyl peptidase 7.
Sci Rep, 11, 2021
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5ZC9
 | | Crystal structure of the human eIF4A1-ATP analog-RocA-polypurine RNA complex | | Descriptor: | (1R,2R,3S,3aR,8bS)-6,8-dimethoxy-3a-(4-methoxyphenyl)-N,N-dimethyl-1,8b-bis(oxidanyl)-3-phenyl-2,3-dihydro-1H-cyclopenta[b][1]benzofuran-2-carboxamide, Eukaryotic initiation factor 4A-I, MAGNESIUM ION, ... | | Authors: | Iwasaki, W, Takahashi, M, Sakamoto, A, Iwasaki, S, Ito, T. | | Deposit date: | 2018-02-16 | | Release date: | 2019-01-16 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | The Translation Inhibitor Rocaglamide Targets a Bimolecular Cavity between eIF4A and Polypurine RNA.
Mol. Cell, 73, 2019
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7DKC
 | | Stenotrophomonas maltophilia DPP7 in complex with Tyr-Tyr | | Descriptor: | Dipeptidyl-peptidase, GLYCEROL, TYROSINE | | Authors: | Sakamoto, Y, Nakamura, A, Suzuki, Y, Honma, N, Roppongi, S, Kushibiki, C, Yonezawa, N, Takahashi, M, Shida, Y, Gouda, H, Nonaka, T, Ogasawara, W, Tanaka, N. | | Deposit date: | 2020-11-23 | | Release date: | 2021-11-03 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.86 Å) | | Cite: | Structural basis for an exceptionally strong preference for asparagine residue at the S2 subsite of Stenotrophomonas maltophilia dipeptidyl peptidase 7.
Sci Rep, 11, 2021
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3VKQ
 | | Assimilatory nitrite reductase (Nii3) - NO2 complex from tobbaco leaf analysed with middle X-ray dose | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, NITRITE ION, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-11-20 | | Release date: | 2012-04-25 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | The reductive reaction mechanism of tobacco nitrite reductase derived from a combination of crystal structures and ultraviolet-visible microspectroscopy
Proteins, 80, 2012
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3VKS
 | | Assimilatory nitrite reductase (Nii3) - NO complex from tobbaco leaf | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, NITRIC OXIDE, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-11-20 | | Release date: | 2012-04-25 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.4 Å) | | Cite: | The reductive reaction mechanism of tobacco nitrite reductase derived from a combination of crystal structures and ultraviolet-visible microspectroscopy
Proteins, 80, 2012
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3VLY
 | | Assimilatory nitrite reductase (Nii3) - N226K mutant - SO3 partial complex from tobacco leaf | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-12-05 | | Release date: | 2012-09-26 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.55 Å) | | Cite: | X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity
Chem.Biodivers., 9, 2012
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3VM0
 | | Assimilatory nitrite reductase (Nii3) - N226K mutant - NO2 complex from tobacco leaf | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, NITRITE ION, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-12-05 | | Release date: | 2012-09-26 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.695 Å) | | Cite: | X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity
Chem.Biodivers., 9, 2012
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3VM1
 | | assimilatory nitrite reductase (Nii3) - N226K mutant - HCO3 complex from tobacco leaf | | Descriptor: | BICARBONATE ION, CHLORIDE ION, IRON/SULFUR CLUSTER, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-12-05 | | Release date: | 2012-09-26 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity
Chem.Biodivers., 9, 2012
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3VKP
 | | Assimilatory nitrite reductase (Nii3) - NO2 complex from tobbaco leaf analysed with low X-ray dose | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, NITRITE ION, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-11-20 | | Release date: | 2012-04-25 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.4 Å) | | Cite: | The reductive reaction mechanism of tobacco nitrite reductase derived from a combination of crystal structures and ultraviolet-visible microspectroscopy
Proteins, 80, 2012
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3VKT
 | | Assimilatory nitrite reductase (Nii3) - NH2OH complex from tobbaco leaf | | Descriptor: | CHLORIDE ION, HYDROXYAMINE, IRON/SULFUR CLUSTER, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-11-20 | | Release date: | 2012-04-25 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.3 Å) | | Cite: | The reductive reaction mechanism of tobacco nitrite reductase derived from a combination of crystal structures and ultraviolet-visible microspectroscopy
Proteins, 80, 2012
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3VLX
 | | Assimilatory nitrite reductase (Nii3) - N226K mutant - ligand free form from tobacco leaf | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-12-05 | | Release date: | 2012-09-26 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.35 Å) | | Cite: | X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity
Chem.Biodivers., 9, 2012
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3VKR
 | | Assimilatory nitrite reductase (Nii3) - NO2 complex from tobbaco leaf analysed with high X-ray dose | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, NITRITE ION, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-11-20 | | Release date: | 2012-04-25 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | The reductive reaction mechanism of tobacco nitrite reductase derived from a combination of crystal structures and ultraviolet-visible microspectroscopy
Proteins, 80, 2012
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3VLZ
 | | Assimilatory nitrite reductase (Nii3) - N226K mutant - SO3 full complex from tobacco leaf | | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | Deposit date: | 2011-12-05 | | Release date: | 2012-09-26 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.07 Å) | | Cite: | X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity
Chem.Biodivers., 9, 2012
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7DKD
 | | Stenotrophomonas maltophilia DPP7 in complex with Asn-Tyr | | Descriptor: | ASPARAGINE, Dipeptidyl-peptidase, GLYCEROL, ... | | Authors: | Sakamoto, Y, Nakamura, A, Suzuki, Y, Honma, N, Roppongi, S, Kushibiki, C, Yonezawa, N, Takahashi, M, Shida, Y, Gouda, H, Nonaka, T, Ogasawara, W, Tanaka, N. | | Deposit date: | 2020-11-23 | | Release date: | 2021-11-03 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.92 Å) | | Cite: | Structural basis for an exceptionally strong preference for asparagine residue at the S2 subsite of Stenotrophomonas maltophilia dipeptidyl peptidase 7.
Sci Rep, 11, 2021
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