1WUN
 
 | | Human Factor Viia-Tissue Factor Complexed with ethylsulfonamide-D-Trp-Gln-p-aminobenzamidine | | Descriptor: | CALCIUM ION, Coagulation factor VII, N-(ETHYLSULFONYL)TRYPTOPHYL-N~1~-{4-[AMINO(IMINO)METHYL]BENZYL}GLUTAMAMIDE, ... | | Authors: | Kadono, S, Sakamoto, A, Kikuchi, Y, Oh-eda, M, Yabuta, N, Yoshihashi, K, Kitazawa, T, Suzuki, T, Koga, T, Hattori, K, Shiraishi, T, Haramura, M, Kodama, H, Ono, Y, Esaki, T, Sato, H, Watanabe, Y, Itoh, S, Ohta, M, Kozono, T. | | Deposit date: | 2004-12-08 | | Release date: | 2005-12-08 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Structure-based design of P3 moieties in the peptide mimetic factor VIIa inhibitor
Biochem.Biophys.Res.Commun., 327, 2005
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1WSS
 | | Human Factor Viia-Tissue Factor in Complex with peptide-mimetic inhibitor that has two charged groups in P2 and P4 | | Descriptor: | CALCIUM ION, Coagulation factor VII, N-[(3-CARBOXYBENZYL)SULFONYL]ISOLEUCYL-N~1~-{4-[AMINO(IMINO)METHYL]BENZYL}-5-IMINOORNITHINAMIDE, ... | | Authors: | Kadono, S, Sakamoto, A, Kikuchi, Y, Oh-Eda, M, Yabuta, N, Koga, T, Hattori, K, Shiraishi, T, Haramura, M, Kodama, H, Ono, Y, Esaki, T, Sato, H, Watanabe, Y, Itoh, S, Ohta, M, Kozono, T. | | Deposit date: | 2004-11-10 | | Release date: | 2005-11-10 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Structure of human factor VIIa/tissue factor in complex with a peptide-mimetic inhibitor: high selectivity against thrombin by introducing two charged groups in P2 and P4.
Acta Crystallogr.,Sect.F, 61, 2005
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1WV7
 | | Human Factor Viia-Tissue Factor Complexed with ethylsulfonamide-D-5-propoxy-Trp-Gln-p-aminobenzamidine | | Descriptor: | CALCIUM ION, Coagulation factor VII, N-(ETHYLSULFONYL)-5-PROPOXY-L-TRYPTOPHYL-N~1~-{4-[AMINO(IMINO)METHYL]BENZYL}-L-GLUTAMAMIDE, ... | | Authors: | Kadono, S, Sakamoto, A, Kikuchi, Y, Oh-eda, M, Yabuta, N, Yoshihashi, K, Kitazawa, T, Suzuki, T, Koga, T, Hattori, K, Shiraishi, T, Haramura, M, Kodama, H, Ono, Y, Esaki, T, Sato, H, Watanabe, Y, Itoh, S, Ohta, M, Kozono, T. | | Deposit date: | 2004-12-11 | | Release date: | 2005-12-11 | | Last modified: | 2025-03-26 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | Structure-based design of P3 moieties in the peptide mimetic factor VIIa inhibitor
Biochem.Biophys.Res.Commun., 327, 2005
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1X2T
 | | Crystal Structure of Habu IX-bp at pH 6.5 | | Descriptor: | CALCIUM ION, Coagulation factor IX/X-binding protein A chain, Coagulation factor IX/factor X-binding protein B chain, ... | | Authors: | Suzuki, N, Fujimoto, Z, Morita, T, Fukamizu, A, Mizuno, H. | | Deposit date: | 2005-04-26 | | Release date: | 2005-10-04 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (1.72 Å) | | Cite: | pH-Dependent Structural Changes at Ca(2+)-binding sites of Coagulation Factor IX-binding Protein
J.Mol.Biol., 353, 2005
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2ZZF
 | | Crystal structure of alanyl-tRNA synthetase without oligomerization domain | | Descriptor: | Alanyl-tRNA synthetase, ZINC ION | | Authors: | Sokabe, M, Ose, T, Tokunaga, K, Nakamura, A, Nureki, O, Yao, M, Tanaka, I. | | Deposit date: | 2009-02-10 | | Release date: | 2009-07-21 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | The structure of alanyl-tRNA synthetase with editing domain.
Proc.Natl.Acad.Sci.USA, 106, 2009
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2ZZG
 | | Crystal structure of alanyl-tRNA synthetase in complex with 5''-O-(N-(L-alanyl)-sulfamyoxyl) adenine without oligomerization domain | | Descriptor: | '5'-O-(N-(L-ALANYL)-SULFAMOYL)ADENOSINE, Alanyl-tRNA synthetase, ZINC ION | | Authors: | Sokabe, M, Ose, T, Tokunaga, K, Nakamura, A, Nureki, O, Yao, M, Tanaka, I. | | Deposit date: | 2009-02-10 | | Release date: | 2009-07-21 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (3.1 Å) | | Cite: | The structure of alanyl-tRNA synthetase with editing domain.
Proc.Natl.Acad.Sci.USA, 106, 2009
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3B0U
 | | tRNA-dihydrouridine synthase from Thermus thermophilus in complex with tRNA fragment | | Descriptor: | FLAVIN MONONUCLEOTIDE, RNA (5'-R(*GP*GP*(H2U)P*A)-3'), tRNA-dihydrouridine synthase | | Authors: | Yu, F, Tanaka, Y, Yamashita, K, Nakamura, A, Yao, M, Tanaka, I. | | Deposit date: | 2011-06-14 | | Release date: | 2011-12-14 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.948 Å) | | Cite: | Molecular basis of dihydrouridine formation on tRNA
Proc.Natl.Acad.Sci.USA, 108, 2011
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3B0P
 | | tRNA-dihydrouridine synthase from Thermus thermophilus | | Descriptor: | FLAVIN MONONUCLEOTIDE, tRNA-dihydrouridine synthase | | Authors: | Yu, F, Tanaka, Y, Yamashita, K, Nakamura, A, Yao, M, Tanaka, I. | | Deposit date: | 2011-06-12 | | Release date: | 2011-12-14 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Molecular basis of dihydrouridine formation on tRNA
Proc.Natl.Acad.Sci.USA, 108, 2011
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3B0V
 | | tRNA-dihydrouridine synthase from Thermus thermophilus in complex with tRNA | | Descriptor: | FLAVIN MONONUCLEOTIDE, tRNA, tRNA-dihydrouridine synthase | | Authors: | Yu, F, Tanaka, Y, Yamashita, K, Nakamura, A, Yao, M, Tanaka, I. | | Deposit date: | 2011-06-14 | | Release date: | 2011-12-14 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (3.51 Å) | | Cite: | Molecular basis of dihydrouridine formation on tRNA
Proc.Natl.Acad.Sci.USA, 108, 2011
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2ZZE
 | | Crystal structure of alanyl-tRNA synthetase without oligomerization domain in lysine-methylated form | | Descriptor: | Alanyl-tRNA synthetase, ZINC ION | | Authors: | Sokabe, M, Ose, T, Tokunaga, K, Nakamura, A, Nureki, O, Yao, M, Tanaka, I. | | Deposit date: | 2009-02-10 | | Release date: | 2009-07-21 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.16 Å) | | Cite: | The structure of alanyl-tRNA synthetase with editing domain.
Proc.Natl.Acad.Sci.USA, 106, 2009
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6ACF
 | | structure of leucine dehydrogenase from Geobacillus stearothermophilus by cryo-EM | | Descriptor: | Leucine dehydrogenase | | Authors: | Yamaguchi, H, Kamegawa, A, Nakata, K, Kashiwagi, T, Mizukoshi, T, Fujiyoshi, Y, Tani, K. | | Deposit date: | 2018-07-26 | | Release date: | 2018-12-26 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (3 Å) | | Cite: | Structural insights into thermostabilization of leucine dehydrogenase from its atomic structure by cryo-electron microscopy
J. Struct. Biol., 205, 2019
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6ACH
 | | Structure of NAD+-bound leucine dehydrogenase from Geobacillus stearothermophilus by cryo-EM | | Descriptor: | Leucine dehydrogenase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE | | Authors: | Yamaguchi, H, Kamegawa, A, Nakata, K, Kashiwagi, T, Mizukoshi, T, Fujiyoshi, Y, Tani, K. | | Deposit date: | 2018-07-26 | | Release date: | 2018-12-26 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (3.2 Å) | | Cite: | Structural insights into thermostabilization of leucine dehydrogenase from its atomic structure by cryo-electron microscopy
J. Struct. Biol., 205, 2019
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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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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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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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3W20
 | | Crystal Structure of a Novel N-Substituted L-Amino Acid Dioxygenase from Burkholderia ambifaria AMMD | | Descriptor: | Putative uncharacterized protein, ZINC ION | | Authors: | Qin, H.M, Miyakawa, T, Jia, M.Z, Nakamura, A, Ohtsuka, J, Xue, Y.L, Kawashima, T, Kasahara, T, Hibi, M, Ogawa, J, Tanokura, M. | | Deposit date: | 2012-11-26 | | Release date: | 2013-07-17 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (1.77 Å) | | Cite: | Crystal Structure of a Novel N-Substituted L-Amino Acid Dioxygenase from Burkholderia ambifaria AMMD
Plos One, 8, 2013
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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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3W0R
 | | Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia (N202A), ternary complex with AMP-PNP and hygromycin B | | Descriptor: | HYGROMYCIN B VARIANT, Hygromycin-B 4-O-kinase, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER | | Authors: | Iino, D, Takakura, Y, Fukano, K, Sasaki, Y, Hoshino, T, Ohsawa, K, Nakamura, A, Yajima, S. | | Deposit date: | 2012-11-02 | | Release date: | 2013-08-07 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Crystal structures of the ternary complex of APH(4)-Ia/Hph with hygromycin B and an ATP analog using a thermostable mutant.
J.Struct.Biol., 183, 2013
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3W21
 | | Crystal Structure of a Novel N-Substituted L-Amino Acid Dioxygenase in complex with alpha-KG from Burkholderia ambifaria AMMD | | Descriptor: | 2-OXOGLUTARIC ACID, Putative uncharacterized protein, ZINC ION | | Authors: | Qin, H.M, Miyakawa, T, Jia, M.Z, Nakamura, A, Ohtsuka, J, Xue, Y.L, Kawashima, T, Kasahara, T, Hibi, M, Ogawa, J, Tanokura, M. | | Deposit date: | 2012-11-26 | | Release date: | 2013-07-17 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (1.98 Å) | | Cite: | Crystal Structure of a Novel N-Substituted L-Amino Acid Dioxygenase from Burkholderia ambifaria AMMD
Plos One, 8, 2013
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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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