2E1O
 
 | | Solution structure of RSGI RUH-028, a homeobox domain from human cDNA | | Descriptor: | Homeobox protein PRH | | Authors: | Nakamura, A, Ohnishi, S, Abe, T, Nameki, N, Tochio, N, Koshiba, S, Kigawa, T, Yokoyama, S, Kawaii, S, Hirota, H, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2006-10-27 | | Release date: | 2006-11-14 | | Last modified: | 2024-05-29 | | Method: | SOLUTION NMR | | Cite: | Solution structure of RSGI RUH-028, a homeobox domain from human cDNA
To be Published
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2DF4
 | | Structure of tRNA-Dependent Amidotransferase GatCAB complexed with Mn2+ | | Descriptor: | Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B, Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit C, Glutamyl-tRNA(Gln) amidotransferase subunit A, ... | | Authors: | Nakamura, A, Yao, M, Tanaka, I. | | Deposit date: | 2006-02-23 | | Release date: | 2006-07-18 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (3.2 Å) | | Cite: | Ammonia channel couples glutaminase with transamidase reactions in GatCAB
Science, 312, 2006
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2DQN
 | | Structure of tRNA-Dependent Amidotransferase GatCAB complexed with Asn | | Descriptor: | ASPARAGINE, Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B, Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit C, ... | | Authors: | Nakamura, A, Yao, M, Tanaka, I. | | Deposit date: | 2006-05-29 | | Release date: | 2006-07-18 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2.55 Å) | | Cite: | Ammonia channel couples glutaminase with transamidase reactions in GatCAB
Science, 312, 2006
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2G5I
 | | Structure of tRNA-Dependent Amidotransferase GatCAB complexed with ADP-AlF4 | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B, Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit C, ... | | Authors: | Nakamura, A, Yao, M, Tanaka, I. | | Deposit date: | 2006-02-23 | | Release date: | 2006-07-18 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (3.35 Å) | | Cite: | Ammonia channel couples glutaminase with transamidase reactions in GatCAB
Science, 312, 2006
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2G5H
 | | Structure of tRNA-Dependent Amidotransferase GatCAB | | Descriptor: | Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B, Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit C, Glutamyl-tRNA(Gln) amidotransferase subunit A, ... | | Authors: | Nakamura, A, Yao, M, Tanaka, I. | | Deposit date: | 2006-02-23 | | Release date: | 2006-07-18 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Ammonia channel couples glutaminase with transamidase reactions in GatCAB
Science, 312, 2006
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2F2A
 | | Structure of tRNA-Dependent Amidotransferase GatCAB complexed with Gln | | Descriptor: | Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B, Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit C, GLUTAMINE, ... | | Authors: | Nakamura, A, Yao, M, Tanaka, I. | | Deposit date: | 2005-11-15 | | Release date: | 2006-07-18 | | Last modified: | 2024-12-25 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Ammonia channel couples glutaminase with transamidase reactions in GatCAB
Science, 312, 2006
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3VM6
 | | Crystal structure of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1 in complex with alpha-D-ribose-1,5-bisphosphate | | Descriptor: | 1,5-di-O-phosphono-alpha-D-ribofuranose, CHLORIDE ION, DI(HYDROXYETHYL)ETHER, ... | | Authors: | Nakamura, A, Fujihashi, M, Aono, R, Sato, T, Nishiba, Y, Yoshida, S, Yano, A, Atomi, H, Imanaka, T, Miki, K. | | Deposit date: | 2011-12-08 | | Release date: | 2012-04-25 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.85 Å) | | Cite: | Dynamic, ligand-dependent conformational change triggers reaction of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1
J.Biol.Chem., 287, 2012
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3WC0
 | | Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with GTP | | Descriptor: | GUANOSINE-5'-TRIPHOSPHATE, Likely histidyl tRNA-specific guanylyltransferase, MAGNESIUM ION | | Authors: | Nakamura, A, Nemoto, T, Sonoda, T, Yamashita, K, Tanaka, I, Yao, M. | | Deposit date: | 2013-05-24 | | Release date: | 2013-12-18 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.03 Å) | | Cite: | Structural basis of reverse nucleotide polymerization
Proc.Natl.Acad.Sci.USA, 110, 2013
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3WC1
 | | Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with a G-1 deleted tRNA(His) | | Descriptor: | 75-mer tRNA, Likely histidyl tRNA-specific guanylyltransferase | | Authors: | Nakamura, A, Nemoto, T, Sonoda, T, Yamashita, K, Tanaka, I, Yao, M. | | Deposit date: | 2013-05-24 | | Release date: | 2013-12-18 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (4.18 Å) | | Cite: | Structural basis of reverse nucleotide polymerization
Proc.Natl.Acad.Sci.USA, 110, 2013
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6KLM
 | | NMR solution structure of Roseltide rT7 | | Descriptor: | Roseltide rT7 | | Authors: | Fan, J.S, Kam, A, Loo, S, Yang, D, Tam, P.J. | | Deposit date: | 2019-07-30 | | Release date: | 2019-11-20 | | Last modified: | 2024-10-30 | | Method: | SOLUTION NMR | | Cite: | Roseltide rT7 is a disulfide-rich, anionic, and cell-penetrating peptide that inhibits proteasomal degradation.
J.Biol.Chem., 294, 2019
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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: | 2024-11-13 | | 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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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: | 2024-11-06 | | 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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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: | 2024-11-06 | | 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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7DKB
 | | Stenotrophomonas maltophilia DPP7 in complex with Val-Tyr | | Descriptor: | Dipeptidyl-peptidase, TYROSINE, VALINE | | 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: | 2024-11-06 | | Method: | X-RAY DIFFRACTION (2.03 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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1CZC
 | | ASPARTATE AMINOTRANSFERASE MUTANT ATB17/139S/142N WITH GLUTARIC ACID | | Descriptor: | GLUTARIC ACID, PROTEIN (ASPARTATE AMINOTRANSFERASE), PYRIDOXAL-5'-PHOSPHATE | | Authors: | Okamoto, A, Oue, S, Yano, T, Kagamiyama, H. | | Deposit date: | 1999-09-02 | | Release date: | 2000-02-28 | | Last modified: | 2023-08-09 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Cocrystallization of a mutant aspartate aminotransferase with a C5-dicarboxylic substrate analog: structural comparison with the enzyme-C4-dicarboxylic analog complex.
J.Biochem.(Tokyo), 127, 2000
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1CZE
 | | ASPARTATE AMINOTRANSFERASE MUTANT ATB17/139S/142N WITH SUCCINIC ACID | | Descriptor: | ASPARTATE AMINOTRANSFERASE, PYRIDOXAL-5'-PHOSPHATE, SUCCINIC ACID | | Authors: | Okamoto, A, Oue, S, Yano, T, Kagamiyama, H. | | Deposit date: | 1999-09-02 | | Release date: | 2000-02-28 | | Last modified: | 2023-08-09 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Cocrystallization of a mutant aspartate aminotransferase with a C5-dicarboxylic substrate analog: structural comparison with the enzyme-C4-dicarboxylic analog complex.
J.Biochem.(Tokyo), 127, 2000
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6RWX
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6RWK
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4TQD
 | | Crystal Structure of the C-terminal domain of IFRS bound with 3-iodo-L-Phe and ATP | | Descriptor: | 1,2-ETHANEDIOL, 3-iodo-L-phenylalanine, ADENOSINE-5'-TRIPHOSPHATE, ... | | Authors: | Nakamura, A, O'Donoghue, P, Soll, D. | | Deposit date: | 2014-06-11 | | Release date: | 2014-11-12 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.1429 Å) | | Cite: | Polyspecific pyrrolysyl-tRNA synthetases from directed evolution.
Proc.Natl.Acad.Sci.USA, 111, 2014
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4TQF
 | | Crystal Structure of the C-terminal domain of IFRS bound with 2-(5-bromothienyl)-L-Ala and ATP | | Descriptor: | 1,2-ETHANEDIOL, 3-(5-bromothiophen-2-yl)-L-alanine, ADENOSINE-5'-TRIPHOSPHATE, ... | | Authors: | Nakamura, A, O'Donoghue, P, Soll, D. | | Deposit date: | 2014-06-11 | | Release date: | 2014-11-12 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (2.7143 Å) | | Cite: | Polyspecific pyrrolysyl-tRNA synthetases from directed evolution.
Proc.Natl.Acad.Sci.USA, 111, 2014
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4ZIB
 | | Crystal Structure of the C-terminal domain of PylRS mutant bound with 3-benzothienyl-l-alanine and ATP | | Descriptor: | 1,2-ETHANEDIOL, 3-(1-benzothiophen-3-yl)-L-alanine, ADENOSINE-5'-TRIPHOSPHATE, ... | | Authors: | Nakamura, A, Guo, L.T, Wang, Y.S, Soll, D. | | Deposit date: | 2015-04-28 | | Release date: | 2016-03-02 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.054 Å) | | Cite: | Probing the active site tryptophan of Staphylococcus aureus thioredoxin with an analog.
Nucleic Acids Res., 43, 2015
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3A2B
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7V5E
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7V5F
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8ZVY
 | | Alpha-Synuclein with H2a-H2b dimer complex structure. | | Descriptor: | CHLORIDE ION, Histone H2B 1.1,Histone H2A type 1, Isoform 1 of Alpha-synuclein | | Authors: | Padavattan, S, Jos, S, Kambaru, A. | | Deposit date: | 2024-06-12 | | Release date: | 2025-05-28 | | Method: | X-RAY DIFFRACTION (1.72 Å) | | Cite: | Structural and functional insights into the nuclear role of Parkinson's disease-associated alpha-synuclein as a histone chaperone.
Commun Biol, 8, 2025
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