4H04
| Lacto-N-biosidase from Bifidobacterium bifidum | Descriptor: | Lacto-N-biosidase, SULFATE ION, beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose | Authors: | Ito, T, Katayama, T, Wada, J, Suzuki, R, Ashida, H, Wakagi, T, Yamamoto, K, Fushinobu, S. | Deposit date: | 2012-09-07 | Release date: | 2013-03-20 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Crystal structures of a glycoside hydrolase family 20 lacto-N-biosidase from Bifidobacterium bifidum J.Biol.Chem., 288, 2013
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4JAW
| Crystal Structure of Lacto-N-Biosidase from Bifidobacterium bifidum complexed with LNB-thiazoline | Descriptor: | 3AR,5R,6S,7R,7AR-5-HYDROXYMETHYL-2-METHYL-5,6,7,7A-TETRAHYDRO-3AH-PYRANO[3,2-D]THIAZOLE-6,7-DIOL, Lacto-N-biosidase, SULFATE ION, ... | Authors: | Ito, T, Katayama, T, Stubbs, K.A, Fushinobu, S. | Deposit date: | 2013-02-19 | Release date: | 2013-03-20 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Crystal structures of a glycoside hydrolase family 20 lacto-N-biosidase from Bifidobacterium bifidum J.Biol.Chem., 288, 2013
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1Q8K
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2U2F
| SOLUTION STRUCTURE OF THE SECOND RNA-BINDING DOMAIN OF HU2AF65 | Descriptor: | PROTEIN (SPLICING FACTOR U2AF 65 KD SUBUNIT) | Authors: | Ito, T, Muto, Y, Green, M.R, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 1999-05-26 | Release date: | 1999-08-20 | Last modified: | 2023-12-27 | Method: | SOLUTION NMR | Cite: | Solution structures of the first and second RNA-binding domains of human U2 small nuclear ribonucleoprotein particle auxiliary factor (U2AF(65)). EMBO J., 18, 1999
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4YVG
| Crystal Structure of H. influenzae TrmD in complex with AdoMet | Descriptor: | S-ADENOSYLMETHIONINE, tRNA (guanine-N(1)-)-methyltransferase | Authors: | Ito, T, Yokoyama, S. | Deposit date: | 2015-03-20 | Release date: | 2015-07-15 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.549 Å) | Cite: | Structural basis for methyl-donor-dependent and sequence-specific binding to tRNA substrates by knotted methyltransferase TrmD. Proc.Natl.Acad.Sci.USA, 112, 2015
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3WKW
| Crystal structure of GH127 beta-L-arabinofuranosidase HypBA1 from Bifidobacterium longum ligand free form | Descriptor: | Non-reducing end beta-L-arabinofuranosidase | Authors: | Ito, T, Saikawa, K, Arakawa, T, Wakagi, T, Fujita, K. | Deposit date: | 2013-11-01 | Release date: | 2014-04-30 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Crystal structure of glycoside hydrolase family 127 beta-l-arabinofuranosidase from Bifidobacterium longum. Biochem.Biophys.Res.Commun., 447, 2014
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3WKX
| Crystal structure of GH127 beta-L-arabinofuranosidase HypBA1 from Bifidobacterium longum arabinose complex form | Descriptor: | Non-reducing end beta-L-arabinofuranosidase, ZINC ION, beta-L-arabinofuranose | Authors: | Ito, T, Saikawa, K, Arakawa, T, Wakagi, T, Fujita, K. | Deposit date: | 2013-11-01 | Release date: | 2014-04-30 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal structure of glycoside hydrolase family 127 beta-l-arabinofuranosidase from Bifidobacterium longum. Biochem.Biophys.Res.Commun., 447, 2014
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1U2F
| SOLUTION STRUCTURE OF THE FIRST RNA-BINDING DOMAIN OF HU2AF65 | Descriptor: | PROTEIN (SPLICING FACTOR U2AF 65 KD SUBUNIT) | Authors: | Ito, T, Muto, Y, Green, M.R, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 1999-05-26 | Release date: | 1999-08-20 | Last modified: | 2023-12-27 | Method: | SOLUTION NMR | Cite: | Solution structures of the first and second RNA-binding domains of human U2 small nuclear ribonucleoprotein particle auxiliary factor (U2AF(65)). EMBO J., 18, 1999
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3AFH
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3AKZ
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3AL0
| Crystal structure of the glutamine transamidosome from Thermotoga maritima in the glutamylation state. | Descriptor: | Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B, Glutamyl-tRNA(Gln) amidotransferase subunit A, Glutamyl-tRNA(Gln) amidotransferase subunit C,Linker,Glutamate--tRNA ligase 2, ... | Authors: | Ito, T, Yokoyama, S. | Deposit date: | 2010-07-19 | Release date: | 2010-09-29 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (3.368 Å) | Cite: | Two enzymes bound to one transfer RNA assume alternative conformations for consecutive reactions. Nature, 467, 2010
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5BXS
| LNBase in complex with LNB-NHAcCAS | Descriptor: | 6-ACETAMIDO-6-DEOXY-CASTANOSPERMINE, Lacto-N-biosidase, SULFATE ION, ... | Authors: | Ito, T, Arakawa, T, Fushinobu, S. | Deposit date: | 2015-06-09 | Release date: | 2015-09-09 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Gaining insight into the catalysis by GH20 lacto-N-biosidase using small molecule inhibitors and structural analysis Chem.Commun.(Camb.), 51, 2015
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5BXR
| LNBase in complex with LNB-NHAcDNJ | Descriptor: | 2-ACETAMIDO-1,2-DIDEOXYNOJIRMYCIN, Lacto-N-biosidase, SULFATE ION, ... | Authors: | Ito, T, Arakawa, T, Fushinobu, S. | Deposit date: | 2015-06-09 | Release date: | 2015-09-09 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Gaining insight into the catalysis by GH20 lacto-N-biosidase using small molecule inhibitors and structural analysis Chem.Commun.(Camb.), 51, 2015
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5BXT
| LNBase in complex with LNB-NHAcAUS | Descriptor: | Lacto-N-biosidase, N-{[(1R,2R,3R,7S,7aR)-1,2,7-trihydroxyhexahydro-1H-pyrrolizin-3-yl]methyl}acetamide, SULFATE ION, ... | Authors: | Ito, T, Arakawa, T, Fushinobu, S. | Deposit date: | 2015-06-09 | Release date: | 2015-09-09 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Gaining insight into the catalysis by GH20 lacto-N-biosidase using small molecule inhibitors and structural analysis Chem.Commun.(Camb.), 51, 2015
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5BXP
| LNBase in complex with LNB-LOGNAc | Descriptor: | Lacto-N-biosidase, SULFATE ION, beta-D-galactopyranose-(1-3)-N-acetylglucosaminono-1,5-lactone (Z)-oxime | Authors: | Ito, T, Arakawa, T, Fushinobu, S. | Deposit date: | 2015-06-09 | Release date: | 2015-09-09 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Gaining insight into the catalysis by GH20 lacto-N-biosidase using small molecule inhibitors and structural analysis Chem.Commun.(Camb.), 51, 2015
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4YVH
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4YVJ
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4YVI
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4YVK
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4WRI
| Crystal structure of okadaic acid binding protein 2.1 | Descriptor: | OKADAIC ACID, Okadaic acid binding protein 2-alpha | Authors: | Ehara, H, Makino, M, Kodama, K, Ito, T, Sekine, S, Fukuzawa, S, Yokoyama, S, Tachibana, K. | Deposit date: | 2014-10-24 | Release date: | 2015-05-27 | Last modified: | 2020-02-05 | Method: | X-RAY DIFFRACTION (1.4 Å) | Cite: | Crystal Structure of Okadaic Acid Binding Protein 2.1: A Sponge Protein Implicated in Cytotoxin Accumulation Chembiochem, 16, 2015
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5XOD
| Crystal structure of human Smad2-Ski complex | Descriptor: | Mothers against decapentaplegic homolog 2, Ski oncogene | Authors: | Miyazono, K, Moriwaki, S, Ito, T, Tanokura, M. | Deposit date: | 2017-05-27 | Release date: | 2018-03-28 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.851 Å) | Cite: | Hydrophobic patches on SMAD2 and SMAD3 determine selective binding to cofactors Sci Signal, 11, 2018
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1NUI
| Crystal Structure of the primase fragment of Bacteriophage T7 primase-helicase protein | Descriptor: | DNA primase/helicase, MAGNESIUM ION, ZINC ION | Authors: | Kato, M, Ito, T, Wagner, G, Richardson, C.C, Ellenberger, T. | Deposit date: | 2003-01-31 | Release date: | 2003-05-27 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Modular Architecture of the Bacteriophage T7 Primase Couples RNA primer Synthesis to DNA Synthesis Mol.Cell, 11, 2003
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1GD5
| SOLUTION STRUCTURE OF THE PX DOMAIN FROM HUMAN P47PHOX NADPH OXIDASE | Descriptor: | NEUTROPHIL CYTOSOL FACTOR 1 | Authors: | Hiroaki, H, Ago, T, Ito, T, Sumimoto, H, Kohda, D. | Deposit date: | 2000-09-14 | Release date: | 2001-06-13 | Last modified: | 2023-12-27 | Method: | SOLUTION NMR | Cite: | Solution structure of the PX domain, a target of the SH3 domain. Nat.Struct.Biol., 8, 2001
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2MGZ
| Solution structure of RBFOX family ASD-1 RRM and SUP-12 RRM in ternary complex with RNA | Descriptor: | Protein ASD-1, isoform a, Protein SUP-12, ... | Authors: | Takahashi, M, Kuwasako, K, Unzai, S, Tsuda, K, Yoshikawa, S, He, F, Kobayashi, N, Guntert, P, Shirouzu, M, Ito, T, Tanaka, A, Yokoyama, S, Hagiwara, M, Kuroyanagi, H, Muto, Y. | Deposit date: | 2013-11-12 | Release date: | 2014-08-13 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | RBFOX and SUP-12 sandwich a G base to cooperatively regulate tissue-specific splicing Nat.Struct.Mol.Biol., 21, 2014
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6L2N
| Crystal structure of the R.PabI(Y68F-K154A)-dsDNA(GTAC-3bp-GTAC) complex | Descriptor: | DNA (5'-D(*TP*CP*AP*GP*CP*AP*GP*TP*AP*CP*TP*AP*AP*GP*TP*AP*CP*TP*GP*CP*TP*GP*A)-3'), RE_R_Pab1 domain-containing protein | Authors: | Miyazono, K, Wang, D, Ito, T, Tanokura, M. | Deposit date: | 2019-10-05 | Release date: | 2020-03-18 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.45 Å) | Cite: | Distortion of double-stranded DNA structure by the binding of the restriction DNA glycosylase R.PabI. Nucleic Acids Res., 48, 2020
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