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2DFX
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BU of 2dfx by Molmil
Crystal structure of the carboxy terminal domain of colicin E5 complexed with its inhibitor
Descriptor: Colicin-E5, Colicin-E5 immunity protein
Authors:Yajima, S, Inoue, S, Ogawa, T, Nonaka, T, Ohsawa, K, Masaki, H.
Deposit date:2006-03-06
Release date:2007-01-23
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structural basis for sequence-dependent recognition of colicin E5 tRNase by mimicking the mRNA-tRNA interaction
Nucleic Acids Res., 34, 2006
2DJH
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BU of 2djh by Molmil
Crystal structure of the carboxy-terminal ribonuclease domain of Colicin E5
Descriptor: 2'-DEOXYURIDINE 3'-MONOPHOSPHATE, 2-AMINO-9-(2-DEOXY-3-O-PHOSPHONOPENTOFURANOSYL)-1,9-DIHYDRO-6H-PURIN-6-ONE, Colicin-E5
Authors:Yajima, S, Inoue, S, Ogawa, T, Nonaka, T, Ohsawa, K, Masaki, H.
Deposit date:2006-04-03
Release date:2007-01-23
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structural basis for sequence-dependent recognition of colicin E5 tRNase by mimicking the mRNA-tRNA interaction
Nucleic Acids Res., 34, 2006
1T1R
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BU of 1t1r by Molmil
Crystal Structure of the Reductoisomerase Complexed with a Bisphosphonate
Descriptor: 1-deoxy-D-xylulose 5-phosphate reductoisomerase, SULFATE ION, [(ISOQUINOLIN-1-YLAMINO)-PHOSPHONO-METHYL]-PHOSPHONIC ACID
Authors:Yajima, S, Hara, K, Sanders, J.M, Yin, F, Ohsawa, K, Wiesner, J, Jomaa, H, Oldfield, E.
Deposit date:2004-04-17
Release date:2004-09-14
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystallographic Structures of Two Bisphosphonate:1-Deoxyxylulose-5-Phosphate Reductoisomerase Complexes
J.Am.Chem.Soc., 126, 2004
1TFO
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BU of 1tfo by Molmil
Ribonuclease from Escherichia coli complexed with its inhibitor protein
Descriptor: Colicin D, Colicin D immunity protein
Authors:Yajima, S, Nakanishi, K, Takahashi, K, Ogawa, T, Kezuka, Y, Hidaka, M, Nonaka, T, Ohsawa, K, Masaki, H.
Deposit date:2004-05-27
Release date:2005-03-01
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Relation between tRNase activity and the structure of colicin D according to X-ray crystallography
Biochem.Biophys.Res.Commun., 322, 2004
1TFK
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BU of 1tfk by Molmil
Ribonuclease from Escherichia coli complexed with its inhibtor protein
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Colicin D, Colicin D immunity protein
Authors:Yajima, S, Nakanishi, K, Takahashi, K, Ogawa, T, Kezuka, Y, Hidaka, M, Nonaka, T, Ohsawa, K, Masaki, H.
Deposit date:2004-05-27
Release date:2005-03-01
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Relation between tRNase activity and the structure of colicin D according to X-ray crystallography
Biochem.Biophys.Res.Commun., 322, 2004
1T1S
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BU of 1t1s by Molmil
Crystal Structure of the Reductoisomerase Complexed with a Bisphosphonate
Descriptor: 1-deoxy-D-xylulose 5-phosphate reductoisomerase, MAGNESIUM ION, SULFATE ION, ...
Authors:Yajima, S, Hara, K, Sanders, J.M, Yin, F, Ohsawa, K, Wiesner, J, Jomaa, H, Oldfield, E.
Deposit date:2004-04-17
Release date:2004-09-14
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystallographic Structures of Two Bisphosphonate:1-Deoxyxylulose-5-Phosphate Reductoisomerase Complexes
J.Am.Chem.Soc., 126, 2004
1JVS
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BU of 1jvs by Molmil
Crystal structure of 1-deoxy-D-xylulose 5-phosphate reductoisomerase; a target enzyme for antimalarial drugs
Descriptor: 1-deoxy-D-xylulose 5-phosphate reductoisomerase, NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, SULFATE ION
Authors:Yajima, S, Nonaka, T, Kuzuyama, T, Seto, H, Ohsawa, K.
Deposit date:2001-08-31
Release date:2002-10-09
Last modified:2019-11-06
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Crystal structure of 1-deoxy-D-xylulose 5-phosphate reductoisomerase complexed with cofactors: implications of a flexible loop movement upon substrate binding.
J.Biochem., 131, 2002
2EGH
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BU of 2egh by Molmil
Crystal structure of 1-deoxy-D-xylulose 5-phosphate reductoisomerase complexed with a magnesium ion, NADPH and fosmidomycin
Descriptor: 1-deoxy-D-xylulose 5-phosphate reductoisomerase, 3-[FORMYL(HYDROXY)AMINO]PROPYLPHOSPHONIC ACID, MAGNESIUM ION, ...
Authors:Yajima, S, Hara, K, Iino, D, Sasaki, Y, Kuzuyama, T, Seto, H.
Deposit date:2007-03-01
Release date:2007-06-19
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structure of 1-deoxy-D-xylulose 5-phosphate reductoisomerase in a quaternary complex with a magnesium ion, NADPH and the antimalarial drug fosmidomycin
Acta Crystallogr.,Sect.F, 63, 2007
3VJ7
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BU of 3vj7 by Molmil
Crystal structure of the carboxy-terminal ribonuclease domain of Colicin E5 R33Q mutant
Descriptor: 2'-DEOXYURIDINE 3'-MONOPHOSPHATE, 2-AMINO-9-(2-DEOXY-3-O-PHOSPHONOPENTOFURANOSYL)-1,9-DIHYDRO-6H-PURIN-6-ONE, Colicin-E5
Authors:Yajima, S, Inoue, S, Fushinobu, S, Ogawa, T, Hidaka, M, Masaki, H.
Deposit date:2011-10-13
Release date:2011-11-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Identification of the catalytic residues of sequence-specific and histidine-free ribonuclease colicin E5
J.Biochem., 152, 2012
6IY9
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BU of 6iy9 by Molmil
Crystal structure of aminoglycoside 7"-phoshotransferase-Ia (APH(7")-Ia/HYG) from Streptomyces hygroscopicus complexed with hygromycin B
Descriptor: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID, CITRATE ANION, HYGROMYCIN B VARIANT, ...
Authors:Takenoya, M, Shimamura, T, Yamanaka, R, Adachi, Y, Ito, S, Sasaki, Y, Nakamura, A, Yajima, S.
Deposit date:2018-12-14
Release date:2019-09-11
Last modified:2019-11-20
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural basis for the substrate recognition of aminoglycoside 7''-phosphotransferase-Ia from Streptomyces hygroscopicus.
Acta Crystallogr.,Sect.F, 75, 2019
2JLN
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BU of 2jln by Molmil
Structure of Mhp1, a nucleobase-cation-symport-1 family transporter
Descriptor: MERCURY (II) ION, MHP1, SODIUM ION
Authors:Weyand, S, Shimamura, T, Yajima, S, Suzuki, S, Mirza, O, Krusong, K, Carpenter, E.P, Rutherford, N.G, Hadden, J.M, O'Reilly, J, Ma, P, Saidijam, M, Patching, S.G, Hope, R.J, Norbertczak, H.T, Roach, P.C.J, Iwata, S, Henderson, P.J.F, Cameron, A.D.
Deposit date:2008-09-11
Release date:2008-10-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.85 Å)
Cite:Structure and Molecular Mechanism of a Nucleobase-Cation-Symport-1 Family Transporter.
Science, 322, 2008
5B2H
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BU of 5b2h by Molmil
Crystal structure of HA33 from Clostridium botulinum serotype C strain Yoichi
Descriptor: HA-33, TRIETHYLENE GLYCOL
Authors:Akiyama, T, Hayashi, S, Matsumoto, T, Hasegawa, K, Yamano, A, Suzuki, T, Niwa, K, Watanabe, T, Sagane, Y, Yajima, S.
Deposit date:2016-01-15
Release date:2016-06-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Conformational divergence in the HA-33/HA-17 trimer of serotype C and D botulinum toxin complex
Biochem.Biophys.Res.Commun., 476, 2016
3A14
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BU of 3a14 by Molmil
Crystal structure of DXR from Thermotoga maritima, in complex with NADPH
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, 1-deoxy-D-xylulose 5-phosphate reductoisomerase, MAGNESIUM ION, ...
Authors:Takenoya, M, Ohtaki, A, Noguchi, K, Sasaki, Y, Ohsawa, K, Yohda, M, Yajima, S.
Deposit date:2009-03-25
Release date:2010-04-07
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of 1-deoxy-d-xylulose 5-phosphate reductoisomerase from the hyperthermophile Thermotoga maritima for insights into the coordination of conformational changes and an inhibitor binding.
J.Struct.Biol., 2010
5H1A
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BU of 5h1a by Molmil
Crystal structure of an IclR homolog from Microbacterium sp. strain HM58-2
Descriptor: IclR transcription factor homolog, PHOSPHATE ION
Authors:Akiyama, T, Yamada, Y, Takaya, N, Ito, S, Sasaki, Y, Yajima, S.
Deposit date:2016-10-08
Release date:2017-01-18
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structure of an IclR homologue from Microbacterium sp. strain HM58-2.
Acta Crystallogr F Struct Biol Commun, 73, 2017
7CUO
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BU of 7cuo by Molmil
IclR transcription factor complexed with 4-hydroxybenzoic acid from Microbacterium hydrocarbonoxydans
Descriptor: P-HYDROXYBENZOIC ACID, SULFATE ION, Transcription factor
Authors:Akiyama, T, Ito, S, Sasaki, Y, Yajima, S.
Deposit date:2020-08-23
Release date:2021-05-05
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural basis of the conformational changes in Microbacterium hydrocarbonoxydans IclR transcription factor homolog due to ligand binding.
Biochim Biophys Acta Proteins Proteom, 1869, 2021
3AO9
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BU of 3ao9 by Molmil
Crystal structure of the C-terminal domain of sequence-specific ribonuclease
Descriptor: CADMIUM ION, Colicin-E5
Authors:Inoue, S, Fushinobu, S, Ogawa, T, Hidaka, M, Masaki, H, Yajima, S.
Deposit date:2010-09-22
Release date:2011-09-28
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Identification of the catalytic residues of sequence-specific and histidine-free ribonuclease colicin E5
J.Biochem., 152, 2012
7DQB
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BU of 7dqb by Molmil
Crystal structure of an IclR homolog complexed with 4-hydroxybenzoate from Microbacterium hydrocarbonoxydans in P212121 form
Descriptor: IclR homolog, P-HYDROXYBENZOIC ACID
Authors:Akiyama, T, Sasaki, Y, Ito, S, Yajima, S.
Deposit date:2020-12-23
Release date:2021-05-05
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.101 Å)
Cite:Structural basis of the conformational changes in Microbacterium hydrocarbonoxydans IclR transcription factor homolog due to ligand binding.
Biochim Biophys Acta Proteins Proteom, 1869, 2021
6KTK
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BU of 6ktk by Molmil
Crystal structure of scyllo-inositol dehydrogenase R178A mutant, complexed with NADH and L-glucono-1,5-lactone, from Paracoccus laeviglucosivorans
Descriptor: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE, L-glucono-1,5-lactone, Scyllo-inositol dehydrogenase with L-glucose dehydrogenase activity, ...
Authors:Suzuki, M, Koubara, K, Takenoya, M, Fukano, K, Ito, S, Sasaki, Y, Nakamura, A, Yajima, S.
Deposit date:2019-08-28
Release date:2019-12-25
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Single amino acid mutation altered substrate specificity for L-glucose and inositol inscyllo-inositol dehydrogenase isolated fromParacoccus laeviglucosivorans.
Biosci.Biotechnol.Biochem., 84, 2020
6KTL
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BU of 6ktl by Molmil
Crystal structure of scyllo-inositol dehydrogenase R178A mutant, complexed with NAD and myo-inositol, from Paracoccus laeviglucosivorans
Descriptor: 1,2,3,4,5,6-HEXAHYDROXY-CYCLOHEXANE, ACETATE ION, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, ...
Authors:Suzuki, M, Koubara, K, Takenoya, M, Fukano, K, Ito, S, Sasaki, Y, Nakamura, A, Yajima, S.
Deposit date:2019-08-28
Release date:2019-12-25
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Single amino acid mutation altered substrate specificity for L-glucose and inositol inscyllo-inositol dehydrogenase isolated fromParacoccus laeviglucosivorans.
Biosci.Biotechnol.Biochem., 84, 2020
7D5N
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BU of 7d5n by Molmil
Crystal structure of inositol dehydrogenase homolog complexed with NADH and myo-inositol from Azotobacter vinelandii
Descriptor: 1,2,3,4,5,6-HEXAHYDROXY-CYCLOHEXANE, 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE, Oxidoreductase
Authors:Fukano, K, Ono, T, Suzuki, M, Takenoya, M, Ito, S, Sasaki, Y, Yajima, S.
Deposit date:2020-09-27
Release date:2021-09-29
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal structure of inositol dehydrogenase complexed with NADH and myo-inositol from Azotobacter vinelandii
To Be Published
7D5M
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BU of 7d5m by Molmil
Crystal structure of inositol dehydrogenase homolog complexed with NAD+ from Azotobacter vinelandii
Descriptor: NICOTINAMIDE-ADENINE-DINUCLEOTIDE, Oxidoreductase
Authors:Fukano, K, Ono, T, Suzuki, M, Takenoya, M, Ito, S, Sasaki, Y, Yajima, S.
Deposit date:2020-09-27
Release date:2021-09-29
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Crystal structure of inositol dehydrogenase complexed with NAD+ from Azotobacter vinelandii
To Be Published
6KTJ
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BU of 6ktj by Molmil
Crystal structure of scyllo-inositol dehydrogenase R178A mutant, apo-form, from Paracoccus laeviglucosivorans
Descriptor: ACETATE ION, Scyllo-inositol dehydrogenase with L-glucose dehydrogenase activity
Authors:Suzuki, M, Koubara, K, Takenoya, M, Fukano, K, Ito, S, Sasaki, Y, Nakamura, A, Yajima, S.
Deposit date:2019-08-28
Release date:2019-12-25
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Single amino acid mutation altered substrate specificity for L-glucose and inositol inscyllo-inositol dehydrogenase isolated fromParacoccus laeviglucosivorans.
Biosci.Biotechnol.Biochem., 84, 2020
6LU2
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BU of 6lu2 by Molmil
Crystal structure of a substrate binding protein from Microbacterium hydrocarbonoxydans
Descriptor: Substrate binding protein
Authors:Shimamura, K, Akiyama, T, Yokoyama, K, Takenoya, M, Ito, S, Sasaki, Y, Yajima, S.
Deposit date:2020-01-25
Release date:2020-03-25
Last modified:2020-04-22
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Structural basis of substrate recognition by the substrate binding protein (SBP) of a hydrazide transporter, obtained from Microbacterium hydrocarbonoxydans.
Biochem.Biophys.Res.Commun., 525, 2020
6LU3
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BU of 6lu3 by Molmil
Crystal structure of a substrate binding protein from Microbacterium hydrocarbonoxydans complexed with 4-hydroxybenzoate hydrazide
Descriptor: 4-oxidanylbenzohydrazide, Substrate binding protein
Authors:Shimamura, K, Akiyama, T, Yokoyama, K, Takenoya, M, Ito, S, Sasaki, Y, Yajima, S.
Deposit date:2020-01-25
Release date:2020-03-25
Last modified:2020-04-22
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural basis of substrate recognition by the substrate binding protein (SBP) of a hydrazide transporter, obtained from Microbacterium hydrocarbonoxydans.
Biochem.Biophys.Res.Commun., 525, 2020
6LU4
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BU of 6lu4 by Molmil
Crystal structure of the substrate binding protein from Microbacterium hydrocarbonoxydans complexed with propylparaben
Descriptor: Substrate binding protein, propyl 4-hydroxybenzoate
Authors:Shimamura, K, Akiyama, T, Yokoyama, K, Takenoya, M, Ito, S, Sasaki, Y, Yajima, S.
Deposit date:2020-01-25
Release date:2020-03-25
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Structural basis of substrate recognition by the substrate binding protein (SBP) of a hydrazide transporter, obtained from Microbacterium hydrocarbonoxydans.
Biochem.Biophys.Res.Commun., 525, 2020

 

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