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7BR5
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BU of 7br5 by Molmil
Lysozyme-sugar complex in H2O
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CHLORIDE ION, Lysozyme C, ...
Authors:Tanaka, I, Chatake, T.
Deposit date:2020-03-26
Release date:2021-03-10
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1 Å)
Cite:Recent structural insights into the mechanism of lysozyme hydrolysis.
Acta Crystallogr D Struct Biol, 77, 2021
7DER
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BU of 7der by Molmil
Lysozyme alone in H2O
Descriptor: CHLORIDE ION, Lysozyme C, SODIUM ION
Authors:Tanaka, I, Chatake, T.
Deposit date:2020-11-04
Release date:2021-03-10
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.03 Å)
Cite:Recent structural insights into the mechanism of lysozyme hydrolysis.
Acta Crystallogr D Struct Biol, 77, 2021
7DEQ
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BU of 7deq by Molmil
Lysozyme-sugar complex in D2O
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CHLORIDE ION, Lysozyme C, ...
Authors:Tanaka, I, Chatake, T.
Deposit date:2020-11-04
Release date:2021-03-10
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.03 Å)
Cite:Recent structural insights into the mechanism of lysozyme hydrolysis.
Acta Crystallogr D Struct Biol, 77, 2021
2ZY6
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BU of 2zy6 by Molmil
Crystal structure of a truncated tRNA, TPHE39A
Descriptor: CALCIUM ION, CHLORIDE ION, MAGNESIUM ION, ...
Authors:Tanaka, I, Yao, M, Tanaka, Y, Kitago, Y, Ymagata, S.
Deposit date:2009-01-14
Release date:2009-06-30
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Deduced RNA binding mechanism of ThiI based on structural and binding analyses of a minimal RNA ligand
Rna, 15, 2009
4WJ3
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BU of 4wj3 by Molmil
Crystal structure of the asparagine transamidosome from Pseudomonas aeruginosa
Descriptor: 76mer-tRNA, Aspartate--tRNA(Asp/Asn) ligase, Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B, ...
Authors:Suzuki, T, Nakamura, A, Kato, K, Tanaka, I, Yao, M.
Deposit date:2014-09-29
Release date:2014-12-31
Last modified:2020-02-05
Method:X-RAY DIFFRACTION (3.705 Å)
Cite:Structure of the Pseudomonas aeruginosa transamidosome reveals unique aspects of bacterial tRNA-dependent asparagine biosynthesis
Proc.Natl.Acad.Sci.USA, 112, 2015
1BK7
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BU of 1bk7 by Molmil
RIBONUCLEASE MC1 FROM THE SEEDS OF BITTER GOURD
Descriptor: PROTEIN (RIBONUCLEASE MC1)
Authors:Nakagawa, A, Tanaka, I.
Deposit date:1998-07-15
Release date:1999-07-23
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Crystal structure of a ribonuclease from the seeds of bitter gourd (Momordica charantia) at 1.75 A resolution.
Biochim.Biophys.Acta, 1433, 1999
4P1Y
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BU of 4p1y by Molmil
Crystal structure of staphylococcal gamma-hemolysin prepore
Descriptor: Gamma-hemolysin component A, Gamma-hemolysin component B
Authors:Yamashita, D, Tanaka, Y, Tanaka, I, Yao, M.
Deposit date:2014-02-28
Release date:2014-10-01
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.992 Å)
Cite:Molecular basis of transmembrane beta-barrel formation of staphylococcal pore-forming toxins.
Nat Commun, 5, 2014
4P1X
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BU of 4p1x by Molmil
Crystal structure of staphylococcal LUK prepore
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, Gamma-hemolysin component B, Gamma-hemolysin component C
Authors:Yamashita, D, Tanaka, Y, Tanaka, I, Yao, M.
Deposit date:2014-02-28
Release date:2014-10-01
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Molecular basis of transmembrane beta-barrel formation of staphylococcal pore-forming toxins.
Nat Commun, 5, 2014
3IS1
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BU of 3is1 by Molmil
Crystal structure of functional region of UafA from Staphylococcus saprophyticus in C2 form at 2.45 angstrom resolution
Descriptor: GLYCEROL, Uro-adherence factor A
Authors:Tanaka, Y, Matsuoka, E, Shouji, Y, Kuroda, M, Tanaka, I, Yao, M.
Deposit date:2009-08-24
Release date:2010-09-08
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.45 Å)
Cite:Crystal structure of the functional region of Uro-adherence factor A from Staphylococcus saprophyticus reveals participation of the B domain in ligand binding
Protein Sci., 20, 2011
3IS0
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BU of 3is0 by Molmil
Crystal structure of functional region of UafA from Staphylococcus saprophyticus in the presence of cholesterol
Descriptor: GLYCEROL, Uro-adherence factor A
Authors:Tanaka, Y, Shouji, Y, Matsuoka, E, Kuroda, M, Tanaka, I, Yao, M.
Deposit date:2009-08-24
Release date:2010-09-08
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Crystal Structure of Functional Region of UafA from Staphylococcus saprophyticus
To be Published
3IRP
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BU of 3irp by Molmil
Crystal structure of functional region of UafA from Staphylococcus saprophyticus at 1.50 angstrom resolution
Descriptor: GLYCEROL, POTASSIUM ION, Uro-adherence factor A
Authors:Tanaka, Y, Shouji, Y, Matsuoka, E, Kuroda, M, Tanaka, I, Yao, M.
Deposit date:2009-08-24
Release date:2010-09-08
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Crystal structure of the functional region of Uro-adherence factor A from Staphylococcus saprophyticus reveals participation of the B domain in ligand binding
Protein Sci., 20, 2011
3IRZ
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BU of 3irz by Molmil
Crystal structure of functional region of UafA from Staphylococcus saprophyticus in P212121 form
Descriptor: GLYCEROL, Uro-adherence factor A
Authors:Tanaka, Y, Shouji, Y, Matsuoka, E, Kuroda, M, Tanaka, I, Yao, M.
Deposit date:2009-08-24
Release date:2010-09-08
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal structure of the functional region of Uro-adherence factor A from Staphylococcus saprophyticus reveals participation of the B domain in ligand binding
Protein Sci., 20, 2011
4WJ4
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BU of 4wj4 by Molmil
Crystal structure of non-discriminating aspartyl-tRNA synthetase from Pseudomonas aeruginosa complexed with tRNA(Asn) and aspartic acid
Descriptor: 76mer-tRNA, ASPARTIC ACID, Aspartate--tRNA(Asp/Asn) ligase
Authors:Suzuki, T, Nakamura, A, Kato, K, Tanaka, I, Yao, M.
Deposit date:2014-09-29
Release date:2014-12-31
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (3.294 Å)
Cite:Structure of the Pseudomonas aeruginosa transamidosome reveals unique aspects of bacterial tRNA-dependent asparagine biosynthesis
Proc.Natl.Acad.Sci.USA, 112, 2015
1EL1
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BU of 1el1 by Molmil
X-RAY CRYSTAL STRUCTURE ANALYSIS OF CANINE MILK LYSOZYME (HOLO-TYPE)
Descriptor: CALCIUM ION, LYSOZYME C
Authors:Koshiba, T, Yao, M, Tanaka, I, Nitta, K.
Deposit date:2000-03-13
Release date:2001-03-13
Last modified:2017-10-04
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Calcium Induced Conformational Changes of Canine Milk Lysozyme Revealed by Structural and Thermodynamical Evidences
To be Published
1DPT
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BU of 1dpt by Molmil
D-DOPACHROME TAUTOMERASE
Descriptor: D-DOPACHROME TAUTOMERASE
Authors:Sugimoto, H, Taniguchi, M, Nakagawa, A, Tanaka, I.
Deposit date:1998-05-11
Release date:1999-03-30
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (1.54 Å)
Cite:Crystal structure of human D-dopachrome tautomerase, a homologue of macrophage migration inhibitory factor, at 1.54 A resolution.
Biochemistry, 38, 1999
1J08
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BU of 1j08 by Molmil
Crystal structure of glutaredoxin-like protein from Pyrococcus horikoshii
Descriptor: glutaredoxin-like protein
Authors:Tanaka, Y, Tanabe, E, Tsumoto, K, Kumagai, I, Yao, M, Tanaka, I.
Deposit date:2002-11-11
Release date:2003-05-11
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Protein disulfide isomerase from hyperthermophile as an additives of refolding of an immunoglobulin-folded protein
To be Published
1J2V
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BU of 1j2v by Molmil
Crystal Structure of CutA1 from Pyrococcus Horikoshii
Descriptor: 102AA long hypothetical periplasmic divalent cation tolerance protein CUTA
Authors:Tanaka, Y, Sakai, N, Yasutake, Y, Yao, M, Tsumoto, K, Kumagai, I, Tanaka, I.
Deposit date:2003-01-11
Release date:2004-01-13
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural implications for heavy metal-induced reversible assembly and aggregation of a protein: the case of Pyrococcus horikoshii CutA.
Febs Lett., 556, 2004
1QQY
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BU of 1qqy by Molmil
X-RAY CRYSTAL STRUCTURE ANALYSIS OF CANINE MILK LYSOZYME (APO-TYPE)
Descriptor: LYSOZYME C
Authors:Koshiba, T, Yao, M, Tanaka, I, Nitta, K.
Deposit date:1999-06-09
Release date:2000-06-09
Last modified:2022-12-21
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Structure and thermodynamics of the extraordinarily stable molten globule state of canine milk lysozyme.
Biochemistry, 39, 2000
1ODD
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BU of 1odd by Molmil
OMPR C-TERMINAL DOMAIN (OMPR-C) FROM ESCHERICHIA COLI
Descriptor: TRANSCRIPTIONAL REGULATORY PROTEIN OMPR
Authors:Kondou, H, Nakagawa, A, Tanaka, I.
Deposit date:1996-10-31
Release date:1997-05-15
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Escherichia coli positive regulator OmpR has a large loop structure at the putative RNA polymerase interaction site.
Nat.Struct.Biol., 4, 1997
1RL2
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BU of 1rl2 by Molmil
RIBOSOMAL PROTEIN L2 RNA-BINDING DOMAIN FROM BACILLUS STEAROTHERMOPHILUS
Descriptor: PROTEIN (RIBOSOMAL PROTEIN L2)
Authors:Nakagawa, A, Hosaka, H, Nakashima, T, Tanaka, I.
Deposit date:1999-03-25
Release date:1999-04-02
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:The three-dimensional structure of the RNA-binding domain of ribosomal protein L2; a protein at the peptidyl transferase center of the ribosome.
EMBO J., 18, 1999
1J1G
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BU of 1j1g by Molmil
Crystal structure of the RNase MC1 mutant N71S in complex with 5'-GMP
Descriptor: GUANOSINE-5'-MONOPHOSPHATE, Ribonuclease MC1
Authors:Numata, T, Suzuki, A, Kakuta, Y, Kimura, K, Yao, M, Tanaka, I, Yoshida, Y, Ueda, T, Kimura, M.
Deposit date:2002-12-04
Release date:2003-05-20
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystal Structures of the Ribonuclease MC1 Mutants N71T and N71S in Complex with 5'-GMP: Structural Basis for Alterations in Substrate Specificity
Biochemistry, 42, 2003
1J1F
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BU of 1j1f by Molmil
Crystal structure of the RNase MC1 mutant N71T in complex with 5'-GMP
Descriptor: GUANOSINE-5'-MONOPHOSPHATE, RIBONUCLEASE MC1
Authors:Numata, T, Suzuki, A, Kakuta, Y, Kimura, K, Yao, M, Tanaka, I, Yoshida, Y, Ueda, T, Kimura, M.
Deposit date:2002-12-03
Release date:2003-05-20
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystal Structures of the Ribonuclease MC1 Mutants N71T and N71S in Complex with 5'-GMP: Structural Basis for Alterations in Substrate Specificity
Biochemistry, 42, 2003
2F2A
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BU of 2f2a by Molmil
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:2023-10-25
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Ammonia channel couples glutaminase with transamidase reactions in GatCAB
Science, 312, 2006
2F7L
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BU of 2f7l by Molmil
Crystal structure of Sulfolobus tokodaii phosphomannomutase/phosphoglucomutase
Descriptor: 455aa long hypothetical phospho-sugar mutase, SULFATE ION
Authors:Kawamura, T, Sakai, N, Akutsu, J, Zhang, Z, Watanabe, N, Kawarabayashi, Y, Tanaka, I.
Deposit date:2005-12-01
Release date:2006-12-05
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal structure of Sulfolobus tokodaii phosphomannomutase/phosphoglucomutase
To be Published
2G5I
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BU of 2g5i by Molmil
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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