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4Y04
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BU of 4y04 by Molmil
Crystal structure of dipeptidyl peptidase 11 (DPP11) from Porphyromonas gingivalis (Space)
Descriptor: GLYCEROL, POTASSIUM ION, Peptidase S46
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Inaka, K, Tanaka, H, Yamada, M, Ohta, K, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2015-02-05
Release date:2015-07-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.66 Å)
Cite:Structural and mutational analyses of dipeptidyl peptidase 11 from Porphyromonas gingivalis reveal the molecular basis for strict substrate specificity.
Sci Rep, 5, 2015
4XZY
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BU of 4xzy by Molmil
Crystal structure of dipeptidyl peptidase 11 (DPP11) from Porphyromonas gingivalis
Descriptor: GLYCEROL, Peptidase S46
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2015-02-05
Release date:2015-07-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Structural and mutational analyses of dipeptidyl peptidase 11 from Porphyromonas gingivalis reveal the molecular basis for strict substrate specificity.
Sci Rep, 5, 2015
4Y01
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BU of 4y01 by Molmil
Crystal structure of dipeptidyl peptidase 11 (DPP11) from Porphyromonas gingivalis
Descriptor: GLYCEROL, Peptidase S46
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2015-02-05
Release date:2015-07-15
Last modified:2020-02-05
Method:X-RAY DIFFRACTION (2.46 Å)
Cite:Structural and mutational analyses of dipeptidyl peptidase 11 from Porphyromonas gingivalis reveal the molecular basis for strict substrate specificity.
Sci Rep, 5, 2015
4Y02
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BU of 4y02 by Molmil
Crystal structure of dipeptidyl peptidase 11 (DPP11) from Porphyromonas gingivalis (Ground)
Descriptor: GLYCEROL, POTASSIUM ION, Peptidase S46
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2015-02-05
Release date:2015-07-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.96 Å)
Cite:Structural and mutational analyses of dipeptidyl peptidase 11 from Porphyromonas gingivalis reveal the molecular basis for strict substrate specificity.
Sci Rep, 5, 2015
4Y06
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BU of 4y06 by Molmil
Crystal structure of the DAP BII (G675R) dipeptide complex
Descriptor: Dipeptidyl aminopeptidase BII, GLUTAMIC ACID, GLYCEROL, ...
Authors:Sakamoto, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2015-02-05
Release date:2015-07-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.18 Å)
Cite:Structural and mutational analyses of dipeptidyl peptidase 11 from Porphyromonas gingivalis reveal the molecular basis for strict substrate specificity.
Sci Rep, 5, 2015
6JTB
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BU of 6jtb by Molmil
Crystal structure of dipeptidyl peptidase 11 (DPP11) with citrate from Porphyromonas gingivalis (Space)
Descriptor: Asp/Glu-specific dipeptidyl-peptidase, CITRIC ACID, DI(HYDROXYETHYL)ETHER, ...
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Roppongi, S, Kushibiki, C, Nakamura, A, Ogasawara, W, Tanaka, N.
Deposit date:2019-04-10
Release date:2019-10-02
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Fragment-based discovery of the first nonpeptidyl inhibitor of an S46 family peptidase.
Sci Rep, 9, 2019
6JTC
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BU of 6jtc by Molmil
Crystal structure of dipeptidyl peptidase 11 (DPP11) with SH-5 from Porphyromonas gingivalis (Space)
Descriptor: 2-(2-azanylethylamino)-5-nitro-benzoic acid, Asp/Glu-specific dipeptidyl-peptidase, GLYCEROL
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Roppongi, S, Kushibiki, C, Nakamura, A, Ogasawara, W, Tanaka, N.
Deposit date:2019-04-10
Release date:2019-10-02
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.39 Å)
Cite:Fragment-based discovery of the first nonpeptidyl inhibitor of an S46 family peptidase.
Sci Rep, 9, 2019
1WOJ
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BU of 1woj by Molmil
Crystal structure of human phosphodiesterase
Descriptor: 2',3'-cyclic-nucleotide 3'-phosphodiesterase, PHOSPHATE ION
Authors:Sakamoto, Y, Tanaka, N, Ichimiya, T, Kurihara, T, Nakamura, K.T.
Deposit date:2004-08-19
Release date:2005-03-15
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal structure of the catalytic fragment of human brain 2',3'-cyclic-nucleotide 3'-phosphodiesterase
J.Mol.Biol., 346, 2005
3WOR
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BU of 3wor by Molmil
Crystal structure of the DAP BII octapeptide complex
Descriptor: Angiotensin II, GLYCEROL, ZINC ION, ...
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2013-12-29
Release date:2014-09-03
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:S46 peptidases are the first exopeptidases to be members of clan PA
SCI REP, 4, 2014
3WOP
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BU of 3wop by Molmil
Crystal structure of the DAP BII hexapeptide complex II
Descriptor: Angiotensin IV, GLYCEROL, ZINC ION, ...
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2013-12-29
Release date:2014-09-03
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:S46 peptidases are the first exopeptidases to be members of clan PA
SCI REP, 4, 2014
3WOQ
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BU of 3woq by Molmil
Crystal structure of the DAP BII hexapeptide complex III
Descriptor: Angiotensin IV, GLYCEROL, ZINC ION, ...
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2013-12-29
Release date:2014-09-03
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.82 Å)
Cite:S46 peptidases are the first exopeptidases to be members of clan PA
SCI REP, 4, 2014
3WON
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BU of 3won by Molmil
Crystal structure of the DAP BII dipeptide complex III
Descriptor: GLYCEROL, TYROSINE, VALINE, ...
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2013-12-29
Release date:2014-09-03
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:S46 peptidases are the first exopeptidases to be members of clan PA
SCI REP, 4, 2014
3WOM
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BU of 3wom by Molmil
Crystal structure of the DAP BII dipeptide complex II
Descriptor: GLYCEROL, TYROSINE, VALINE, ...
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2013-12-29
Release date:2014-09-03
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.86 Å)
Cite:S46 peptidases are the first exopeptidases to be members of clan PA
SCI REP, 4, 2014
3WOL
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BU of 3wol by Molmil
Crystal structure of the DAP BII dipeptide complex I
Descriptor: GLYCEROL, TYROSINE, VALINE, ...
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2013-12-29
Release date:2014-09-03
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.74 Å)
Cite:S46 peptidases are the first exopeptidases to be members of clan PA
SCI REP, 4, 2014
3WOO
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BU of 3woo by Molmil
Crystal structure of the DAP BII hexapeptide complex I
Descriptor: Angiotensin II, GLYCEROL, ZINC ION, ...
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2013-12-29
Release date:2014-09-03
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:S46 peptidases are the first exopeptidases to be members of clan PA
SCI REP, 4, 2014
3WOI
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BU of 3woi by Molmil
Crystal structure of the DAP BII (S657A)
Descriptor: GLYCEROL, ZINC ION, dipeptidyl aminopeptidase BII
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2013-12-29
Release date:2014-09-03
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:S46 peptidases are the first exopeptidases to be members of clan PA
SCI REP, 4, 2014
3WOK
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BU of 3wok by Molmil
Crystal structure of the DAP BII (Space)
Descriptor: GLYCEROL, ZINC ION, dipeptidyl aminopeptidase BII
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2013-12-29
Release date:2014-09-03
Last modified:2023-12-06
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:S46 peptidases are the first exopeptidases to be members of clan PA
SCI REP, 4, 2014
3WOJ
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BU of 3woj by Molmil
Crystal structure of the DAP BII
Descriptor: GLYCEROL, ZINC ION, dipeptidyl aminopeptidase BII
Authors:Sakamoto, Y, Suzuki, Y, Iizuka, I, Tateoka, C, Roppongi, S, Fujimoto, M, Nonaka, T, Ogasawara, W, Tanaka, N.
Deposit date:2013-12-29
Release date:2014-09-03
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:S46 peptidases are the first exopeptidases to be members of clan PA
SCI REP, 4, 2014
7DKD
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BU of 7dkd by Molmil
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:2023-11-29
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
7DKC
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BU of 7dkc by Molmil
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:2023-11-29
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
7DKB
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BU of 7dkb by Molmil
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:2023-11-29
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
7DKE
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BU of 7dke by Molmil
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:2023-11-29
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
5YP4
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BU of 5yp4 by Molmil
Crystal structure of dipeptidyl peptidase IV (DPP IV) with Lys-Pro from Pseudoxanthomonas mexicana WO24
Descriptor: Dipeptidyl aminopeptidase 4, GLYCEROL, LYSINE, ...
Authors:Roppongi, S, Suzuki, Y, Tateoka, C, Fuimoto, M, Morisawa, S, Iizuka, I, Nakamura, A, Honma, N, Shida, Y, Ogasawara, W, Tanaka, N, Sakamoto, Y, Nonaka, T.
Deposit date:2017-11-01
Release date:2018-02-21
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal structures of a bacterial dipeptidyl peptidase IV reveal a novel substrate recognition mechanism distinct from that of mammalian orthologues.
Sci Rep, 8, 2018
5YP1
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BU of 5yp1 by Molmil
Crystal structure of dipeptidyl peptidase IV (DPP IV) from Pseudoxanthomonas mexicana WO24
Descriptor: Dipeptidyl aminopeptidase 4, GLYCEROL
Authors:Roppongi, S, Suzuki, Y, Tateoka, C, Fuimoto, M, Morisawa, S, Iizuka, I, Nakamura, A, Honma, N, Shida, Y, Ogasawara, W, Tanaka, N, Sakamoto, Y, Nonaka, T.
Deposit date:2017-11-01
Release date:2018-02-21
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.47 Å)
Cite:Crystal structures of a bacterial dipeptidyl peptidase IV reveal a novel substrate recognition mechanism distinct from that of mammalian orthologues.
Sci Rep, 8, 2018
5YP2
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BU of 5yp2 by Molmil
Crystal structure of dipeptidyl peptidase IV (DPP IV) with DPP4 inhibitor from Pseudoxanthomonas mexicana WO24
Descriptor: (2S,5R)-1-[2-[[1-(hydroxymethyl)cyclopentyl]amino]ethanoyl]pyrrolidine-2,5-dicarbonitrile, Dipeptidyl aminopeptidase 4, GLYCEROL
Authors:Roppongi, S, Suzuki, Y, Tateoka, C, Fuimoto, M, Morisawa, S, Iizuka, I, Nakamura, A, Honma, N, Shida, Y, Ogasawara, W, Tanaka, N, Sakamoto, Y, Nonaka, T.
Deposit date:2017-11-01
Release date:2018-02-21
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.13 Å)
Cite:Crystal structures of a bacterial dipeptidyl peptidase IV reveal a novel substrate recognition mechanism distinct from that of mammalian orthologues.
Sci Rep, 8, 2018

 

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