1WOJ
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![BU of 1woj by Molmil](/molmil-images/mine/1woj) | 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
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6JTC
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![BU of 6jtc by Molmil](/molmil-images/mine/6jtc) | 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
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4Y04
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![BU of 4y04 by Molmil](/molmil-images/mine/4y04) | 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
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4XZY
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![BU of 4xzy by Molmil](/molmil-images/mine/4xzy) | 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
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4Y01
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![BU of 4y01 by Molmil](/molmil-images/mine/4y01) | 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
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4Y02
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![BU of 4y02 by Molmil](/molmil-images/mine/4y02) | 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
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4Y06
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![BU of 4y06 by Molmil](/molmil-images/mine/4y06) | 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
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6JTB
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![BU of 6jtb by Molmil](/molmil-images/mine/6jtb) | 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
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3WOR
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![BU of 3wor by Molmil](/molmil-images/mine/3wor) | 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
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3WOP
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![BU of 3wop by Molmil](/molmil-images/mine/3wop) | 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
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3WOQ
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![BU of 3woq by Molmil](/molmil-images/mine/3woq) | 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
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3WON
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![BU of 3won by Molmil](/molmil-images/mine/3won) | 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
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3WOL
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![BU of 3wol by Molmil](/molmil-images/mine/3wol) | 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
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3WOM
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![BU of 3wom by Molmil](/molmil-images/mine/3wom) | 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
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3WOI
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![BU of 3woi by Molmil](/molmil-images/mine/3woi) | 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
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3WOJ
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![BU of 3woj by Molmil](/molmil-images/mine/3woj) | 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
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3WOO
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![BU of 3woo by Molmil](/molmil-images/mine/3woo) | 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
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3WOK
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![BU of 3wok by Molmil](/molmil-images/mine/3wok) | 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
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7DKD
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![BU of 7dkd by Molmil](/molmil-images/mine/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: | 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
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7DKC
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![BU of 7dkc by Molmil](/molmil-images/mine/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: | 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
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7DKE
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![BU of 7dke by Molmil](/molmil-images/mine/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: | 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
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7DKB
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![BU of 7dkb by Molmil](/molmil-images/mine/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: | 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
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8JNW
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![BU of 8jnw by Molmil](/molmil-images/mine/8jnw) | PfDXR - Mn2+ - NADPH - MAMK89 quaternary complex | Descriptor: | 1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic, CALCIUM ION, ... | Authors: | Takada, S, Sakamoto, Y, Tanaka, N. | Deposit date: | 2023-06-08 | Release date: | 2024-05-22 | Method: | X-RAY DIFFRACTION (1.44 Å) | Cite: | Reverse N -Substituted Hydroxamic Acid Derivatives of Fosmidomycin Target a Previously Unknown Subpocket of 1-Deoxy-d-xylulose 5-Phosphate Reductoisomerase (DXR). Acs Infect Dis., 10, 2024
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8JNV
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![BU of 8jnv by Molmil](/molmil-images/mine/8jnv) | PfDXR - Mn2+ - MAMK89 ternary complex | Descriptor: | 1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic, CALCIUM ION, ... | Authors: | Takada, S, Sakamoto, Y, Tanaka, N. | Deposit date: | 2023-06-06 | Release date: | 2024-05-22 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Reverse N -Substituted Hydroxamic Acid Derivatives of Fosmidomycin Target a Previously Unknown Subpocket of 1-Deoxy-d-xylulose 5-Phosphate Reductoisomerase (DXR). Acs Infect Dis., 10, 2024
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5YP4
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![BU of 5yp4 by Molmil](/molmil-images/mine/5yp4) | 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
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