7JRI
 
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7JR5
 | | Real Time Reaction Intermediates in Stigmatella Bacteriophytochrome P2 | | Descriptor: | 3-[2-[[5-[(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-yl)methyl]-3-(3-hydroxy-3-oxopropyl)-4-methyl-1~{H}-pyrrol-2-yl]methyl]-5-[[(3~{S})-4-ethyl-3-methyl-2-oxidanylidene-1,3-dihydropyrrol-5-yl]methyl]-4-methyl-1~{H}-pyrrol-3-yl]propanoic acid, BENZAMIDINE, Photoreceptor-histidine kinase BphP | | Authors: | Schmidt, M. | | Deposit date: | 2020-08-11 | | Release date: | 2021-10-06 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | High-resolution crystal structures of transient intermediates in the phytochrome photocycle.
Structure, 29, 2021
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5C5K
 | | Structure of the Pfr form of a canonical phytochrome | | Descriptor: | 1,2-ETHANEDIOL, ACETATE ION, BILIVERDINE IX ALPHA, ... | | Authors: | Burgie, E.S, Vierstra, R.D. | | Deposit date: | 2015-06-20 | | Release date: | 2016-02-17 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (3.31 Å) | | Cite: | Crystal Structure of Deinococcus Phytochrome in the Photoactivated State Reveals a Cascade of Structural Rearrangements during Photoconversion.
Structure, 24, 2016
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8SGK
 | | CryoEM structure of Deinococcus radiodurans BphP photosensory module in Pr state | | Descriptor: | 3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-1-ium -2-ylidene]methyl]-5-[(Z)-[(3E)-3-ethylidene-4-methyl-5-oxidanylidene-pyrrolidin-2-ylidene]methyl]-4-methyl-1H-pyrrol-3- yl]propanoic acid, Bacteriophytochrome | | Authors: | Li, H, Li, H. | | Deposit date: | 2023-04-12 | | Release date: | 2024-05-22 | | Method: | ELECTRON MICROSCOPY (3.7 Å) | | Cite: | CryoEM structure of Deinococcus radiodurans BphP photosensory module in Pr state
To Be Published
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8AVV
 | | Cryo-EM structure of DrBphP photosensory module in Pr state | | Descriptor: | 3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-1-ium -2-ylidene]methyl]-5-[(Z)-[(3E)-3-ethylidene-4-methyl-5-oxidanylidene-pyrrolidin-2-ylidene]methyl]-4-methyl-1H-pyrrol-3- yl]propanoic acid, Bacteriophytochrome,Response regulator | | Authors: | Wahlgren, W.Y, Takala, H, Westenhoff, S. | | Deposit date: | 2022-08-27 | | Release date: | 2022-12-21 | | Last modified: | 2022-12-28 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Structural mechanism of signal transduction in a phytochrome histidine kinase.
Nat Commun, 13, 2022
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8AVX
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8AVW
 | | Cryo-EM structure of DrBphP in Pr state | | Descriptor: | 3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-1-ium -2-ylidene]methyl]-5-[(Z)-[(3E)-3-ethylidene-4-methyl-5-oxidanylidene-pyrrolidin-2-ylidene]methyl]-4-methyl-1H-pyrrol-3- yl]propanoic acid, Bacteriophytochrome,Response regulator | | Authors: | Wahlgren, W.Y, Takala, H, Westenhoff, S. | | Deposit date: | 2022-08-27 | | Release date: | 2022-12-21 | | Last modified: | 2022-12-28 | | Method: | ELECTRON MICROSCOPY (3.62 Å) | | Cite: | Structural mechanism of signal transduction in a phytochrome histidine kinase.
Nat Commun, 13, 2022
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7L5A
 | | Crystal structure of the photosensory module from Xanthomonas campestris bacteriophytochrome XccBphP in the Pfr state | | Descriptor: | BILIVERDINE IX ALPHA, Bacteriophytochrome | | Authors: | Otero, L.H, Antelo, G, Sanchez-Lamas, M, Klinke, S, Goldbaum, F.A, Rinaldi, J, Bonomi, H.R. | | Deposit date: | 2020-12-21 | | Release date: | 2021-12-29 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.95 Å) | | Cite: | Structural basis for the Pr-Pfr long-range signaling mechanism of a full-length bacterial phytochrome at the atomic level.
Sci Adv, 7, 2021
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7L59
 | | Crystal structure of the dark-adapted full-length bacteriophytochrome XccBphP-G454E variant from Xanthomonas campestris in the Pfr state | | Descriptor: | BILIVERDINE IX ALPHA, Bacteriophytochrome | | Authors: | Otero, L.H, Antelo, G, Sanchez-Lamas, M, Klinke, S, Goldbaum, F.A, Rinaldi, J, Bonomi, H.R. | | Deposit date: | 2020-12-21 | | Release date: | 2021-12-29 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.68 Å) | | Cite: | Structural basis for the Pr-Pfr long-range signaling mechanism of a full-length bacterial phytochrome at the atomic level.
Sci Adv, 7, 2021
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8BOR
 | | Photosensory module from DrBphP without PHY tongue | | Descriptor: | 3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-1-ium -2-ylidene]methyl]-5-[(Z)-[(3E)-3-ethylidene-4-methyl-5-oxidanylidene-pyrrolidin-2-ylidene]methyl]-4-methyl-1H-pyrrol-3- yl]propanoic acid, Bacteriophytochrome | | Authors: | Kurttila, M, Takala, H, Ihalainen, J.A. | | Deposit date: | 2022-11-15 | | Release date: | 2023-06-28 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | The interconnecting hairpin extension "arm": An essential allosteric element of phytochrome activity.
Structure, 31, 2023
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3BJC
 | | Crystal structure of the PDE5A catalytic domain in complex with a novel inhibitor | | Descriptor: | 5-ethoxy-4-(1-methyl-7-oxo-3-propyl-6,7-dihydro-1H-pyrazolo[4,3-d]pyrimidin-5-yl)thiophene-2-sulfonamide, MAGNESIUM ION, ZINC ION, ... | | Authors: | Chen, G, Wang, H, Howard, R, Cai, J, Wan, Y, Ke, H. | | Deposit date: | 2007-12-03 | | Release date: | 2008-04-29 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | An insight into the pharmacophores of phosphodiesterase-5 inhibitors from synthetic and crystal structural studies
BIOCHEM.PHARM., 75, 2008
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7JSN
 | | Structure of the Visual Signaling Complex between Transducin and Phosphodiesterase 6 | | Descriptor: | 2-{2-ETHOXY-5-[(4-ETHYLPIPERAZIN-1-YL)SULFONYL]PHENYL}-5-METHYL-7-PROPYLIMIDAZO[5,1-F][1,2,4]TRIAZIN-4(1H)-ONE, GUANOSINE-3',5'-MONOPHOSPHATE, GUANOSINE-5'-TRIPHOSPHATE, ... | | Authors: | Gao, Y, Eskici, G, Ramachandran, S, Skiniotis, G, Cerione, R.A. | | Deposit date: | 2020-08-15 | | Release date: | 2020-10-21 | | Last modified: | 2024-05-29 | | Method: | ELECTRON MICROSCOPY (3.2 Å) | | Cite: | Structure of the Visual Signaling Complex between Transducin and Phosphodiesterase 6.
Mol.Cell, 80, 2020
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3C2W
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8ULG
 | | Cryo-EM structure of bovine phosphodiesterase 6 bound to IBMX | | Descriptor: | 3-ISOBUTYL-1-METHYLXANTHINE, CYCLIC GUANOSINE MONOPHOSPHATE, MAGNESIUM ION, ... | | Authors: | Aplin, C, Cerione, R.A. | | Deposit date: | 2023-10-16 | | Release date: | 2024-01-17 | | Last modified: | 2024-02-07 | | Method: | ELECTRON MICROSCOPY (3.2 Å) | | Cite: | Probing the mechanism by which the retinal G protein transducin activates its biological effector PDE6.
J.Biol.Chem., 300, 2023
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8UFI
 | | Cryo-EM structure of bovine phosphodiesterase 6 | | Descriptor: | CYCLIC GUANOSINE MONOPHOSPHATE, MAGNESIUM ION, Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit gamma, ... | | Authors: | Aplin, C, Cerione, R.A. | | Deposit date: | 2023-10-04 | | Release date: | 2024-01-17 | | Last modified: | 2024-02-07 | | Method: | ELECTRON MICROSCOPY (3.1 Å) | | Cite: | Probing the mechanism by which the retinal G protein transducin activates its biological effector PDE6.
J.Biol.Chem., 300, 2023
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8UGB
 | | Cryo-EM structure of bovine phosphodiesterase 6 bound to udenafil | | Descriptor: | CYCLIC GUANOSINE MONOPHOSPHATE, MAGNESIUM ION, Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit gamma, ... | | Authors: | Aplin, C, Cerione, R.A. | | Deposit date: | 2023-10-05 | | Release date: | 2024-01-17 | | Last modified: | 2024-02-07 | | Method: | ELECTRON MICROSCOPY (3 Å) | | Cite: | Probing the mechanism by which the retinal G protein transducin activates its biological effector PDE6.
J.Biol.Chem., 300, 2023
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8UGS
 | | Cryo-EM structure of bovine phosphodiesterase 6 bound to cGMP | | Descriptor: | CYCLIC GUANOSINE MONOPHOSPHATE, MAGNESIUM ION, Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit gamma, ... | | Authors: | Aplin, C, Cerione, R.A. | | Deposit date: | 2023-10-06 | | Release date: | 2024-01-17 | | Last modified: | 2024-02-07 | | Method: | ELECTRON MICROSCOPY (3.2 Å) | | Cite: | Probing the mechanism by which the retinal G protein transducin activates its biological effector PDE6.
J.Biol.Chem., 300, 2023
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4ZMU
 | | Dcsbis, a diguanylate cyclase from Pseudomonas aeruginosa | | Descriptor: | diguanylate cyclase | | Authors: | Chen, Y, Liu, C, Liu, S, Chi, K, Gu, L. | | Deposit date: | 2015-05-04 | | Release date: | 2016-05-04 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.502 Å) | | Cite: | crystal structure of Dcsbis from Pseudomonas aeruginosa
To Be Published
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6ET7
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6G1Y
 | | Crystal structure of the photosensory core module (PCM) of a bathy phytochrome from Agrobacterium fabrum in the Pfr state. | | Descriptor: | 3-[(2Z)-2-({3-(2-carboxyethyl)-5-[(E)-(4-ethenyl-3-methyl-5-oxo-1,5-dihydro-2H-pyrrol-2-ylidene)methyl]-4-methyl-1H-pyrrol-2-yl}methylidene)-5-{(Z)-[(3E,4S)-3-ethylidene-4-methyl-5-oxopyrrolidin-2-ylidene]methyl}-4-methyl-2H-pyrrol-3-yl]propanoic acid, Bacteriophytochrome protein | | Authors: | Schmidt, A, Qureshi, B.M, Scheerer, P. | | Deposit date: | 2018-03-22 | | Release date: | 2018-11-28 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structural snapshot of a bacterial phytochrome in its functional intermediate state.
Nat Commun, 9, 2018
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6G20
 | | Crystal structure of a fluorescence optimized bathy phytochrome PAiRFP2 derived from wild-type Agp2 in its functional Meta-F intermediate state. | | Descriptor: | 2-(2-METHOXYETHOXY)ETHANOL, 2-{2-[2-2-(METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL, 3-[(2Z)-2-({3-(2-carboxyethyl)-5-[(E)-(4-ethenyl-3-methyl-5-oxo-1,5-dihydro-2H-pyrrol-2-ylidene)methyl]-4-methyl-1H-pyrrol-2-yl}methylidene)-5-{(Z)-[(3E,4S)-3-ethylidene-4-methyl-5-oxopyrrolidin-2-ylidene]methyl}-4-methyl-2H-pyrrol-3-yl]propanoic acid, ... | | Authors: | Schmidt, A, Sauthof, L, Szczepek, M, Scheerer, P. | | Deposit date: | 2018-03-22 | | Release date: | 2018-11-28 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.16 Å) | | Cite: | Structural snapshot of a bacterial phytochrome in its functional intermediate state.
Nat Commun, 9, 2018
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6FHT
 | | Crystal structure of an artificial phytochrome regulated adenylate/guanylate cyclase in its dark adapted Pr form | | Descriptor: | 3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-1-ium -2-ylidene]methyl]-5-[(Z)-[(3E)-3-ethylidene-4-methyl-5-oxidanylidene-pyrrolidin-2-ylidene]methyl]-4-methyl-1H-pyrrol-3- yl]propanoic acid, Bacteriophytochrome,Adenylate cyclase, DODECAETHYLENE GLYCOL, ... | | Authors: | Etzl, S, Winkler, A. | | Deposit date: | 2018-01-15 | | Release date: | 2018-04-18 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Structure-guided design and functional characterization of an artificial red light-regulated guanylate/adenylate cyclase for optogenetic applications.
J. Biol. Chem., 293, 2018
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6G1Z
 | | Crystal structure of a fluorescence optimized bathy phytochrome PAiRFP2 derived from wild-type Agp2 in its Pfr state. | | Descriptor: | 2-(2-METHOXYETHOXY)ETHANOL, 2-{2-[2-2-(METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL, 3-[(2Z)-2-({3-(2-carboxyethyl)-5-[(E)-(4-ethenyl-3-methyl-5-oxo-1,5-dihydro-2H-pyrrol-2-ylidene)methyl]-4-methyl-1H-pyrrol-2-yl}methylidene)-5-{(Z)-[(3E,4S)-3-ethylidene-4-methyl-5-oxopyrrolidin-2-ylidene]methyl}-4-methyl-2H-pyrrol-3-yl]propanoic acid, ... | | Authors: | Sauthof, L, Schmidt, A, Szczepek, M, Scheerer, P. | | Deposit date: | 2018-03-22 | | Release date: | 2018-11-28 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.03 Å) | | Cite: | Structural snapshot of a bacterial phytochrome in its functional intermediate state.
Nat Commun, 9, 2018
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3IBR
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3IBJ
 | | X-ray structure of PDE2A | | Descriptor: | MAGNESIUM ION, ZINC ION, cGMP-dependent 3',5'-cyclic phosphodiesterase | | Authors: | Pandit, J. | | Deposit date: | 2009-07-16 | | Release date: | 2009-10-27 | | Last modified: | 2023-09-06 | | Method: | X-RAY DIFFRACTION (3.02 Å) | | Cite: | Mechanism for the allosteric regulation of phosphodiesterase 2A deduced from the X-ray structure of a near full-length construct.
Proc.Natl.Acad.Sci.USA, 106, 2009
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