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Phosphodiesterase
From Proteopedia
(Difference between revisions)
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**[[3ib8]] – MtPDE + AMP | **[[3ib8]] – MtPDE + AMP | ||
| - | *cGMP PDE | + | *cGMP PDE or cyclic di-GMP PDE |
**[[1ksg]], [[1ksh]], [[1ksj]] – hPDE δ subunit + ARF-like protein - human<BR /> | **[[1ksg]], [[1ksh]], [[1ksj]] – hPDE δ subunit + ARF-like protein - human<BR /> | ||
| Line 23: | Line 23: | ||
**[[4kie]], [[4lyk]] - EcPDE EAL domain – ''Escherichia coli''<br /> | **[[4kie]], [[4lyk]] - EcPDE EAL domain – ''Escherichia coli''<br /> | ||
**[[4lj3]] - EcPDE EAL domain + GMP<br /> | **[[4lj3]] - EcPDE EAL domain + GMP<br /> | ||
| + | **[[4r8z]] - PaPDE HD-GYP domain + Ni – ''Pseudomonas aeruginosa''<br /> | ||
*PDE 1 | *PDE 1 | ||
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**[[2r8q]] - PDE 1b catalytic domain + inhibitor – ''Leishmania major''<br /> | **[[2r8q]] - PDE 1b catalytic domain + inhibitor – ''Leishmania major''<br /> | ||
**[[4i15]] – PDE catalytic domain – ''Trypanosoma brucei''<br /> | **[[4i15]] – PDE catalytic domain – ''Trypanosoma brucei''<br /> | ||
| + | **[[4ojv]] – yPDE – yeast<br /> | ||
| + | **[[4ojx]] – yPDE + GMP<br /> | ||
| - | *PDE 2 | + | *PDE 2 or cGMP-dependent 3’,5’-cyclic PDE |
**[[1f0j]] – mPDE 2a regulatory domain (mutant) – mouse<BR /> | **[[1f0j]] – mPDE 2a regulatory domain (mutant) – mouse<BR /> | ||
**[[1z1l]], [[3ibj]], [[3itm]] - hPDE 2a catalytic domain<BR /> | **[[1z1l]], [[3ibj]], [[3itm]] - hPDE 2a catalytic domain<BR /> | ||
| - | **[[3itu]], [[4htx]], [[4htz]], [[4jib]] - hPDE 2a catalytic domain + inhibitor<br /> | + | **[[3itu]], [[4htx]], [[4htz]], [[4jib]], [[4d08]], [[4d09]] - hPDE 2a catalytic domain + inhibitor<br /> |
*PDE 3 | *PDE 3 | ||
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**[[3i8v]], [[3tvx]] – hPDE 4a catalytic domain + inhibitor<br /> | **[[3i8v]], [[3tvx]] – hPDE 4a catalytic domain + inhibitor<br /> | ||
| - | *PDE 4b | + | *PDE 4b or cAMP-specific 3’,5’-cyclic PDE |
**[[1f0j]] – hPDE 4b catalytic domain (mutant) <BR /> | **[[1f0j]] – hPDE 4b catalytic domain (mutant) <BR /> | ||
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**[[1tb5]], [[1ro9]], [[1ror]] - hPDE 4b catalytic domain + AMP<BR /> | **[[1tb5]], [[1ro9]], [[1ror]] - hPDE 4b catalytic domain + AMP<BR /> | ||
**[[1y2h]], [[1y2j]], [[2qyl]], [[3d3p]], [[3kkt]], [[3frg]], [[3gwt]], [[3ly2]], [[3hmv]], [[3o56]], [[3o57]], [[3o0j]], [[3w5e]], [[3wd9]], [[4myq]] - hPDE 4b catalytic domain + inhibitor<br /> | **[[1y2h]], [[1y2j]], [[2qyl]], [[3d3p]], [[3kkt]], [[3frg]], [[3gwt]], [[3ly2]], [[3hmv]], [[3o56]], [[3o57]], [[3o0j]], [[3w5e]], [[3wd9]], [[4myq]] - hPDE 4b catalytic domain + inhibitor<br /> | ||
| + | **[[4x0f]] - hPDE 4b catalytic domain (mutant) + inhibitor<br /> | ||
**[[3g45]] - hPDE 4b catalytic domain + modulator | **[[3g45]] - hPDE 4b catalytic domain + modulator | ||
| Line 67: | Line 71: | ||
**[[3iad]], [[3g4g]], [[3g4i]], [[3g58]] - hPDE 4d catalytic domain + modulator | **[[3iad]], [[3g4g]], [[3g4i]], [[3g58]] - hPDE 4d catalytic domain + modulator | ||
| - | *PDE 5 | + | *PDE 5 or cGMP-specific 3’,5’-cyclic PDE |
**[[2h40]] - hPDE 5a catalytic domain <BR /> | **[[2h40]] - hPDE 5a catalytic domain <BR /> | ||
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**[[3lfv]], [[3mf0]], [[2xss]] - hPDE 5a GAF domain<BR /> | **[[3lfv]], [[3mf0]], [[2xss]] - hPDE 5a GAF domain<BR /> | ||
**[[1rkp]], [[3tgg]] – hPDE 5a1 catalytic domain (mutant) + inhibitor<br /> | **[[1rkp]], [[3tgg]] – hPDE 5a1 catalytic domain (mutant) + inhibitor<br /> | ||
| - | **[[2chm]], [[3tse]], [[3tsf]], [[4g2w]], [[4g2y]], [[4i9z]], [[4ia0]] - hPDE 5a catalytic domain + inhibitor<br /> | + | **[[2chm]], [[3tse]], [[3tsf]], [[4g2w]], [[4g2y]], [[4i9z]], [[4ia0]], [[4md6]] - hPDE 5a catalytic domain + inhibitor<br /> |
**[[2h44]], [[3bjc]], [[3hc8]], [[3hdz]], [[3shy]], [[3shz]], [[3sie]], [[3tge]] - hPDE 5a1 catalytic domain + inhibitor<br /> | **[[2h44]], [[3bjc]], [[3hc8]], [[3hdz]], [[3shy]], [[3shz]], [[3sie]], [[3tge]] - hPDE 5a1 catalytic domain + inhibitor<br /> | ||
**[[1udt]], [[1udu]], [[1uho]], [[1tbf]], [[1xoz]], [[1xp0]], [[2h42]], [[3b2r]] - hPDE 5 catalytic domain + drug<br /> | **[[1udt]], [[1udu]], [[1uho]], [[1tbf]], [[1xoz]], [[1xp0]], [[2h42]], [[3b2r]] - hPDE 5 catalytic domain + drug<br /> | ||
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*PDE 7 | *PDE 7 | ||
| - | **[[1zkl]], [[3g3n]] – hPDE 7a catalytic domain + inhibitor<br /> | + | **[[1zkl]], [[3g3n]], [[2y2b]] – hPDE 7a catalytic domain + inhibitor<br /> |
*PDE 8 | *PDE 8 | ||
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**[[3dy8]], [[3dyl]], [[3dyn]], [[3dyq]], [[3dys]] - hPDE 9 catalytic domain + GMP<br /> | **[[3dy8]], [[3dyl]], [[3dyn]], [[3dyq]], [[3dys]] - hPDE 9 catalytic domain + GMP<br /> | ||
**[[4gyz]] - mPDE 9 catalytic domain + AMP<br /> | **[[4gyz]] - mPDE 9 catalytic domain + AMP<br /> | ||
| + | **[[4qge]] - PDE 9 catalytic domain + inhibitor - chimpanzee<br /> | ||
| - | *PDE 10 | + | *PDE 10 or cAMP and cAMP-inhibited cGMP 3’,5’-cyclic PDE |
**[[2o8h]] – rPDE 10a catalytic domain<BR /> | **[[2o8h]] – rPDE 10a catalytic domain<BR /> | ||
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**[[2ous]], [[2ouv]] - hPDE 10a2 catalytic domain (mutant) <BR /> | **[[2ous]], [[2ouv]] - hPDE 10a2 catalytic domain (mutant) <BR /> | ||
**[[2ovv]], [[2ovy]] – rPDE 10a catalytic domain + inhibitor<br /> | **[[2ovv]], [[2ovy]] – rPDE 10a catalytic domain + inhibitor<br /> | ||
| - | **[[2qyk]], [[3lxg]], [[2y0j]], [[3qpn]], [[3qpo]], [[3qpp]], [[3sn7]], [[3sni]], [[3snl]], [[3wi2]], [[4ael]], [[4ajd]], [[4ajf]], [[4ajg]], [[4ajm]], [[4ddl]], [[4fcb]], [[4fcd]], [[4heu]], [[4hf4]], [[4lkq]], [[4llj]], [[4llk]], [[4llp]], [[4llx]], [[4lm0]], [[4lm1]], [[4lm2]], [[4lm3]], [[4lm4]], [[4muw]], [[4mvh]] - hPDE 10a catalytic domain + inhibitor<br /> | + | **[[2qyk]], [[3lxg]], [[2y0j]], [[3qpn]], [[3qpo]], [[3qpp]], [[3sn7]], [[3sni]], [[3snl]], [[3wi2]], [[4ael]], [[4ajd]], [[4ajf]], [[4ajg]], [[4ajm]], [[4ddl]], [[4fcb]], [[4fcd]], [[4heu]], [[4hf4]], [[4lkq]], [[4llj]], [[4llk]], [[4llp]], [[4llx]], [[4lm0]], [[4lm1]], [[4lm2]], [[4lm3]], [[4lm4]], [[4muw]], [[4mvh]], [[4yqh]], [[4ys7]], [[3ws8]], [[3ws9]], [[3wyk]], [[3wyl]], [[3wym]], [[4mrw]], [[4mrz]], [[rms0]], [[4msa]], [[rmsc]], [[4mse]], [[rmsh]], [[4msn]] - hPDE 10a catalytic domain + inhibitor<br /> |
**[[2wey]], [[3hqw]], [[3hqy]], [[3hqz]], [[3hr1]], [[3ui7]], [[3uuo]], [[4bbx]], [[4dff]] - hPDE 10a catalytic domain + schizophrenia drug<br /> | **[[2wey]], [[3hqw]], [[3hqy]], [[3hqz]], [[3hr1]], [[3ui7]], [[3uuo]], [[4bbx]], [[4dff]] - hPDE 10a catalytic domain + schizophrenia drug<br /> | ||
**[[2oun]] - hPDE 10a2 catalytic domain + AMP<BR /> | **[[2oun]] - hPDE 10a2 catalytic domain + AMP<BR /> | ||
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*Tyrosyl-DNA PDE | *Tyrosyl-DNA PDE | ||
| - | **[[1q32]] – yPDE | + | **[[1q32]] – yPDE <BR /> |
**[[3sq3]], [[3sq5]], [[3sq7]], [[3sq8]] – yPDE (mutant) <BR /> | **[[3sq3]], [[3sq5]], [[3sq7]], [[3sq8]] – yPDE (mutant) <BR /> | ||
**[[1jy1]], [[1qzq]] – hPDE residues 149-608<BR /> | **[[1jy1]], [[1qzq]] – hPDE residues 149-608<BR /> | ||
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**[[1rgu]], [[1rh0]] - hPDE residues 149-608 (mutant) + polynucleotide + neurohormone<br /> | **[[1rgu]], [[1rh0]] - hPDE residues 149-608 (mutant) + polynucleotide + neurohormone<br /> | ||
**[[4f1h]], [[4fpv]] – PDE + DNA – zebra fish<br /> | **[[4f1h]], [[4fpv]] – PDE + DNA – zebra fish<br /> | ||
| - | **[[4gz0]], [[4gz1]], [[4gz2]] – mPDE + DNA<br /> | + | **[[4gz0]], [[4gz1]], [[4gz2]], [[4puq]] – mPDE + DNA<br /> |
*Glycerophosphodiester PDE | *Glycerophosphodiester PDE | ||
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**[[2zo9]], [[2zoa]] – PDE + malonate – ''Enterobacter aerogenes''<BR /> | **[[2zo9]], [[2zoa]] – PDE + malonate – ''Enterobacter aerogenes''<BR /> | ||
**[[3mz2]], [[3no3]] – PDE – ''Parabacterioides distasonia''<BR /> | **[[3mz2]], [[3no3]] – PDE – ''Parabacterioides distasonia''<BR /> | ||
| + | **[[4oec]] – PDE – ''Thermococcus kodakarensis''<br /> | ||
*C-di-GMP PDE See [[C-di-GMP specific phosphodiesterases]] | *C-di-GMP PDE See [[C-di-GMP specific phosphodiesterases]] | ||
Revision as of 08:33, 12 May 2015
- 3'5'-cyclic nucleotide phosphodiesterases (PDE) are enzymes that hydrolyze the 3',5'-phosphodiester bond in cyclic nucleotides (e.g., cAMP, cGMP). PDEs operate in concert with cyclases (adenylate cyclase or guanylate cyclase) to regulate the cellular concentration of cyclic nucleotides. cAMP and cGMP serve as intracellular second messengers for a multitude of signaling pathways, including sensory transduction, hormone signaling, and neurotransmitter signaling. In mammals, 11 distinct families of PDEs have been identified which share a highly homologous catalytic domain (pfam:00233, PDEase_I). See details on PDE 6 in User:Rick H. Cote/PDE6.
- Tyrosyl-DNA PDE hydrolyzes phosphodiester bond at the 3’-end of DNA linked to a tyrosyl moiety.
- Glycerophosphodiester PDE hydrolyzes various glycerophosphodiesters to release glycerol-3-phosphate and alcohol.
Specific phosphodiesterases are in C-di-GMP specific phosphodiesterases.
3D Structures of phosphodiesterase
Updated on 12-May-2015
Proteopedia Page Contributors and Editors (what is this?)
Michal Harel, Alexander Berchansky, Joel L. Sussman, Rick H. Cote
