Phosphodiesterase 3D structures

1loi – rPDE N terminal – rat – NMR

3ib7 – MtPDE – Mycobacterium tuberculosis

3ib8 – MtPDE + AMP

1ksg, 1ksh, 1ksj – hPDE δ subunit + ARF-like protein - human

2ju4 - bPDE γ subunit – bovine - NMR

6mzb - bPDE α,β,γ subunits – Cryo EM

4kie, 4lyk - EcPDE EAL domain – Escherichia coli

4lj3 - EcPDE EAL domain + GMP

4r8z - PaPDE HD-GYP domain + Ni – Pseudomonas aeruginosa

2bas – BsYkuI – Bacillus subtilis

2w27 – BsYkuI + C-di-GMP

3gfx, 3gfy, 3gfz, 3gg0, 3gg1 – KpBlrP1 + C-di-GMP - Klebsiella pneumoniae

2kb2 - KpBlrP1 BLUF domain - NMR

4ojv – yPDE – yeast

4ojx – yPDE + GMP

1taz – hPDE 1b catalytic domain – human

5up0, 5uoy - hPDE 1b catalytic domain + inhibitor

5b25 - hPDE 1b catalytic domain (mutant) + inhibitor

2r8q - PDE 1b catalytic domain + inhibitor – Leishmania major

1f0j – mPDE 2a regulatory domain (mutant) – mouse

1z1l, 3ibj, 3itm - hPDE 2a catalytic domain

3itu, 4htx, 4htz, 4jib, 4d08, 4d09, 5xkm, 5vp0, 5vp1, 5u7l, 5u7k, 5u7j, 5u7i, 5u7d, 5u00, 5tzz, 5tzx, 5tzw, 5tzh, 5tzc, 5tza, 5tz3, 6ezf, 6c7j, 6c7i, 6c7g, 6c7f, 6c7e, 6c7d, 6b98, 6b97, 6b96, 4c1i, 6cyd, 6cyc, 6cyb, 6blf, 6znd - hPDE 2a catalytic domain + inhibitor

1f0j – mPDE 2a regulatory domain (mutant) – mouse

6cpu - CaPDE 2 – Candida albicans

6cpt - CaPDE 2 + IBMX

5ldi - EcPDE

5ldq - EcPDE + NADP

5ldp, 5ldo, 5ldm, 5ldk - EcPDE + nucleotide

5ldj - EcPDE + Pi

5h7f, 5f7e - PDE core domain – Deinococcus radiodurans

7l27 – hPDE 3a

7l29 – hPDE 3a + AMP

7kwe – hPDE 3a + DNMDP

7l28 – hPDE 3a + trequinsin

7eg0, 7eg1, 7eg4, 7lrc, 7lrd – hPDE 3a + SLFN12 – Cryo EM

1so2, 1soj – hPDE 3b catalytic domain + inhibitor

5z7c – PDE 3 (mutant) – Vibrio cholerae

3i8v, 3tvx – hPDE 4a catalytic domain + inhibitor

6fg5, 6ezu - PDE 4a residues 230-597 – Schistosoma mansoni

1f0j, 4wzi– hPDE 4b catalytic domain (mutant)

1ro6, 1xmy, 1xn0 - hPDE 4b catalytic domain + anti-inflammatory drug

1xot - hPDE 4b catalytic domain + drug

1tb5, 1ro9, 1ror - hPDE 4b catalytic domain + AMP

1y2h, 1y2j, 2qyl, 3d3p, 3kkt, 3frg, 3gwt, 3ly2, 3hmv, 3o56, 3o57, 3o0j, 3w5e, 3wd9, 4myq, 4kp6, 4nw7, 5k6j, 5ohj, 5laq, 8oeg - hPDE 4b catalytic domain + inhibitor

4x0f - hPDE 4b catalytic domain (mutant) + inhibitor

3g45 - hPDE 4b catalytic domain + modulator

2qym – hPDE 4c catalytic domain

1e9k - hPDE 4d5 N terminal – NMR

1mkd, 1oyn, 1q9m, 1tbb, 1xoq, 3g4k, 3g4l - hPDE 4d catalytic domain + anti-inflammatory drug

1xlx, 1xlz, 1xm4, 1xm6, 1xmu, 1xom, 1xon, 1xor, 1xos, 3iak, 6akr, 6kjz, 6kk0, 6lrm, 7cbq - hPDE 4d catalytic domain + drug

1ptw, 1tb7 - hPDE 4d catalytic domain + AMP

2pw3 - hPDE 4d catalytic domain (mutant) + AMP

1y2b, 1y2c, 1y2d, 1y2e, 1y2k, 1zkn, 2fm0, 2fm5, 2qyn, 3k4s, 3sl3, 3sl4, 3sl5, 3sl6, 3sl8, 3v9b, 5wqa, 5tkb, 5k32, 5k1i, 4wcu, 4w1o, 4ogb, 6fdc, 6f8x, 6f8w, 6f8v, 6f8u, 6f8t, 6f8r, 6f6u, 5wh6, 5wh5, 5lbo, 6rcw, 6inm, 6ink, 6ind, 6imt, 6imr, 6imo, 6imd, 6imi, 6imb, 6im6, 6hwo, 6fw3, 6ftw, 6fta, 6ft0, 6fet, 6feb, 6fe7, 6fdi, 6boj, 6iag, 6ibf, 6zba, 7a8q, 7a9v, 7aag, 7ab9, 7abd, 7abe, 7abj, 7ay6, 7b9h, 7cbj, 7f2k, 7f2l, 7f2m, 7w4x, 7w4y, 7xaa, 7xab, 7xbb, 7yqf, 7ysx - hPDE 4d catalytic domain + inhibitor

6njj, 6nji, 6njh - hPDE 4d catalytic domain (mutant) + inhibitor

3iad, 3g4g, 3g4i, 3g58 - hPDE 4d catalytic domain + modulator

2h40 - hPDE 5a catalytic domain

1t9r - hPDE 5 catalytic domain

3lfv, 3mf0, 2xss - hPDE 5a GAF domain

1rkp, 3tgg – hPDE 5a1 catalytic domain (mutant) + inhibitor

2chm, 4oex, 4oew, 4g2w, 4g2y, 4i9z, 4ia0, 4md6, 5jo3, 6acb, 5zz2, 6iwi, 6vbi, 7far - hPDE 5a catalytic domain + inhibitor

2h44, 3bjc, 3hc8, 3hdz, 3shy, 3shz, 3sie, 3tge - hPDE 5a1 catalytic domain + inhibitor

1udt, 1udu, 1uho, 1tbf, 1xoz, 1xp0, 2h42, 3b2r, 6l6e - hPDE 5 catalytic domain + drug

3jwq - hPDE 5/hPDE 6 catalytic domain + drug

3jwr - hPDE 5/hPDE 6 catalytic domain + hPDE γ subunit peptide + inhibitor

1t9s - hPDE 5 catalytic domain + GMP

2k31 - mPDE 5a cGMP-binding domain – NMR

5w10 - PDE + cAMP – Leptospira interrogans

5t4x, 7pac - hPDE 6d δ subunit

3t5g – hPDE 6d δ subunit + GTP-binding protein RHEB

3t5i - hPDE 6d δ subunit + GTP-binding protein RHEB peptide

5tar, 5tb5, 7q9u - hPDE 6d δ subunit + GTP-binding protein KRas

7qf9 - hPDE 6d δ subunit + KRas peptide

5f2u - hPDE 6d δ subunit + INPP5E peptide

5e8f - hPDE 6d δ subunit + PDE 6c peptide

4jhp - hPDE 6d δ subunit + RPGR

4jv6, 4jv8, 4jvb, 4jvf, 5ml2, 5ml3, 5ml4, 5ml6, 5ml8, 5nal, 5e80, 7pad, 7pae, 7qjk, 7faq - hPDE 6d δ subunit + inhibitor

6mzb, 7jsn - bPDE 6 g subunit in visual signaling complex – Cryo EM

3dba - cPDE 6c GAF A domain – chicken

6x88 - cPDE 6c a subunit GAF domain 1-862

1zkl, 3g3n, 2y2b, 4y2b, 4pm0 – hPDE 7a catalytic domain + inhibitor

3ecm – hPDE 8a catalytic domain

3ecn, 7cwf, 7cwg, 7vsl, 7vtv, 7vtw, 7vtx – hPDE 8a catalytic domain + inhibitor

7cwa - hPDE 8a catalytic domain + leukemia drug

2hd1, 2yy2, 3jsi, 3jsw, 3k3e, 3k3h, 4e90, 4g2j, 4g2l, 4gh6,4y8c, 4y87, 4y86, 6a3n, 6lzz, [[[7f0i]], [8bpy]] - hPDE 6d δ subunit + RPGR

3n3z, 3qi3, 3qi4 - hPDE 9a catalytic domain (mutant) + inhibitor

3dy8, 3dyl, 3dyn, 3dyq, 3dys - hPDE 9 catalytic domain + GMP

4qge - PDE 9 catalytic domain + inhibitor - chimpanzee

4gyz - mPDE 9 catalytic domain + AMP

2oup - hPDE 10a catalytic domain

2zmf – hPDE 10a C terminal

2ous, 2ouv - hPDE 10a2 catalytic domain (mutant)

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, 4ms0, 4msa, 4msc, 4mse, 4msh, 4msn, 5uwf, 5k9r, 5i2r, 5edi, 5edh, 5edg, 5ede, 5dh5, 5dh4, 5c2h, 5c2e, 5c2a, 5c29, 5c28, 5c1w, 5b4k, 5b4l, 5axq, 5axp, 4zo5, 4xy2, 4wn1, 4tpp, 4tpm, 4phw, 4p1r, 4p0n, 5xuj, 5xui, 6msc, 6msa, 6ke0, 6kdz, 6kdx, 6iji, 6ijh, 5znl, 6ko0, 6ko1, 6kze, 7bpi, 7qpm - hPDE 10a catalytic domain + inhibitor

2wey, 3hqw, 3hqy, 3hqz, 3hr1, 3ui7, 3uuo, 4bbx, 4dff, 8di4 - hPDE 10a catalytic domain + schizophrenia drug

2oun - hPDE 10a2 catalytic domain + AMP

2our, 2ouy - hPDE 10a2 catalytic domain (mutant) + AMP

2ouq - hPDE 10a2 catalytic domain + GMP

2ouu - hPDE 10a2 catalytic domain (mutant) + GMP

2o8h – rPDE 10a catalytic domain

6k9u, 2ovv, 2ovy - rPDE 10a catalytic domain + inhibitor

4zkf, 4z0v - hPDE

4z2b - hPDE + inhibitor

4i15 – TbPDEb1 catalytic domain – Trypanosoma brucei

5l9h, 5l8y, 5l8c, 5g5v, 5g57, 5g2b, 4phl, 6rgk, 6rfw, 6rfn, 6rb6, 6gxq, 6fv9, 6ftm, 6frd, 6fe3, 6fdx, 6fdw, 6fds, 6qgp, 6qgu, 7a28, 7a2f – TbPDEb1 catalytic domain + inhibitor

5h2r, 5h2q – TbPDEb2 catalytic domain + inhibitor

5v1m - hPDE + UMP

6d31 - hPDE + AMP

6d30, 6d2z - hPDE (mutant) + RNA

5uqj - yPDE

5mkg, 5mf5 - PaPDE + c-di-GMP

5mfu - PaPDE + GMP + Mn

5m1t - PaPDE + c-di-GMP + Mg

1woj – hPDE residues 166-379

2ilx - rPDE catalytic domain

2xmi, 2y1p, 2y3x, 5ae0 - mPDE catalytic domain

4wex, 4wdh, 4wde, 4wdd, 4wcc, 4wcb, 4wca, 4wc9, 4wbl, 4wbi, 7qzk, 7qzs - mPDE catalytic domain (mutant)

1mc0 – mPDE regulatory subunit

2ydb - mPDE catalytic domain + cyclic NADP

3zbr, 3zbs, 3zbz - mPDE catalytic domain (mutant) + NADP

2ydc - mPDE catalytic domain + GTP

2ydd - mPDE catalytic domain + cyclic AMP

2ypc, 2ype, 2yph - mPDE catalytic domain (mutant) + cyclic AMP

2yoz, 2yp0, 4wfr - mPDE catalytic domain + 2’-AMP

2yq9, 4wdb, 4wda - mPDE catalytic domain (mutant) + 2’-AMP

4wdg, 4wdf - mPDE catalytic domain (mutant) + 2’-ADP

1fsi, 1jh6 – AtPDE – Arabidopsis thaliana

1jh7 – AtPDE + inhibitor

3jyf – KpPDE residues 16-354

3v93 – TcPDE catalytic domain – Trypanosoma cruzi

3v94 - TcPDE catalytic domain + inhibitor

1jy1, 1qzq – hPDE1 catalytic domain

1mu7 - hPDE1 catalytic domain (mutant) + WO4

1mu9 - hPDE1 catalytic domain (mutant) + VO4

1nop, 1rff, 1rfi, 1rg1, 1rg2, 1rgt - hPDE1 catalytic domain (mutant) + DNA + topoisomerase peptide + VO4

1rgu, 1rh0 - hPDE1 catalytic domain (mutant) + polynucleotide + neurohormone

6n19, 6n17, 6n0r, 6n0o, 6n0n, 6n0d, 6mz0, 6myz, 6mj5, 6djj, 6dji, 6djh, 6djg, 6djf, 6dje, 6djd, 6dim, 6dih, 6die, 6dhu, 6w4r, 6w7j, 6w7k, 6w7l, 7ufy, 7ufz, 8cvq, 8cw2 - hPDE catalytic domain + inhibitor

5j3s, 5j3p - hPDE catalytic domain (mutant) + inhibitor

5nwa, 5nw9 – hPDE1 residues 1-148 + DNA

6q00, 6q01 - hPDE UBA domain 25-66 + ubiquitin

5j3s, 5j3p - hPDE1 catalytic domain (mutant) + inhibitor

5inm - mPDE catalytic domain

5inn - mPDE catalytic domain (mutant)

4gz0, 4gz1, 4gz2, 4puq, 5inq, 5inp, 5ino, 5inl, 5ink, 5ht2 – mPDE catalytic domain + DNA

5tvq – mPDE catalytic domain + SUMO-2

5tvp – mPDE catalytic domain + SUMO-2 + DNA

5j42, 5j3z - mPDE catalytic domain (mutant) + inhibitor

4f1h, 4fpv – zPDE + DNA – zebra fish

6ca4 - zPDE catalytic domain (mutant) + inhibitor

4f1i, 4fva, 4gew – PDE – Caenorhabditis elegans

1q32 – yPDE

3sq3, 3sq5, 3sq7, 3sq8 – yPDE (mutant)

1o1z – TmPDE – Thermotoga maritima

1t8q, 1ydy – EcPDE

1v8e – TtPDE – Thermus thermophilus

1vd6 – TtPDE + glycerol

1zcc – PDE – Agrobacterium tumefaciens

2o55 – PDE – Galdieria sulphuraria

2oog, 2p76 – SaPDE – Staphylococcus aureus

2otd – PDE – Shigella flexneri

3ch0 – PDE – Cytophaga hutchisonii

2pz0 – PDE – Thermoanaerobacter tengcongensis

2zo9, 2zoa – PDE + malonate – Enterobacter aerogenes

3mz2, 3no3 – PDE – Parabacterioides distasonia

4oec – PDE – Thermococcus kodakarensis

5t9c, 5t9b – BsPDE + P3G

5t91 – BsPDE + bicine

7e0v – PfPDE – Pyrococcus furiosus

7e2a – PfPDE (mutant)

7e2b – PfPDE + palmitate + choline

5gz4 – TacPDE – Taiwan cobra

5gz5 – TacPDE + AMP

7cba – TacPDE + flavonoid

2ahd – PDE – Methanocaldococcus jannaschii

3qvq – PDE + P3G– Oleispira antarctica

4b2o – BsPDE

4g75, 4g76 – PaPDE

5xsi – SaPDE catalytic domain

5xt3 – SaPDE catalytic domain + C-di-GMP

5xsn – SaPDE catalytic domain + C-di-AMP

5xsp – SaPDE catalytic domain + AMP

5vyd, 7d7p – SrPDE PDE domain 387-704 – Salpingoeca rosetta

7cj3, 7d7q – SrPDE TM domain 33-378

5o7f – TmPDE (mutant) + GMP

5o1u – TmPDE + AMP

5o70, 5o4z – TmPDE (mutant) + AMP

5o58 – TmPDE (mutant) + RNA

7dck – PDE tw9814 + RNA – Epsilonproteobacteria bacterium