Dioxygenase
From Proteopedia
(Difference between revisions)
Line 17: | Line 17: | ||
*Protocatechuate 3,4-dioxygenase (PCD) | *Protocatechuate 3,4-dioxygenase (PCD) | ||
- | **[[2pcd]] – PpPCD α,β + Fe+3 – ''Pseudomonas putida''<br /> | + | **[[2pcd]], [[4who]], [[4whp]] – PpPCD α,β + Fe+3 – ''Pseudomonas putida''<br /> |
**[[3pcd]], [[1ykk]], [[1ykm]], [[1yko]], [[3lkt]], [[3mfl]], [[3mi1]], [[3mv4]], [[3t63]] – PpPCD α,β (mutant) + Fe+3 <br /> | **[[3pcd]], [[1ykk]], [[1ykm]], [[1yko]], [[3lkt]], [[3mfl]], [[3mi1]], [[3mv4]], [[3t63]] – PpPCD α,β (mutant) + Fe+3 <br /> | ||
**[[1eo2]], [[1eo9]], [[1eoa]], [[2bum]], [[2but]] – AcPCD α,β + Fe+3 - ''Acinetobacter''<br /> | **[[1eo2]], [[1eo9]], [[1eoa]], [[2bum]], [[2but]] – AcPCD α,β + Fe+3 - ''Acinetobacter''<br /> | ||
Line 24: | Line 24: | ||
*''PCD complex with aromatic compound'' | *''PCD complex with aromatic compound'' | ||
- | **[[3pcf]], [[3pch]], [[3pci]] – PpPCD α,β + Fe+3 + HB derivative<br /> | + | **[[3pcf]], [[3pch]], [[3pci]], [[4whq]], [[4whr]], [[4whs]] – PpPCD α,β + Fe+3 + HB derivative<br /> |
**[[3pca]], [[3pcb]], [[3pcc]] – PpPCD α,β + Fe+3 + HB <br /> | **[[3pca]], [[3pcb]], [[3pcc]] – PpPCD α,β + Fe+3 + HB <br /> | ||
**[[1ykl]], [[1ykn]], [[1ykp]], [[3lmx]], [[3mv6]] – PpPCD α,β (mutant) + Fe+3 + DHB<br /> | **[[1ykl]], [[1ykn]], [[1ykp]], [[3lmx]], [[3mv6]] – PpPCD α,β (mutant) + Fe+3 + DHB<br /> | ||
Line 96: | Line 96: | ||
**[[4ie4]], [[4ie6]] – hFto + Zn+2 + quinoline derivative<br /> | **[[4ie4]], [[4ie6]] – hFto + Zn+2 + quinoline derivative<br /> | ||
**[[4ie7]] – hFto + Zn+2 + rhein<br /> | **[[4ie7]] – hFto + Zn+2 + rhein<br /> | ||
+ | **[[4qkn]] – hFto + Mn+2 + meclofenamic acid<br /> | ||
+ | **[[4cxw]], [[4cxx]], [[4cxy]] – hFto + Ni+2 + inhibitor<br /> | ||
*''Alkb complex with DNA'' | *''Alkb complex with DNA'' | ||
- | **[[3rzm]], [[3rzl]], [[3rzh]], [[3rzg]], [[3btz]] – hAlkb (mutant) + DNA<br /> | + | **[[3rzm]], [[3rzl]], [[3rzh]], [[3rzg]], [[3btz]], [[4mg2]], [[4mgt]] – hAlkb (mutant) + DNA<br /> |
**[[3h8x]], [[3h8r]], [[3h8o]], [[3bty]] – hAlkb (mutant) + DNA + inhibitor<br /> | **[[3h8x]], [[3h8r]], [[3h8o]], [[3bty]] – hAlkb (mutant) + DNA + inhibitor<br /> | ||
**[[3btx]] – hAlkb (mutant) + Mg+2 + DNA <br /> | **[[3btx]] – hAlkb (mutant) + Mg+2 + DNA <br /> | ||
**[[3i49]], [[3i2o]] – hAlkb + Fe+2 + oxoglutarate + DNA <br /> | **[[3i49]], [[3i2o]] – hAlkb + Fe+2 + oxoglutarate + DNA <br /> | ||
+ | **[[4nid]] – hAlkb + Mn+2 + oxoglutarate + DNA <br /> | ||
+ | **[[4nig]], [[4nih]], [[4nii]] – hAlkb (mutant) + Mn+2 + oxoglutarate + DNA <br /> | ||
+ | **[[3o1s]] – hAlkb + DNA <br /> | ||
**[[3i3m]] – hAlkb + Mn+2 + oxoglutarate + DNA<br /> | **[[3i3m]] – hAlkb + Mn+2 + oxoglutarate + DNA<br /> | ||
**[[3s5a]], [[3s57]], [[3rzk]], [[3rzj]], [[3buc]], [[3bu0]], [[3bkz]] – hAlkb (mutant) + Mn+2 + oxoglutarate + DNA<br /> | **[[3s5a]], [[3s57]], [[3rzk]], [[3rzj]], [[3buc]], [[3bu0]], [[3bkz]] – hAlkb (mutant) + Mn+2 + oxoglutarate + DNA<br /> | ||
Line 110: | Line 115: | ||
**[[3khc]] – hAlkb (mutant) + Co+2 + oxoglutarate + DNA + inhibitor<br /> | **[[3khc]] – hAlkb (mutant) + Co+2 + oxoglutarate + DNA + inhibitor<br /> | ||
**[[3o1v]], [[3o1u]], [[3o1t]], [[3t1s]] – hAlkb (mutant) + Fe+3 + succinate + DNA + inhibitor<br /> | **[[3o1v]], [[3o1u]], [[3o1t]], [[3t1s]] – hAlkb (mutant) + Fe+3 + succinate + DNA + inhibitor<br /> | ||
+ | |||
+ | *Leucoanthocyanidin dioxygenase (LACD) | ||
+ | |||
+ | **[[1gp5]], [[1gp6]] – AtLACD + dihydroquercetin – ''Arabidopsis thaliana'' <br /> | ||
+ | **[[2brt]] – AtLACD + naringenin <br /> | ||
*'''Dioxygenase extradiol family''' | *'''Dioxygenase extradiol family''' | ||
Line 219: | Line 229: | ||
**[[2nw8]], [[2nw9]] – XcTDO + heme + Mn + tryptophan derivative<br /> | **[[2nw8]], [[2nw9]] – XcTDO + heme + Mn + tryptophan derivative<br /> | ||
**[[2nox]] – CmTDO + heme – ''Cupriavidus metallidurans''<br /> | **[[2nox]] – CmTDO + heme – ''Cupriavidus metallidurans''<br /> | ||
+ | **[[4pw8]] - hTDO + Co+2 <br /> | ||
*Cysteine dioxygenase type I (CysDO) | *Cysteine dioxygenase type I (CysDO) | ||
- | **[[2gh2]], [[4ieo]], [[4iep]], [[4ieq]], [[4ier]], [[4ies]], [[4iet]], [[4ieu]], [[4iev]], [[4iew]], [[4iex]], [[4iey]], [[4iez]], [[4jtn]], [[4jto]], [[4kwj]], [[4kwk]], [[4kwl]] – rCysDO + Fe+2 – rat <br /> | + | **[[2gh2]], [[4ieo]], [[4iep]], [[4ieq]], [[4ier]], [[4ies]], [[4iet]], [[4ieu]], [[4iev]], [[4iew]], [[4iex]], [[4iey]], [[4iez]], [[4jtn]], [[4jto]], [[4kwj]], [[4kwk]], [[4kwl]], [[2b5h]] – rCysDO + Fe+2 – rat <br /> |
+ | **[[4ubg]], [[4ubh]] – rCysDO (mutant) + Fe+2 <br /> | ||
**[[3eln]] – rCysDO + Fe+2 + cysteine derivative<br /> | **[[3eln]] – rCysDO + Fe+2 + cysteine derivative<br /> | ||
- | **[[2q4s]] – mCysDO + Ni+2 <br /> | + | **[[2q4s]], [[2atf]] – mCysDO + Ni+2 <br /> |
**[[2ic1]] – hCysDO + Fe+2 + cysteine<br /> | **[[2ic1]] – hCysDO + Fe+2 + cysteine<br /> | ||
Line 231: | Line 243: | ||
**[[1cjx]] – HPPD + Fe+2 – ''Pseudomonas fluorescens''<br /> | **[[1cjx]] – HPPD + Fe+2 – ''Pseudomonas fluorescens''<br /> | ||
**[[1t47]] – HPPD + Fe+2 – ''Streptomyces avermitilis''<br /> | **[[1t47]] – HPPD + Fe+2 – ''Streptomyces avermitilis''<br /> | ||
- | **[[1sqd]], [[1sp9]] – AtHPPD + Fe+3 | + | **[[3zgj]] – HPPD + Co+2 + mandelic acid – ''Streptomyces coelicolor''<br /> |
+ | **[[1sqd]], [[1sp9]] – AtHPPD + Fe+3 <br /> | ||
**[[1sqi]] – HPPD + Fe+3 + inhibitor - rat<br /> | **[[1sqi]] – HPPD + Fe+3 + inhibitor - rat<br /> | ||
**[[1tfz]], [[1tg5]] – AtHPPD + Fe+3 + inhibitor <br /> | **[[1tfz]], [[1tg5]] – AtHPPD + Fe+3 + inhibitor <br /> | ||
Line 253: | Line 266: | ||
**[[3r1j]] – HAD + Fe+3 – ''Mycobacterium avium''<br /> | **[[3r1j]] – HAD + Fe+3 – ''Mycobacterium avium''<br /> | ||
**[[4j5i]] – HAD + Fe+3 – ''Mycobacterium smegmatis''<br /> | **[[4j5i]] – HAD + Fe+3 – ''Mycobacterium smegmatis''<br /> | ||
+ | **[[3swt]] – HAD + Fe+3 – ''Mycobacterium marinum''<br /> | ||
*3-hydroxyanthranilate 3,4-dioxygenase (HAD) | *3-hydroxyanthranilate 3,4-dioxygenase (HAD) | ||
- | **[[1yfu]] – CmHAD + Fe+3<br /> | + | **[[1yfu]], [[4hvq]], [[4hvr]], [[4i3p]] – CmHAD + Fe+3<br /> |
+ | **[[4hvo]] – CmHAD + Fe+3 + Cu+2<br /> | ||
**[[1yfw]] – CmHAD + Fe+3 + O2 + hydroxyanthranilate<br /> | **[[1yfw]] – CmHAD + Fe+3 + O2 + hydroxyanthranilate<br /> | ||
**[[1yfx]] – CmHAD + Fe+3 + NO + hydroxyanthranilate<br /> | **[[1yfx]] – CmHAD + Fe+3 + NO + hydroxyanthranilate<br /> | ||
Line 266: | Line 281: | ||
*Carbazole 1,9a-dioxygenase (CDO) | *Carbazole 1,9a-dioxygenase (CDO) | ||
- | **[[1vck]] – | + | **[[1vck]] – CDO ferredoxin component + Fe+3 + Fe2S2 – ''Pseudomonas resinovorans''<br /> |
- | **[[2de5]], [[2de6]] – | + | **[[2de5]], [[2de6]] – JaCDO ferredoxin and terminal oxygenase components + Fe+3 + Fe2S2 – ''Janthinobacterium''<br /> |
- | **[[2de7]], [[3vmg]] – | + | **[[2de7]], [[3vmg]] – JaCDO ferredoxin and terminal oxygenase components + Fe+3 + Fe2S2 + carbazole<br /> |
- | **[[3vmh]] – | + | **[[3vmh]] – JaCDO ferredoxin and terminal oxygenase components + Fe+3 + Fe2S2 + O2<br /> |
- | **[[3vmi]] – | + | **[[4nb8]], [[4nb9]], [[4nba]], [[4nbb]], [[4nbc]], [[4nbd]], [[4nbe]], [[4nbf]], [[4nbg]], [[4nbh]] – JaCDO ferredoxin and terminal oxygenase components (mutant) + Fe+2 + Fe2S2 <br /> |
+ | **[[3vmi]] – JaCDO ferredoxin and terminal oxygenase components + Fe+3 + Fe2S2 + carbazole + O2<br /> | ||
+ | **[[3gcf]] – CDO terminal oxygenase component + Fe+2 + Fe2S2 – ''Nocardioides aromaticivorans''<br /> | ||
+ | **[[3gkq]] – SpCDO terminal oxygenase component + Fe+2 + Fe2S2 <br /> | ||
*Homogentisate 1,2-dioxygenase (HGDO) | *Homogentisate 1,2-dioxygenase (HGDO) | ||
Line 279: | Line 297: | ||
**[[4aq6]] – PpHGDO + Fe+3 + substrate<br /> | **[[4aq6]] – PpHGDO + Fe+3 + substrate<br /> | ||
**[[3zds]] – PpHGDO + Fe+3 + O2<br /> | **[[3zds]] – PpHGDO + Fe+3 + O2<br /> | ||
+ | |||
+ | *Hydroxyethylphosphonate dioxygenase (PHPD) | ||
+ | |||
+ | **[[4yar]], [[3g7d]] – SvPHPD + Cd+2 – ''Streptomyces viridochromogenes''<br /> | ||
+ | **[[3rzz]] – SvPHPD (mutant) + Cd+2 <br /> | ||
+ | **[[3gbf]] – SvPHPD + Cd+2 + hydroxyethylphosphonate <br /> | ||
+ | |||
+ | *Gallate dioxygenase (GD) | ||
+ | |||
+ | **[[3wrc]] – SpGD + Fe+2 + dehydroxybenzoate<br /> | ||
+ | **[[3wku]], [[3wpm]], [[3wr4]] – SpGD + Fe+3 + gallate<br /> | ||
+ | **[[3wr3]], [[3wr9]] – SpGD + Fe+2 + gallate<br /> | ||
+ | **[[3wrb]] – SpGD (mutant) + Fe+2 + gallate<br /> | ||
+ | **[[3wr8]], [[3wra]] – SpGD + Fe+2<br /> | ||
}} | }} | ||
[[Category:Topic Page]] | [[Category:Topic Page]] |
Revision as of 11:54, 24 March 2015
|
3D structures of Protocatechuate 3,4-dioxygenase
Updated on 24-March-2015
Proteopedia Page Contributors and Editors (what is this?)
Michal Harel, Alexander Berchansky, Joel L. Sussman, Jaime Prilusky