Hydroxylases 3D structures

3D structures of hydroxylases

Updated on 24-May-2023

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• Phenylalanine hydroxylase (cofactor tetrahydrobiopterin)
  • 6n1k – hPAH (mutant) – human
    
  • 6hyc – hPAH + cofactor
    
  • 1j8t, 1pah, 2pah - hPAH catalytic domain
    
  • 1tdw – hPAH catalytic domain (mutant)
    
  • 6hpo – hPAH catalytic domain + Fe
    
  • 3pah, 4pah – hPAH catalytic domain + adrenaline inhibitor
    
  • 5pah, 6pah - hPAH catalytic domain + dopamine inhibitor
    
  • 1j8u - hPAH catalytic domain + cofactor
    
  • 1dmw - hPAH catalytic domain + cofactor
    
  • 1tg2, 1lrm - hPAH catalytic domain (mutant) + cofactor
    
  • 1mmk, 1mmt, 1kw0 - hPAH catalytic domain + cofactor + substrate
    
  • 4anp - hPAH catalytic domain + pyrimidine derivative
  • 5fii, 5fgi - hPAH residues 19-118 + phenylalanine
    
  • 1phz, 2phm, 5den, 5fgj, 5den – rPAH - rat
    
  • 5egq - rPAH (mutant)
    
  • 5jk6 - smPAH + Fe – slime mold
    
  • 5jk5 - smPAH + cofactor + Fe
    
  • 5jk8 - smPAH + cofactor + Fe + norleucine
    
  • 2v27, 2v28 – PAH – Colwellia psychrerythraea
    
  • 1ltu, 1ltv – CvPAH – Chromobacterium violaceum
    
  • 4bpt – PAH – Legionella pneumophila
    
  • 1ltz - CvPAH + cofactor
    
  • 3tcy, 3tk2 – CvPAH + phenylalanine
    
  • 3tk4 – CvPAH + Co
    
  • 4esm, 4etl, 4q3w, 4q3x, 4q3y, 4q3z - CvPAH (mutant) + Co
    
  • 4jpx - CvPAH (mutant) + Co + phenylalanine
    
  • 4jpy - CvPAH + Fe + phenylalanine
    
  • 7vgm - PAH + Fe – Bacillus cereus
    
• Tyrosine hydroxylase (cofactor tetrahydrobiopterin)
  • 7a2g – hTH – Cryo EM
    
  • 6zn2, 6zvp, 7pim – hTH + dopamine – Cryo EM
    
  • 2xsn, 6zzu – hTH catalytic domain 193-528
    
  • [2toh]], 1toh – rTH catalytic and tetramerization domains 160-498 – rat
  • 2mda – rTH regulatory domain 65-159 – NMR
    
  • 7kqr, 7kqs, 7kqt, 7kqu – TH + heme + Tyr derivative – Streptomyces sclerotialus
    
• Tryptophan hydroxylase
  • 7wiy – hTPH 2 + Fe – Cryo EM
    
  • 3hf8, 3hfb, 3hf6, 5tpg, 5l01, 5j6d, 7zig, 7zih, 7zif, 7zii, 7zij, 7zik – hTPH 1 catalytic domain 105-401 + inhibitor + Fe
    
  • 1mlw – hTPH catalytic domain+ biopterin + Fe
    
  • 4v06 - hTPH 2 catalytic domain + Fe
    
  • 7qri - hTPH 2 regulatory domain 48-145 + Phe - NMR
    
  • 3e2t – TPH 1 catalytic domain + Trp + Fe – chicken
• p-hydroxybenzoate hydroxylase
  • 1phh – PfPHBH + FAD + DHB – Pseudomonas fluorescens
    
  • 2phh – PfPHBH + adenosine diphosphoribose + PHB
    
  • 1pbb – PfPHBH + FAD + 2,4-DHB
    
  • 1pbc, 1pbf – PfPHBH + FAD + 2-hydroxy-4-aminobenzoate
    
  • 1pbd – PfPHBH + FAD + 4-aminobenzoate
    
  • 1pbe – PfPHBH + FAD + PHB
    
  • 1bkw, 1bf3, 1bgj, 1bgn, 1cc4, 1cc6 – PfPHBH (mutant) + FAD + PHB
    
  • 1pdh – PfPHBH + FAD derivative + PHB
    
  • 1cj2, 1cj3, 1cj4 – PfPHBH (mutant) + FAD derivative + PHB
    
  • 1dob, 1doc, 1pxa, 1pxb, 1pxc – PaPHBH + FAD + PHB – Pseudomonas aeruginosa
    
  • 1dod, 1doe, 1iuv, 1iuw, 1iux – PaPHBH + FAD + DHB derivative
    
  • 1ius, 1iut, 1iuu – PaPHBH + FAD + 4-aminobenzoate
    
  • 6ju1 – PaPHBH (mutant) + FAD + DHB derivative
    
  • 1d7l – PaPHBH + FAD derivative + PHB
    
  • 1k0i, 1ykj – PaPHBH (mutant) + FAD + PHB
    
  • 1k0j – PaPHBH (mutant) + FAD + NADPH
    
  • 1k0l – PaPHBH (mutant) + FAD
    
  • 5tti, 6dll – PfPHBH + FAD – Pseudomonas putida
    
  • 2dki – CtPHBH + FAD – Comamonas testosteroni
    
  • 2dkh – CtPHBH + FAD + hydroxy-benzoate
    
• Apartyl/asparaginyl b-hydroxylase; Domain – oxygenase and TPR 301-758
  • 6qa5 – hAAH oxygenase and TPR domain
    
  • 5jz6 – hAAH oxygenase and TPR domain + malate + Mn
    
  • 5apa – hAAH residues 562-758 + malate + Ni
    
  • 5jza – hAAH oxygenase and TPR domain + oxalylglycine + Mn
    
  • 6yyu, 6yyv – hAAH oxygenase and TPR domain + oxoglutarate + Mn
    
  • 6yyw, 6yyx, 6yyy, 6z6q – hAAH oxygenase and TPR domain + oxoglutarate + Mn + coagulation factor X peptide
    
  • 5jz8, 5jzu, 5jzz, 5jqy, 6rk9, 6z6r – hAAH oxygenase and TPR domain + oxalyl derivative + Mn + coagulation factor X peptide
    
  • 7e6j – hAAH oxygenase and TPR domain (mutant) + coagulation factor X peptide
    
  • 6q9f, 6q9i – hAAH oxygenase and TPR domain (mutant) + oxalylglycine + Mn + coagulation factor X peptide
    
  • 5jtc, 7bmi, 7bmj – hAAH oxygenase and TPR domain + pyridine dicarboxylate + Mn + coagulation factor X peptide
    
• Alpha-ketoglutarate-dependent L-arginine hydroxylase
  • 6dax, 6alm, 6aln, 6mp8 – SvAAH + arginine + oxoglutarate + Fe – Streptomyces vinaceus
    
  • 6daz, 6alo, 6alp, 6alq, 6y12 – SvAAH + arginine + succinate + Fe
    
  • 6y0n – SvAAH + arginine + AKG + Fe
    
  • 6db2, 6alr – SvAAH + homoarginine + succinate + V
    
  • 6mp9 – SvAAH + guanidinopentanoate + succinate + Fe
    
• PLP-dependent L-arginine hydroxylase
  • 6c9b – SwAAH + PLP – Streptomyces wadayamensis
    
  • 5dj1 – SwAAH + PLP + Mg
    
  • 5dj3 – SwAAH + PLP-arginine + Mg
    
  • 5bk7 – SwAAH (mutant) + PLP-arginine
    
  • 6c8t, 6c92 – SwAAH + PLP-arginine + PLP derivative
    
• Leucine hydroxylase
  • 5nch – StAAH – Streptomyces
    
  • 5nci – StAAH + leucine derivative + oxoglutarate + Co
    
  • 5ncj – StAAH + leucine derivative + succinate + Mn
    
• L-arginine b-hydroxylase or non-heme iron oxygenase
  • 4m23 – SlORFP – Streptomyces lavendulae
    
  • 4m2i – SlORFP + Fe
    
  • 4m25 – SlORFP + Fe + ketoglutarate
    
  • 4m27, 4m2c – SlORFP + Fe + Arg
    
  • 4m2e – SlORFP + Fe + Arg derivative
    
  • 4m2f – SlORFP + Fe + canavanine
    
  • 4m2g, 4m26 – SlORFP + Fe + succinate + Arg derivative
    
  • 2wbo – SvVIOC + Fe + Arg – Streptomyces vinaceus
    
  • 2wbq – SvVIOC + Arg derivative
    
  • 2wbp – SvVIOC + Fe + succinate + Arg derivative
    
  • 6daw – NAPI + Fe + Arg – Streptomyces lusitanus
    
• Prolyl 4-hydroxylase
  • 4bt8, 2yq8 - hPH a1 subunit collagen-binding domain
    
  • 1tjc - hPH a1 subunit collagen-binding domain (mutant)
    
  • 2v5f, 4btb, 4bta, 4bt9 - hPH a1 subunit + peptide
    
  • 6evl - hPH a2 subunit
    
  • 6evm, 6evn, 6evo, 6evp - hPH a2 subunit + peptide
    
  • 3itq, 5hv0 - BaPH – Bacillus anthracis
    
  • 5hv4 - BaPH + ketoglutarate
    
  • 5c5u - PcvPH + Mn – Paramecium chlorella virus
    
  • 5c5t - PcvPH + Mn + Zn
    
  • 4p7x - RlPH + Co + pipecolic acid – Rhizobium loti
    
  • 4p7w - RlPH + Co + proline
    
  • 6iuq - PH + Fe – Phytophthora capsici
    
  • 2v4a, 2jij - CrPH – Chlamydomonas reinhardtii
    
  • 2jig - CrPH + Zn + pyridine derivative
    
  • 3gze - CrPH + Zn + peptide
    
• HIF prolyl hydroxylase or egl nine homolog See Prolyl hydroxylase domain
• Lysine 4-hydroxylase
  • 6f9p – FlL4H + Fe – Flavobacterium
    
  • 6exf – FlL4H + Fe + lysine
    
  • 6euo – FlL4H + Fe + succinate derivative
    
  • 6eur – FlL4H + Fe + oxoglutarate
    
  • 6exh – FlL4H + Fe + lysine + succinate
    
• Lysine 3-hydroxylase
  • 6f2e – CaL3H – Catenulispora acidiphila
    
  • 6f2b – CaL3H + Fe + oxoglutarate
    
  • 6f2a – CaL3H + Fe + lysine
    
  • 6f6j – CaL3H + Fe + succinate + hydroxyl lysine
    
• Salicylate hydroxylase
  • 6bz5 - PpSH
    
  • 5evy - PpSH + FAD + salicilate
    
  • 7c8z - SH + Fe2S2 + Fe - Ralstonia
    
• Dopamine b-hydroxylase (cofactor ascorbic acid)
  • 4zel - hDH + Cu
    
• Ectoine hydroxylase
  • 4mhr - SaEH – Sphingopyxis alaskensis
    
  • 4mhu - SaEH + Fe
    
  • 4q5o - SaEH + Fe + 5-hydroxyectoine
    
  • 4nmi - VsEH – Virgibacillus salexigens
    
  • 3emr - VsEH + Fe
    
• Hyoscyamine 6 b-hydroxylase
  • 6ttm, 6ttn - dHH + Ni + oxalylglycine + hyoscyamine – datura
    
  • 6tto - dHH + Ni + oxoglutaratee
    
• Cytochrome P450 hydroxylase See Cytochrome P450 hydroxylase
• Toluene/o-xylene monooxygenase hydroxylase See Monooxygenase
• Ornithine hydroxylase See Monooxygenase
• Methane monooxygenase hydroxylase See Methane monooxygenase
• Kynurenine 3-hydroxylase or KMOSee Monooxygenase
• Trans-3/4-proline hydroxylase H11 See Dioxygenase

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Michal Harel, Jaime Prilusky, Joel L. Sussman