Mandelate racemase: Difference between revisions

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Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Alexander Berchansky, Karsten Theis

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-<StructureSection load='3tte' size='400' side='right' caption='Structure of mandelate racemase dimer complex with mandelate, glycerol, formate, Mg+2 ion (green)  (PDB entry [[3tte]])' scene=''>
+<StructureSection load='1mdr' size='350' side='right' caption='Structure of mandelate racemase complex with reaction intermediate phenyl-lactate and Mg+2 ion (green)  (PDB entry [[1mdr]])' scene='51/516478/Cv/1'>
+== Function ==
+'''Mandelate racemase''' (MAR) catalyzes the interconversion of enantiomers of mandelate [[R/S nomenclature|(S to R)]].  MAR is Mg-dependent.  MAR can racemize other alpha-hydroxy carbonyl compounds.  MAR is involved in aromatic acids catabolism<ref>PMID:1892833</ref>.
-'''Mandelate rasemase''' (MAR) catalyzes the interconversion of enantiomers of mandelate (S to R).  MAR is Mg-dependent.  MAR can racemize other alpha-hydroxy carbonyl compounds.  MAR is involved in aromatic acids catabolism.
+== Structural highlights ==
+The biological assembly of mandelate racemase from ''Pseudomonas putida'' is <scene name='51/516478/Cv/7'>homooctamer</scene>. The <scene name='51/516478/Cv/8'>active site of MAR binds the reaction intermediate</scene><ref>PMID:8292591</ref>. Water molecule are shown as red sphere.
+</StructureSection>
 ==3D structures of mandelate racemase==
 Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
+{{#tree:id=OrganizedByTopic|openlevels=0|
-[[2mnr]] – PpMAR  – ''Pseudomonas putida''<br />
+*'''mandelate racemase'''
-[[2hzg]] – MAR – ''Rhodobacter sphaeroides''<br />
-[[2og9]], [[3bjs]] – MAR – ''Polaromonas''<br />
-[[2pmq]], [[2rdx]], [[3u4f]], [[3fvd]], [[2qdd]] – MAR – ''Roseovarius''<br />
-[[2qde]] – MAR – ''Azoarcus''<br />
-[[3ik4]] – MAR – ''Herpetosiphon aurantiacus''<br />
-[[3mqt]], [[3sjn]] – MAR – ''Shewanella pealeana''<br />
-[[3n4e]], [[4dwd]] – MAR – ''Paracoccus denitrificans''<br />
-[[3n4f ]]– GeMAR – ''Geobacillus''<br />
-[[3msy]], [[3no1]] – MAR – ''Marine actinobacterium''<br />
-[[3n6h]], [[3n6j]] – MAR – ''Actinobacillus succinogenes''<br />
-[[3ddm]] - BbMAR (mutant) – ''Bordetella bronchiseptica''<br />
-[[3h12]] – BbMAR<br />
-[[3ssz]] – MAR – ''Rhodobacteraceae bacterium''<br />
-[[3t4w]] – MAR – ''Sulfitobacter''<br />
-[[3t8q]] – MAR – ''Hoeflea phototrophica''<br />
-[[3u9i]] – MAR – ''Roseiflexus''<br />
-[[4dx3]], [[4e8g]], [[3tj4]], [[3tji]] – AtMAR – ''Agrobacterium tumefaciens''<br />
-[[3s47]] – MAR – ''Clostridium beijerincki''<br />
-[[4dhg]], [[3vc5]], [[3vc6]] – MAR – ''Thermobispora bispora''<br />
-[[4e4f]] – MAR – ''Pectobacterium carotovorum''<br />
-[[3thu]] – MAR – ''Sphingomonas''<br />
-[[3toy]] – BrMAR – ''Bradyrhizobium''<br />
-[[3ugv]] – MAR – ''alpha proteobacterium''<br />
-[[2pod]] – MAR – ''Burkholderia pseudomallei''<br />
-[[3dfh]] - VbMAR – ''Vibrionales bacterium''<br />
-===Mandelate racemase binary complex===
+**[[2mnr]] – PpMAR  – ''Pseudomonas putida''<br />
+**[[2hzg]] – MAR – ''Rhodobacter sphaeroides''<br />
+**[[2og9]], [[3bjs]] – MAR – ''Polaromonas''<br />
+**[[2pmq]], [[2rdx]], [[3u4f]], [[3fvd]], [[2qdd]] – MAR – ''Roseovarius''<br />
+**[[2qde]] – MAR – ''Azoarcus''<br />
+**[[3ik4]] – MAR – ''Herpetosiphon aurantiacus''<br />
+**[[3mqt]], [[3sjn]] – MAR – ''Shewanella pealeana''<br />
+**[[3n4e]], [[4dwd]] – MAR – ''Paracoccus denitrificans''<br />
+**[[3n4f]] – GeMAR – ''Geobacillus''<br />
+**[[3msy]], [[3no1]] – MAR – ''Marine actinobacterium''<br />
+**[[3n6h]], [[3n6j]] – MAR – ''Actinobacillus succinogenes''<br />
+**[[3ddm]] - BbMAR (mutant) – ''Bordetella bronchiseptica''<br />
+**[[3h12]] – BbMAR<br />
+**[[3ssz]] – MAR – ''Rhodobacteraceae bacterium''<br />
+**[[3t4w]] – MAR – ''Sulfitobacter''<br />
+**[[3t8q]] – MAR – ''Hoeflea phototrophica''<br />
+**[[3u9i]] – MAR – ''Roseiflexus''<br />
+**[[4dx3]], [[4e8g]], [[3tj4]], [[3tji]] – AtMAR – ''Agrobacterium tumefaciens''<br />
+**[[3s47]] – MAR – ''Clostridium beijerincki''<br />
+**[[4dhg]], [[3vc5]], [[3vc6]] – MAR – ''Thermobispora bispora''<br />
+**[[4e4f]] – MAR – ''Pectobacterium carotovorum''<br />
+**[[3thu]] – MAR – ''Sphingomonas''<br />
+**[[3toy]] – BrMAR – ''Bradyrhizobium''<br />
+**[[3ugv]] – MAR – ''alpha proteobacterium''<br />
+**[[2pod]] – MAR – ''Burkholderia pseudomallei''<br />
+**[[3dfh]] - VbMAR – ''Vibrionales bacterium''<br />
-[[1mns]], [[1mdr]] – PpMAR + alpha phenyl glycidate <br />
+*Mandelate racemase binary complex
-[[3ops]] – GeMAR + lactate<br />
-[[1mra]], [[1dtn]] – PpMAR (mutant) + atrolactate<br />
-[[1mdl]] - PpMAR (mutant) + mandelate<br />
-[[4hnc]] - PpMAR (mutant) + benzilic acid<br />
-[[4m6u]] - PpMAR + tartronic acid<br />
-[[4fp1]] – PpMAR + inhibitor<br />
-[[3tte]] - BrMAR + mandelate<br />
-[[3uxk]], [[3uxl]] – PpMAR + intermediate analog<br />
-[[3sbf]] – VbMAR (mutant) + arabinonate <br />
-[[3r25]] – VbMAR + glycerol<br />
-[[4gfi]] – AtMAR + dipeptide epimerase<br />
-[[4h19]] – AtMAR + ribonohydroxamate<br />
+**[[1mns]], [[1mdr]] – PpMAR + α-phenyl lactate <br />
+**[[1mra]], [[1dtn]] – PpMAR (mutant) + atrolactate<br />
+**[[1mdl]] - PpMAR (mutant) + mandelate<br />
+**[[4hnc]] - PpMAR (mutant) + benzilic acid<br />
+**[[4m6u]] - PpMAR + tartronic acid<br />
+**[[4fp1]] – PpMAR + inhibitor<br />
+**[[4x2p]] – PpMAR + 3-hydroxypyruvate<br />
+**[[6vim]], [[7mqx]] – PpMAR + boronic acid derivative<br />
+**[[3uxk]], [[3uxl]] – PpMAR + intermediate analog<br />
+**[[3sbf]] – VbMAR (mutant) + arabinonate <br />
+**[[3r25]] – VbMAR + glycerol<br />
+**[[4gfi]] – AtMAR + dipeptide epimerase<br />
+**[[4h19]] – AtMAR + ribonohydroxamate<br />
+**[[3ops]] – GeMAR + lactate<br />
+**[[3tte]] - BrMAR + mandelate<br />
+}}
+== References ==
+<references/>
-</StructureSection>
 [[Category:Topic Page]]