Proteopedia

Thioesterase: Difference between revisions

← Older edit
Joel L. Sussman (talk | contribs)
ConfirmAccount, Editor, Journal, Mutation, Print3D, Tester, Bureaucrats, Administrators
7,980 edits
No edit summary
Michal Harel (talk | contribs)
31,761 edits
No edit summary
 
(4 intermediate revisions by 2 users not shown)
Line 5: Line 5:
*  '''Palmitoyl protein TE''' removes fatty acids like palmitate from modified cysteine residues during lysosomal degradation<ref>PMID:10737604</ref>.  For details see [[Palmitoyl protein thioesterase]].<br />
*  '''Palmitoyl protein TE''' removes fatty acids like palmitate from modified cysteine residues during lysosomal degradation<ref>PMID:10737604</ref>.  For details see [[Palmitoyl protein thioesterase]].<br />
*  '''4-hydroxybenzoyl-CoA TE''' converts 4-hydroxybenzoyl-CoA to 4-hydroxybenzoate and CoA<ref>PMID:12732540</ref>.<br />
*  '''4-hydroxybenzoyl-CoA TE''' converts 4-hydroxybenzoyl-CoA to 4-hydroxybenzoate and CoA<ref>PMID:12732540</ref>.<br />
*  '''Acyl-CoA TE''' hydrolyzes acyl-CoA to the fatty acid and CoA and is involved in lipid metabolism<ref>PMID:11755680</ref>.  See also [[YbgC]].<br />
*  '''Acyl-CoA TE''' hydrolyzes acyl-CoA to the fatty acid and CoA and is involved in lipid metabolism<ref>PMID:11755680</ref>.  See also [[YbgC]] and [[Mitochondrial hotdog-fold thioesterase]].<br />
*  '''Fluoroacetyl-CoA TE''' from ''Streptomyces cattleya'' hydrolyzes fluoroacetyl-CoA thus preventing it from being metabolized to the lethal 4-hydroxy-trans-aconitate<ref>PMID:20836570</ref>.<br />
*  '''Fluoroacetyl-CoA TE''' from ''Streptomyces cattleya'' hydrolyzes fluoroacetyl-CoA thus preventing it from being metabolized to the lethal 4-hydroxy-trans-aconitate<ref>PMID:20836570</ref>.<br />
*  '''Ubiquitin TE''' or '''ubiquitin carboxyl-terminal hydrolase''' (USP) removes conjugated ubiquitin (UB) from proteins thus regulating protein level by preventing their degradation.  USP hydrolyze the peptide bond at the C-terminal glycine of ubiquitin.  The USPs are involved in the processing of poly-UB precursors and of ubiquitinated proteins<ref>PMID:24190967</ref>.  USP contains catalytic domain surrounded several domains:  Ub-like (UBL); Ub-associated (UBA); zinc finger-Ub-specific protease domain (UBP or DUSP); TRAF homology domain.  
*  '''Ubiquitin TE''' or '''ubiquitin carboxyl-terminal hydrolase''' (USP) removes conjugated ubiquitin (UB) from proteins thus regulating protein level by preventing their degradation.  USP hydrolyze the peptide bond at the C-terminal glycine of ubiquitin.  The USPs are involved in the processing of poly-UB precursors and of ubiquitinated proteins<ref>PMID:24190967</ref>.  USP contains catalytic domain surrounded several domains:  Ub-like (UBL); Ub-associated (UBA); zinc finger-Ub-specific protease domain (UBP or DUSP); TRAF homology domain.  
Line 28: Line 28:


== Structural highlights ==
== Structural highlights ==
<scene name='48/489265/Cv/4'>Human ubiquitin esterase 2 complex with ubiquitin and zinc+2 ion</scene>. Ubiquitin thioesterase 2 active site contains the <scene name='48/489265/Cv/1'>catalytic triad Cys-His-Asn and the oxyanion hole Asn</scene>. The metal-binding enzyme contains a <scene name='48/489265/Cv/5'>Zn+2 ion which coordinates to 4 Cys residues</scene>. The <scene name='48/489265/Cv/6'>ubiquitin coordinates to the thioesterase via residues in all thioesterase domains: finger, palm and thumb</scene><ref>PMID:16905103</ref>.
<scene name='48/489265/Cv/7'>Human ubiquitin esterase 2 complex with ubiquitin and zinc+2 ion</scene>. Ubiquitin thioesterase 2 active site contains the <scene name='48/489265/Cv/8'>catalytic triad Cys-His-Asn and the oxyanion hole Asn</scene>. The metal-binding enzyme contains a <scene name='48/489265/Cv/9'>Zn+2 ion which coordinates to 4 Cys residues</scene>. The <scene name='48/489265/Cv/10'>ubiquitin coordinates to the thioesterase via residues in all thioesterase domains: finger, palm and thumb</scene><ref>PMID:16905103</ref>.
</StructureSection>
==3D structures of thioesterase==
==3D structures of thioesterase==
[[Thioesterase 3D structures]]


Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
</StructureSection>
{{#tree:id=OrganizedByTopic|openlevels=0|
 
*Maristoyl-ACP-specific thioesterase
 
**[[1tht]] – TE – ''Vibrio harveyi''
 
*4-hydroxybenzoyl-CoA thioesterase
 
**[[1bvq]] – PsTE – ''Pseudomonas''<br />
**[[1lo7]] – PsTE + 4-hydroxyphenyl CoA<br />
**[[1lo9]] - PsTE (mutant) + 4-hydroxybenzoyl CoA<br />
**[[1lo8]] - PsTE + 4-hydroxybenzyl CoA<br />
**[[1q4s]] - ArTE + 4-hydroxybenzoate – '''Arthrobacte''r'<br />
**[[1q4t]] - ArTE + 4-hydroxyphenyl CoA<br />
**[[1q4u]] - ArTE + 4-hydroxybenzyl CoA<br />
**[[3r32]], [[3r35]], [[3r37]], [[3r38]], [[3r3b]], [[3r3c]], [[3r3d]], [[3r3f]], [[3tea]] - ArTE (mutant) + 4-hydroxyphenacyl CoA<br />
**[[3r36]] - ArTE (mutant) + 4-hydroxybenzoate<br />
**[[3r3a]] - ArTE (mutant) + 4-hydroxybenzoate + CoA<br />
**[[3r34]] - ArTE (mutant) + CoA<br />
**[[6fdg]] – SaTE  – ''Staphylococcus aureus''<br />
 
*Palmitoyl protein thioesterase
 
**[[1eh5]] – bTE1 + Palmitate – bovine<br />
**[[1ei9]] – bTE1<br />
**[[1exw]] – bTE1 + hexadecylsulfonyl fluoride<br />
**[[1pja]] – hTEII – human<br />
**[[3gro]] - hTEI
 
*Acyl-CoA thioesterase
 
**[[2pzh]] - TE - ''Helicobacter pylori''<br />
**[[3rd7]] – TE – ''Mycobacterium avium''<br />
**[[5t02]] – TE (mutant)  + CoA + GDP – ''Neisseria meningitis''<br />
**[[5hz4]], [[5hwf]], [[5egk]] – SaTE (mutant)  – ''Staphylococcus aureus''<br />
**[[4egj]] – SaTE + CoA<br />
**[[1ivn]], [[5tic]] – EcTEI – ''Escherichia coli''<br />
**[[1jrl]] – EcTEI (mutant) <br />
**[[1j00]] – EcTEI + diethyl phosphono derivative<br />
**[[1v2g]], [[1u8u]] - EcTEI + octanoic acid<br />
**[[5tid]], [[5tie]], [[5tif]] - EcTEI (mutant) + octanoic acid<br />
**[[1tbu]] – TEI N terminal (peroximal) – yeast<br />
**[[1c8u]] – EcTEII <br />
**[[3u0a]] – TEII – ''Mycobacterium marinum''<br />
**[[4qfw]] – YpTE II – ''Yersinia pestis''<br />
**[[4r4u]] – YpTE II + CoA<br />
**[[3hlk]] – hTE2<br />
**[[3k2i]] – hTE4<br />
**[[2qq2]] - hTE7 C terminal<br />
**[[2v1o]] – mTE7 hotdog domain – mouse<br />
**[[2q2b]] – mTE7 C terminal<br />
**[[3fo5]] – hTE11 START domain<br />
**[[3b7k]], [[4moc]] – hTE12<br />
**[[4mob]] – hTE12 + ADP<br />
 
*Acyl protein thioesterase
 
**[[1fj2]] – EcTEI<br />
**[[5sym]] – hTE 1 + inhibitor<br />
**[[5syn]] – hTE 2 + inhibitor<br />
 
*Acyl-ACP thioesterase
 
**[[2ess]] – TE – ''Bacterioides thetaiotaomicron''<br />
**[[4gak]] – TE – ''Spirosoma linguale''<br />
 
*ACP-polyene thioesterase
 
**[[4i4j]] – TE – ''Streptomyces globisporus''<br />
 
*Fluoroacetyl-CoA thioesterase
 
**[[3kuv]], [[3kuw]], [[3kvi]] – ScTE (mutant) + acetate derivative – ''Streptomyces cattleya''<br />
**[[3kv7]], [[3kv8]], [[3p2r]], [[3p2s]] – ScTE + acetate derivative<br />
**[[3kvu]] – ScTE + acetyl-CoA<br />
**[[3kvz]], [[3kw1]] – ScTE + FAcOPan<br />
**[[3kx7]], [[3kx8]], [[3p2q]] – ScTE <br />
**[[3p3f]] – ScTE (mutant) <br />
**[[3p3i]] - ScTE (mutant) + acetate derivative + CoA<br />
 
*Dihydroxynaphthoyl-CoA thioesterase
 
**[[4k00]] – TE – ''Synechocystis''<br />
**[[4k02]] – AtTE – ''Arabidopsis thaliana''<br />
 
*RedJ thioesterase
 
**[[3qmv]], [[3qmw]] – TE –'' Streptomyces coelicolor''
 
*Orf6 thioesterase
 
**[[4i45]] – TE – ''Photobacterium profundum''<br />
 
*thioesterase
 
**[[2av9]], [[2o5u]], [[2o6b]], [[2o6t]], [[2o6u]], [[3qy3]] – TE – ''Pseudomonas aeruginosa''
 
*Ubiquitin thioesterase
 
*Ubiquitin thioesterase 2
 
**[[2zfy]] – hUSP – human  <BR />
**[[2hd5]], [[3nhe]], [[3v6c]], [[3v6e]] – hUSP + Ub  <BR />
**[[1tff]] – hUSP (mutant)  <BR />
**[[2ibi]] – hUSP (mutant) + Ub <BR />
 
*Ubiquitin thioesterase 3
 
**[[2qiy]] – yUSP + USP-associated protein  <BR />
 
*Ubiquitin thioesterase 4
 
**[[2y6e]] – hUSP catalytic domain <br />
**[[3jyu]] – mUSP N terminal domain <br />
 
*Ubiquitin thioesterase 5
 
**[[2dag]] – hUSP UBA domain 1 - NMR<br />
**[[2dak]] – hUSP UBA domain 2 - NMR<br />
**[[2g43]] – hUSP zinc finger USP domain<br />
**[[2g45]] – hUSP zinc finger USP domain + Ub<br />
**[[3ihp]] – hUSP + Ub  <BR />
 
*Ubiquitin thioesterase 7
 
**[[2f1z]], [[5j7t]] – hUSP<br />
**[[1nb8]], [[4m5w]], [[4m5x]] – hUSP catalytic domain <br />
**[[2kvr]] – hUSP UBL domain - NMR<br />
**[[4pyz]], [[4wph]], [[4wpi]] – hUSP UBL domains 1+2<br />
**[[5fwi]] – hUSP catalytic + UBL domains 1+2<br />
**[[1yze]], [[2f1w]] – hUSP N terminal domain <br />
**[[2ylm]] – hUSP C terminal domain <br />
**[[2f1x]], [[2f1y]], [[2foj]], [[2foo]], [[2fop]] – hUSP N terminal domain/peptide <br />
**[[4zv3]] – mUSP N terminal domain <br />
 
*Ubiquitin thioesterase 7 complexes
 
**[[1nbf]] – hUSP catalytic domain + Ub aldehyde<br />
**[[5jtj]] – hUSP catalytic domain + Ub <br />
**[[1yy6]] – hUSP N terminal domain + EBNA1 peptide<br />
**[[2xxn]] – hUSP TRAF domain + VIRF-4 peptide<br />
**[[3mqr]] – hUSP TRAF domain + HDMX peptide<br />
**[[3mqs]] – hUSP TRAF domain + HDM2 peptide<br />
**[[4jjq]] – hUSP TRAF domain + E2 peptide<br />
**[[4kg9]] – hUSP TRAF domain + MCM-BP peptide<br />
**[[4ysi]] – hUSP TRAF domain + peptide<br />
**[[4yoc]] – hUSP residues 560-1102 + DNA methyl transferase<br />
**[[5c6d]] – hUSP residues 561-881 + UHRF1<br />
**[[5c56]] – hUSP residues 560-1102 + Ub E3 ligase Icp0444w<br />
 
*Ubiquitin thioesterase 8
 
**[[1whb]] – hUSP rhodanase domain - NMR<br />
**[[2a9u]] – hUSP N terminal domain <br />
**[[2gfo]] – hUSP catalytic domain <br />
 
*Ubiquitin thioesterase 8 complexes
 
**[[2gwf]] – hUSP rhodanase domain + ring finger protein 41 USP8 interaction domain<br />
**[[3mhh]], [[3m99]], [[4fip]], [[4fjc]], [[4f5k]], [[4fk5]] – yUSP + SUS1 + SGF11 +SGF73 <br />
**[[3mhs]] – yUSP + SUS1 + SGF11 +SGF73 + Ub<br />
**[[4zux]] – yUSP + SUS1 + SGF11 +SGF73 + Ub + Histones H3,2, H4, H2A, H2B + DNA<br />
**[[3n3k]] – hUSP catalytic domain + Ub<br />
 
*Ubiquitin thioesterase 9
 
**[[5vbd]] – hUSP 9x UBL domain <br />
 
*Ubiquitin thioesterase 11
 
**[[4mel]] – hUSP DUSP+UBL domains <br />
**[[4mem]] – rUSP DUSP+UBL domains - rat<br />
 
*Ubiquitin thioesterase 12
 
**[[5k16]] – hUSP <br />
**[[5k1a]], [[5k1b]], [[5k1c]] – hUSP + WD repeat-containing protein<br />
 
*Ubiquitin thioesterase 13
 
**[[2l80]] – hUSP zinc finger domain - NMR<br />
**[[2lbc]] – hUSP UBA domain - NMR<br />
 
*Ubiquitin thioesterase 14
 
**[[1wgg]] – mUSP N terminal domain - NMR<br />
**[[2ayn]] – hUSP<br />
**[[2ayo]] – hUSP + Ub aldehyde<br />
**[[1wiv]] – AtUSP UBA domain - NMR<br />
**[[5gjq]] – hUSP in proteasome – Cryo EM<br />
 
*Ubiquitin thioesterase 15
 
**[[3lmn]] – hUSP DUSP domain  <BR />
**[[3ppa]], [[3pv1]], [[3t9l]], [[4a3o]], [[4a3p]] – hUSP DUSP+UBL domains <br />
**[[1w6v]] – hUSP DUSP domain - NMR<br />
**[[5jjw]] – hUSP catalytic domain + SART HAT domain<br />
**[[5ctr]] – hUSP DUSP+UBL domains + SART HAT domain <br />
 
*Ubiquitin thioesterase 16
 
**[[2i50]] – hUSP zinc finger domain - NMR  <BR />
 
*Ubiquitin thioesterase 18
 
**[[5cht]] – hUSP  <BR />
 
*Ubiquitin thioesterase 21
 
**[[3i3t]], [[2y5b]] – hUSP + Ub  <BR />
**[[3mtn]] – hUSP + Ub inhibitor <BR />
 
*Ubiquitin thioesterase 25
 
**[[1vdl]] – mUSP catalytic domain <br />
 
*Ubiquitin thioesterase 28
 
**[[2lva]], [[2muu]], [[2mux]] – hUSP N terminal - NMR  <BR />
 
*Ubiquitin thioesterase 33
 
**[[2uzg]] – hUSP zinc finger domain - NMR  <BR />
 
*Ubiquitin thioesterase 37
 
**[[3ihr]] – hUSP (mutant)  <BR />
**[[3a7s]] – hUSP catalytic domain (mutant)  <BR />
**[[3u12]] – hUSP pleckstrin domain <br />
 
*Ubiquitin thioesterase 38
 
**[[4rxx]] – hUSP N terminal  <BR />
 
*Ubiquitin thioesterase 46
 
**[[5cvm]] – hUSP + Ub  <BR />
**[[5cvn]], [[5cvo]] – hUSP + WD repeat-containing protein + Ub<br />
 
*Ubiquitin thioesterase Cyld
 
**[[2vhf]] – hUSP  USP domain <BR />
 
*Ubiquitin thioesterase L1
 
**[[2etl]] – hUSP-L1  <br />
**[[3irt]], [[4jkj]] – hUSP  (mutant) <BR />
**[[2len]] – hUSP  (mutant) - NMR<BR />
**[[3ifw]], [[3kvf]], [[3kw5]] – hUSP  (mutant) + Ub<BR />
**[[4dm9]] – hUSP + peptide inhibitor<BR />
 
*Ubiquitin thioesterase L3
 
**[[1uch]] – hUSP-L3  <br />
**[[1xd3]] – hUSP-L3 + UBC<br />
**[[2we6]] – PfUSP-L3 – ''Plasmodium falciparum''<br />
**[[2wdt]] – PfUSP-L3 + Ub <br />
 
*Ubiquitin thioesterase L5
 
**[[3ris]] – hUSP catalytic domain  <BR />
**[[3rii]], [[3a7s]] – hUSP catalytic domain (mutant)  <BR />
**[[3tb3]] – hUSP UCH domain (mutant)  <BR />
**[[3ihr]] – hUSP-L5 (mutant)  <br />
**[[4uel]] – hUSP-L5 + polyUb + proteasomal Ub receptor Deubad domain  <br />
**[[4uem]] – hUSP-L5 + proteasomal Ub receptor Deubad domain  <br />
**[[4wlq]] – mUSP-L5 + proteasomal Ub receptor C terminal  <br />
**[[4wlr]] – mUSP-L5 + polyUb + proteasomal Ub receptor C terminal  <br />
**[[4uf5]], [[4wlp]] – hUSP-L5 + nuclear factor Deubad domain  <br />
**[[4uf6]] – hUSP-L5 + polyUb + nuclear factor Deubad domain  <br />
 
*Ubiquitin thioesterase ZranB1
 
**[[3zrh]] – hUSP  <BR />
**[[4s1z]] – bUSP  zinc finger + Ub <BR />
 
*Ubiquitin thioesterase OTUB1
 
**[[3von]] – hUSP + E2 <BR />
**[[4ddg]], [[4ddi]] – hUSP + Ub<BR />
**[[4i6l]] – hUSP (mutant) + Ub<BR />
**[[4dhz]], [[4ldt]] – hUSP + E2 + Ub<BR />
**[[4boq]] - hUSP OTU domain <BR />
**[[4boz]] - hUSP OTU domain (mutant) + Ub <BR />
**[[4bos]] - hUSP OTU domain (mutant) + Ub + OTUD2 peptide<BR />
**[[4fjv]] - hUSP OTUB2 + Ub <BR />
**[[4dhj]] – nUSP + E2 + Ub - nematode<BR />
**[[4dhi]] – nUSP + E2 <BR />
**[[2kzr]] – mUSP UBX-like domain – NMR<br />
**[[4kdi]], [[4kdl]] – yUSP UBX-like domain + transitional endoplasmic reticulum ATPase<br />
**[[3by4]], [[3c0r]] - yUSP OTU domain + Ub<BR />
 
*Ubiquitin thioesterase
 
**[[3znh]] – USP OTU domain + Ub – Crimean-Congo hemorrhagic fever virus<BR />
 
*Pseudomonas aeruginosa TE
 
**[[2av9]], [[2o5u]], [[2o6b]], [[2o6t]], [[2o6u]], [[3qy3]] – PaTE – ''Pseudomonas aeruginosa''<br />
**[[4qd7]] – PaTE hotdog domain<br />
**[[4qda]], [[4qdb]] – PaTE hotdog domain (mutant)<br />
**[[4qd8]], [[4dq9]] – PaTE hotdog domain + acyl-CoA derivatives<br />
 
*Thioesterase
 
**[[5vpj]] – TE – ''Actinomadura verrucosospora''<br />
**[[5dio]], [[5byu]] – TE – ''Legionella pneumophila''<br />


}}
== References ==
== References ==
<references/>
<references/>
[[Category:Topic Page]]
[[Category:Topic Page]]

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

Michal Harel, Alexander Berchansky, Joel L. Sussman
Retrieved from "https://proteopedia.openfox.io/w/Thioesterase"