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Thioesterase

From Proteopedia

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'''Thioesterase''' (TE) catalyzes the break of an ester bond to produce acid and alcohol at a thiol group. TEs are substrate-specific. '''Palmitoyl protein TE''' removes fatty acids like palmitate from modified cysteine residues during lysosomal degradation. '''4-hydroxybenzoyl-CoA TE''' converts 4-hydroxybenzoyl-CoA to 4-hydroxybenzoate and CoA. '''Acyl-CoA TE''' hydrolyzes acyl-CoA to the fatty acid and CoA and is involved in lipid metabolism. '''Fluoroacetyl-CoA TE''' from ''Streptomyces cattleya'' hydrolyzes fluoroacetyl-CoA thus preventing it from being metabolized to the lethal 4-hydroxy-trans-aconitate. '''Ubiquitin TE''' (USP) removes conjugated ubiquitin from proteins thus regulating protein level by preventing their degradation.
+
'''Thioesterase''' (TE) catalyzes the break of an ester bond to produce acid and alcohol at a thiol group. TEs are substrate-specific. '''Palmitoyl protein TE''' removes fatty acids like palmitate from modified cysteine residues during lysosomal degradation. '''4-hydroxybenzoyl-CoA TE''' converts 4-hydroxybenzoyl-CoA to 4-hydroxybenzoate and CoA. '''Acyl-CoA TE''' hydrolyzes acyl-CoA to the fatty acid and CoA and is involved in lipid metabolism. '''Fluoroacetyl-CoA TE''' from ''Streptomyces cattleya'' hydrolyzes fluoroacetyl-CoA thus preventing it from being metabolized to the lethal 4-hydroxy-trans-aconitate. '''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 (UB). The USPs are involved in the processing of poly-UB precursors and of ubiquinated proteins. USP contains catalytic domain surrounded several domains: Ub-like (UBL); Ub-associated (UBA); zinc finger-Ub-specific protease domain (UBP or DUSP); TRF homology domain.
 +
 
 +
* USP-L1, USP25 hydrolyze C-terminal adducts of UB.<br />
 +
* USP-L3 hydrolyze C-terminal adducts of UB and NEDD8.<br />
 +
* USP5 cleaves multiubiquitin polymers.<br />
 +
* USP6 has ATP-independent isopeptidase activity.<br />
 +
* USP7, USP4, USP13, USP15 deubiquitinate several proteins.<br />
 +
* USP8 removes conjugated ubiquitin from proteins thus preventing protein degradation. USP8 is involved in cell proliferation and is active in the M phase of proliferation.<br />
 +
* USP11, USP14 are proteasome-associated.<br />
 +
* USP16, USP21 deubiquitinate histone H2A.<br />
 +
* USP28 deubiquitinates proteins of the DNA damage pathway.<br />
 +
* USP33 regulates centrosome duplication.<br />
 +
* USP37 deubiquitinates cyclin A.<br />
 +
 
==3D structures of thioesterase==
==3D structures of thioesterase==
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[[2zfy]] – hUSP – human <BR />
[[2zfy]] – hUSP – human <BR />
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[[2hd5]], [[3nhe]] – hUSP + Ub <BR />
+
[[2hd5]], [[3nhe]], [[3v6c]], [[3v6e]] – hUSP + Ub <BR />
[[1tff]] – hUSP (mutant) <BR />
[[1tff]] – hUSP (mutant) <BR />
[[2ibi]] – hUSP (mutant) + Ub <BR />
[[2ibi]] – hUSP (mutant) + Ub <BR />
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''USP 3''
''USP 3''
-
[[2qiy]] – USP + UBP-associated protein – yeast <BR />
+
[[2qiy]] – yUSP + USP-associated protein – yeast <BR />
 +
 
 +
''USP 4''
 +
 
 +
[[2y6e]] – hUSP catalytic domain <br />
 +
[[3jyu]] – mUSP N terminal domain - mouse<br />
''USP 5''
''USP 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 />
[[3ihp]] – hUSP + Ub <BR />
''USP 7''
''USP 7''
-
[[2ylm]], [[2f1z]] – hUSP <BR />
+
[[2f1z]] – hUSP<br />
-
[[2kvr]] – hUSP UBL domain - NMR <BR />
+
[[1nb8]], [[4m5w]], [[4m5x]] – hUSP catalytic domain <br />
-
[[1nb8]] – hUSP catalytic domain <BR />
+
[[2kvr]] – hUSP UBL domain - NMR<br />
-
[[1yze]] – hUSP N terminal domain <BR />
+
[[4pyz]] – hUSP UBL domains 1+2<br />
-
[[2f1w]] – hUSP TRAF-like domain <BR />
+
[[1yze]], [[2f1w]] – hUSP N terminal domain <br />
-
[[2f1x]] – hUSP TRAF-like domain + p53 peptide<BR />
+
[[2ylm]] – hUSP C terminal domain <br />
-
[[2foj]], [[2foo]] – hUSP N terminal domain + p53 peptide<BR />
+
[[2f1x]], [[2f1y]], [[2foj]], [[2foo]], [[2fop]] – hUSP N terminal domain/peptide <br />
-
[[2f1y]] – hUSP TRAF-like domain + MDM2 peptide<BR />
+
 
-
[[2fop]] – hUSP N terminal domain + MDM2 peptide<BR />
+
''USP 7 complexes''
-
[[1nbf]] – hUSP catalytic domain + ubiquitin aldehyde<BR />
+
 
-
[[1yy6]] – hUSP N terminal domain + Epstein-Barr nuclear antigen<BR />
+
[[1nbf]] – hUSP catalytic domain + Ub aldehyde<br />
-
[[3mqr]], [[3mqs]] – hUSP + peptide <BR />
+
[[1yy6]] – hUSP N terminal domain + EBNA1 peptide<br />
-
[[2xxn]] – hUSP + VIRF-4 <BR />
+
[[2xxn]] – hUSP TRAF domain + VIRF-4 peptide<br />
-
[[4jjq]] – hUSP (mutant) + E2<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 />
''USP 8''
''USP 8''
-
[[2a9u]] – hUSP N terminal domain <BR />
+
[[1whb]] – hUSP rhodanase domain – human - NMR<br />
-
[[2gfo]] – hUSP catalytic domain <BR />
+
[[2a9u]] – hUSP N terminal domain <br />
-
[[2gwf]] – hUSP rhodanese domain + ring finger protein <BR />
+
[[2gfo]] – hUSP catalytic domain <br />
-
[[3mhh]], [[3m99]], [[4fip]], [[4fjc]], [[4fk5]] – hUSP + SUS1 + SAGA-associated factors 11, 73 <BR />
+
 
-
[[3mhs]] – hUSP + SUS1 + SAGA-associated factors 11, 73 + Ub <BR />
+
''USP 8 complexes''
-
[[3n3k]] – hUSP + Ub inhibitor <BR />
+
 
 +
[[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 />
 +
[[3n3k]] – hUSP catalytic domain + Ub<br />
 +
 
 +
''USP 11''
 +
 
 +
[[4mel]] – hUSP DUSP+UBL domains <br />
 +
[[4mem]] – rUSP DUSP+UBL domains - rat<br />
 +
 
 +
''USP 13''
 +
 
 +
[[2l80]] – hUSP zinc finger domain - NMR<br />
 +
[[2lbc]] – hUSP UBA domain - NMR<br />
 +
 
 +
''USP 14''
 +
 
 +
[[1wgg]] – mUSP N terminal domain - NMR<br />
 +
[[2ayn]] – hUSP<br />
 +
[[2ayo]] – hUSP + Ub aldehyde<br />
''USP 15''
''USP 15''
[[3lmn]] – hUSP DUSP domain <BR />
[[3lmn]] – hUSP DUSP domain <BR />
 +
[[3ppa]], [[3pv1]], [[3t9l]], [[4a3o]], [[4a3p]] – hUSP DUSP+UBL domains <br />
 +
[[1w6v]] – hUSP DUSP domain - NMR<br />
''USP 16''
''USP 16''
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''USP 21''
''USP 21''
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[[3i3t]] – hUSP + Ub <BR />
+
[[3i3t]], [[2y5b]] – hUSP + Ub <BR />
[[3mtn]] – hUSP + Ub inhibitor <BR />
[[3mtn]] – hUSP + Ub inhibitor <BR />
 +
 +
''USP25''
 +
 +
[[1vdl]] – mUSP catalytic domain <br />
''USP 28''
''USP 28''
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''USP Cyld''
''USP Cyld''
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[[2vhf]] – hUSP <BR />
+
[[2vhf]] – hUSP USP domain <BR />
''USP L1''
''USP L1''
-
[[3irt]] – hUSP (mutant) <BR />
+
[[2etl]] – hUSP-L1 <br />
 +
[[3irt]], [[4jkj]] – hUSP (mutant) <BR />
[[2len]] – hUSP (mutant) - NMR<BR />
[[2len]] – hUSP (mutant) - NMR<BR />
[[3ifw]], [[3kvf]], [[3kw5]] – hUSP (mutant) + Ub<BR />
[[3ifw]], [[3kvf]], [[3kw5]] – hUSP (mutant) + Ub<BR />
[[4dm9]] – hUSP + peptide inhibitor<BR />
[[4dm9]] – hUSP + peptide inhibitor<BR />
 +
 +
''USP L3''
 +
 +
[[1uch]] – hUSP-L3 <br />
 +
[[1xd3]] – hUSP-L3 + UBC<br />
 +
[[2we6]] – PfUSP-L3 – ''Plasmodium falciparum''<br />
 +
[[2wdt]] – PfUSP-L3 + Ub <br />
''USP L5''
''USP L5''
[[3ris]] – hUSP catalytic domain <BR />
[[3ris]] – hUSP catalytic domain <BR />
-
[[3rii]] – hUSP catalytic domain (mutant) <BR />
+
[[3rii]], [[3a7s]] – hUSP catalytic domain (mutant) <BR />
[[3tb3]] – hUSP UCH domain (mutant) <BR />
[[3tb3]] – hUSP UCH domain (mutant) <BR />
 +
[[3ihr]] – hUSP-L5 (mutant) <br />
''USP ZranB1''
''USP ZranB1''

Revision as of 11:03, 1 June 2014

Template:STRUCTURE 1u8u

Thioesterase (TE) catalyzes the break of an ester bond to produce acid and alcohol at a thiol group. TEs are substrate-specific. Palmitoyl protein TE removes fatty acids like palmitate from modified cysteine residues during lysosomal degradation. 4-hydroxybenzoyl-CoA TE converts 4-hydroxybenzoyl-CoA to 4-hydroxybenzoate and CoA. Acyl-CoA TE hydrolyzes acyl-CoA to the fatty acid and CoA and is involved in lipid metabolism. Fluoroacetyl-CoA TE from Streptomyces cattleya hydrolyzes fluoroacetyl-CoA thus preventing it from being metabolized to the lethal 4-hydroxy-trans-aconitate. 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 (UB). The USPs are involved in the processing of poly-UB precursors and of ubiquinated proteins. USP contains catalytic domain surrounded several domains: Ub-like (UBL); Ub-associated (UBA); zinc finger-Ub-specific protease domain (UBP or DUSP); TRF homology domain.

  • USP-L1, USP25 hydrolyze C-terminal adducts of UB.
  • USP-L3 hydrolyze C-terminal adducts of UB and NEDD8.
  • USP5 cleaves multiubiquitin polymers.
  • USP6 has ATP-independent isopeptidase activity.
  • USP7, USP4, USP13, USP15 deubiquitinate several proteins.
  • USP8 removes conjugated ubiquitin from proteins thus preventing protein degradation. USP8 is involved in cell proliferation and is active in the M phase of proliferation.
  • USP11, USP14 are proteasome-associated.
  • USP16, USP21 deubiquitinate histone H2A.
  • USP28 deubiquitinates proteins of the DNA damage pathway.
  • USP33 regulates centrosome duplication.
  • USP37 deubiquitinates cyclin A.


3D structures of thioesterase

Updated on 01-June-2014

Maristoyl-ACP-specific TE

1tht – TE – Vibrio harveyi

4-hydroxybenzoyl-CoA TE

1bvq – PsTE – Pseudomonas
1lo7 – PsTE + 4-hydroxyphenyl CoA
1lo9 - PsTE (mutant) + 4-hydroxybenzoyl CoA
1lo8 - PsTE + 4-hydroxybenzyl CoA
1q4s - ArTE + 4-hydroxybenzoate – 'Arthrobacter'
1q4t - ArTE + 4-hydroxyphenyl CoA
1q4u - ArTE + 4-hydroxybenzyl CoA
3r32, 3r35, 3r37, 3r38, 3r3b, 3r3c, 3r3d, 3r3f, 3tea - ArTE (mutant) + 4-hydroxyphenacyl CoA
3r36 - ArTE (mutant) + 4-hydroxybenzoate
3r3a - ArTE (mutant) + 4-hydroxybenzoate + CoA
3r34 - ArTE (mutant) + CoA

Palmitoyl protein TE

1eh5 – bTE1 + Palmitate – bovine
1ei9 – bTE1
1exw – bTE1 + hexadecylsulfonyl fluoride
1pja – hTEII – human
3gro - hTEI

Acyl-CoA TE

1c8u – EcTEII – Escherichia coli
1ivn – EcTEI
1jrl – EcTEI (mutant)
1j00 – EcTEI + diethyl phosphono derivative
1v2g, 1u8u - EcTEI + octanoic acid
2v1o – mTE7 hotdog domain – mouse
2q2b – mTE7 C terminal
3hlk – hTE2
3k2i – hTE4
2qq2 - hTE7 C terminal
3fo5 – hTE11 START domain
3b7k – hTE12
3rd7 – TE – Mycobacterium avium
3u0a – TEII – Mycobacterium marinum
1tbu – TE N terminal (peroximal) – yeast

Acyl protein TE

1fj2 – EcTEI

Acyl-ACP TE

2ess – TE – Bacterioides thetaiotaomicron
4gak – TE – Spirosoma linguale
4gwh – TE – Yersinia pestis

ACP-polyene TE

4i4j – TE – Streptomyces globisporus

Fluoroacetyl-CoA TE

3kuv, 3kuw, 3kvi – ScTE (mutant) + acetate derivative – Streptomyces cattleya
3kv7, 3kv8, 3p2r, 3p2s – ScTE + acetate derivative
3kvu – ScTE + acetyl-CoA
3kvz, 3kw1 – ScTE + FAcOPan
3kx7, 3kx8, 3p2q – ScTE
3p3f – ScTE (mutant)
3p3i - ScTE (mutant) + acetate derivative + CoA

DHNA-CoA TE

4k00 – TE – Synechocystis
4k02 – TE – Arabidopsis thaliana

Ubiquitin TE

USP 2

2zfy – hUSP – human
2hd5, 3nhe, 3v6c, 3v6e – hUSP + Ub
1tff – hUSP (mutant)
2ibi – hUSP (mutant) + Ub

USP 3

2qiy – yUSP + USP-associated protein – yeast

USP 4

2y6e – hUSP catalytic domain
3jyu – mUSP N terminal domain - mouse

USP 5

2dag – hUSP UBA domain 1 - NMR
2dak – hUSP UBA domain 2 - NMR
2g43 – hUSP zinc finger USP domain
2g45 – hUSP zinc finger USP domain + Ub
3ihp – hUSP + Ub

USP 7

2f1z – hUSP
1nb8, 4m5w, 4m5x – hUSP catalytic domain
2kvr – hUSP UBL domain - NMR
4pyz – hUSP UBL domains 1+2
1yze, 2f1w – hUSP N terminal domain
2ylm – hUSP C terminal domain
2f1x, 2f1y, 2foj, 2foo, 2fop – hUSP N terminal domain/peptide

USP 7 complexes

1nbf – hUSP catalytic domain + Ub aldehyde
1yy6 – hUSP N terminal domain + EBNA1 peptide
2xxn – hUSP TRAF domain + VIRF-4 peptide
3mqr – hUSP TRAF domain + HDMX peptide
3mqs – hUSP TRAF domain + HDM2 peptide
4jjq – hUSP TRAF domain + E2 peptide
4kg9 – hUSP TRAF domain + MCM-BP peptide

USP 8

1whb – hUSP rhodanase domain – human - NMR
2a9u – hUSP N terminal domain
2gfo – hUSP catalytic domain

USP 8 complexes

2gwf – hUSP rhodanase domain + ring finger protein 41 USP8 interaction domain
3mhh, 3m99, 4fip, 4fjc, 4f5k, 4fk5 – yUSP + SUS1 + SGF11 +SGF73
3mhs – yUSP + SUS1 + SGF11 +SGF73 + Ub
3n3k – hUSP catalytic domain + Ub

USP 11

4mel – hUSP DUSP+UBL domains
4mem – rUSP DUSP+UBL domains - rat

USP 13

2l80 – hUSP zinc finger domain - NMR
2lbc – hUSP UBA domain - NMR

USP 14

1wgg – mUSP N terminal domain - NMR
2ayn – hUSP
2ayo – hUSP + Ub aldehyde

USP 15

3lmn – hUSP DUSP domain
3ppa, 3pv1, 3t9l, 4a3o, 4a3p – hUSP DUSP+UBL domains
1w6v – hUSP DUSP domain - NMR

USP 16

2i50 – hUSP zinc finger domain - NMR

USP 21

3i3t, 2y5b – hUSP + Ub
3mtn – hUSP + Ub inhibitor

USP25

1vdl – mUSP catalytic domain

USP 28

2lva – hUSP N terminal - NMR

USP 33

2uzg – hUSP zinc finger domain - NMR

USP 37

3ihr – hUSP (mutant)
3a7s – hUSP catalytic domain (mutant)

USP Cyld

2vhf – hUSP USP domain

USP L1

2etl – hUSP-L1
3irt, 4jkj – hUSP (mutant)
2len – hUSP (mutant) - NMR
3ifw, 3kvf, 3kw5 – hUSP (mutant) + Ub
4dm9 – hUSP + peptide inhibitor

USP L3

1uch – hUSP-L3
1xd3 – hUSP-L3 + UBC
2we6 – PfUSP-L3 – Plasmodium falciparum
2wdt – PfUSP-L3 + Ub

USP L5

3ris – hUSP catalytic domain
3rii, 3a7s – hUSP catalytic domain (mutant)
3tb3 – hUSP UCH domain (mutant)
3ihr – hUSP-L5 (mutant)

USP ZranB1

3zrh – hUSP

USP OTUB1

3von – hUSP + E2
4ddg, 4ddi – hUSP + Ub
4ddi, 4i6l – hUSP (mutant) + Ub
4dhz – hUSP + E2 + Ub
4boq - hUSP OTU domain
4boz - hUSP OTU domain (mutant) + Ub
4bos - hUSP OTU domain (mutant) + Ub + OTUD2 peptide
4fjv - hUSP OTUB2 + Ub
4dhj – nUSP + E2 + Ub - nematode
4dhi – nUSP + E2
2kzr – mUSP UBX-like domain – NMR
4kdi, 4kdl – yUSP UBX-like domain + transitional endoplasmic reticulum ATPase
3by4, 3c0r - yUSP OTU domain + Ub

3znh – USP + Ub – Crimean-Congo hemorrhagic fever virus

RedJ TE

3qmv, 3qmw – TE – Streptomyces coelicolor

Orf6 TE

4i45 – TE – Photobacterium profundum

2av9, 2o5u, 2o6b, 2o6t, 2o6u, 3qy3 – TE – Pseudomonas aeruginosa

Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Alexander Berchansky, Joel L. Sussman

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