Enzyme Assembly for Compartmentalized Metabolic Flux Control.
artificial scaffold
enzyme assembly
metabolic flux
physical compartment
scaffold-free assembly
Journal
Metabolites
ISSN: 2218-1989
Titre abrégé: Metabolites
Pays: Switzerland
ID NLM: 101578790
Informations de publication
Date de publication:
26 Mar 2020
26 Mar 2020
Historique:
received:
26
02
2020
revised:
25
03
2020
accepted:
25
03
2020
entrez:
1
4
2020
pubmed:
1
4
2020
medline:
1
4
2020
Statut:
epublish
Résumé
Enzyme assembly by ligand binding or physically sequestrating enzymes, substrates, or metabolites into isolated compartments can bring key molecules closer to enhance the flux of a metabolic pathway. The emergence of enzyme assembly has provided both opportunities and challenges for metabolic engineering. At present, with the development of synthetic biology and systems biology, a variety of enzyme assembly strategies have been proposed, from the initial direct enzyme fusion to scaffold-free assembly, as well as artificial scaffolds, such as nucleic acid/protein scaffolds, and even some more complex physical compartments. These assembly strategies have been explored and applied to the synthesis of various important bio-based products, and have achieved different degrees of success. Despite some achievements, enzyme assembly, especially in vivo, still has many problems that have attracted significant attention from researchers. Here, we focus on some selected examples to review recent research on scaffold-free strategies, synthetic artificial scaffolds, and physical compartments for enzyme assembly or pathway sequestration, and we discuss their notable advances. In addition, the potential applications and challenges in the applications are highlighted.
Identifiants
pubmed: 32224973
pii: metabo10040125
doi: 10.3390/metabo10040125
pmc: PMC7241084
pii:
doi:
Types de publication
Journal Article
Review
Langues
eng
Subventions
Organisme : the National Natural Science Foundation of China
ID : 21808084
Organisme : the key research and development program of China
ID : 2018YFA0900300
Références
Annu Rev Microbiol. 2010;64:391-408
pubmed: 20825353
Front Bioeng Biotechnol. 2015 Nov 23;3:191
pubmed: 26636078
Nat Biotechnol. 2013 Apr;31(4):335-41
pubmed: 23417095
Trends Microbiol. 2015 Jan;23(1):22-34
pubmed: 25455419
Nat Rev Mol Cell Biol. 2004 Dec;5(12):959-70
pubmed: 15573134
J Biol Chem. 2006 Jul 28;281(30):21535-45
pubmed: 16728392
Bioconjug Chem. 2012 Mar 21;23(3):309-23
pubmed: 22168393
Metab Eng. 2012 May;14(3):242-51
pubmed: 21946160
Nat Chem Biol. 2018 Feb;14(2):142-147
pubmed: 29227472
Chemistry. 2008;14(11):3236-49
pubmed: 18236477
J Clin Microbiol. 1984 Nov;20(5):959-61
pubmed: 6392327
Biophys J. 2017 Feb 28;112(4):767-779
pubmed: 28256236
PLoS Biol. 2008 Sep 30;6(9):e239
pubmed: 18828675
ACS Synth Biol. 2015 Apr 17;4(4):444-53
pubmed: 25117559
Nat Nanotechnol. 2016 Jan;11(1):47-52
pubmed: 26479026
Appl Microbiol Biotechnol. 2016 Nov;100(21):9187-9200
pubmed: 27450681
Nat Protoc. 2016 Nov;11(11):2243-2273
pubmed: 27763626
Nature. 2009 Oct 15;461(7266):997-1001
pubmed: 19749742
Angew Chem Int Ed Engl. 2014 Dec 15;53(51):14027-30
pubmed: 25319901
Metab Eng. 2007 Mar;9(2):152-9
pubmed: 17113805
J Comput Chem. 2011 Jan 15;32(1):170-3
pubmed: 20645303
Anal Chem. 2017 Sep 5;89(17):9383-9387
pubmed: 28726378
Plant J. 2016 Jul;87(1):87-102
pubmed: 27005523
Plant Cell. 2015 Sep;27(9):2637-44
pubmed: 26320224
Proc Natl Acad Sci U S A. 2009 Jun 23;106(25):10147-52
pubmed: 19502427
Microb Cell Fact. 2017 Apr 26;16(1):71
pubmed: 28446197
Proc Natl Acad Sci U S A. 2015 Mar 10;112(10):2990-5
pubmed: 25713376
Microb Cell Fact. 2012 Jan 18;11:10
pubmed: 22251949
Biotechnol J. 2017 Jun;12(6):
pubmed: 28464535
Photosynth Res. 2011 Sep;109(1-3):21-32
pubmed: 21279737
Appl Environ Microbiol. 2013 Feb;79(3):774-82
pubmed: 23160128
Science. 2011 Jul 22;333(6041):470-4
pubmed: 21700839
Biotechnol Bioeng. 2007 Jun 15;97(3):454-61
pubmed: 17089401
Biochem J. 2009 Sep 25;423(2):199-207
pubmed: 19635047
Science. 2010 Mar 5;327(5970):1258-61
pubmed: 20203050
J Virol. 2012 May;86(9):5376-9
pubmed: 22379079
Biotechnol Bioeng. 2013 Oct;110(10):2790-4
pubmed: 23568786
Curr Opin Biotechnol. 2011 Aug;22(4):485-91
pubmed: 21664809
Metab Eng. 2010 May;12(3):298-305
pubmed: 20117231
Proc Natl Acad Sci U S A. 2016 Nov 8;113(45):12691-12696
pubmed: 27791059
Nucleic Acids Res. 2012 Feb;40(4):1879-89
pubmed: 22021385
Cell Rep. 2014 Jan 16;6(1):44-55
pubmed: 24373967
Microbiol Mol Biol Rev. 2014 Sep;78(3):438-68
pubmed: 25184561
Structure. 2010 Feb 10;18(2):155-66
pubmed: 20159461
Annu Rev Microbiol. 2004;58:521-54
pubmed: 15487947
Nat Commun. 2016 Apr 19;7:11179
pubmed: 27091073
ACS Synth Biol. 2018 Sep 21;7(9):2282-2295
pubmed: 30053372
Aust J Biotechnol. 1989 Jan;3(1):28-32
pubmed: 2485330
Curr Opin Biotechnol. 2015 Aug;34:142-52
pubmed: 25616051
Nat Commun. 2019 Sep 18;10(1):4248
pubmed: 31534134
Mol Microbiol. 2006 Oct;62(2):427-37
pubmed: 17020581
Science. 2010 Apr 16;328(5976):368-72
pubmed: 20395511
Cell Rep. 2016 Jan 5;14(1):22-31
pubmed: 26725116
Chembiochem. 2010 Jul 26;11(11):1517-20
pubmed: 20607777
Biochemistry. 2001 May 22;40(20):5921-30
pubmed: 11352727
Nat Biotechnol. 2013 Apr;31(4):320-1
pubmed: 23563429
J Am Chem Soc. 2011 Oct 12;133(40):16111-8
pubmed: 21919448
Nat Chem. 2016 Apr;8(4):299-309
pubmed: 27001725
J Mol Biol. 2016 Feb 27;428(5 Pt B):916-27
pubmed: 26403362
Nat Nanotechnol. 2009 Apr;4(4):249-54
pubmed: 19350036
ACS Synth Biol. 2013 Jun 21;2(6):308-15
pubmed: 23654276
Acc Chem Res. 2012 Aug 21;45(8):1215-26
pubmed: 22642503
Nucleic Acids Res. 2014 Aug;42(14):9493-503
pubmed: 25034694
Curr Opin Biotechnol. 2014 Aug;28:39-45
pubmed: 24832073
Biotechnol J. 2017 Mar;12(3):
pubmed: 28105684
Cell. 2016 Mar 10;164(6):1185-1197
pubmed: 26967285
Nat Rev Microbiol. 2004 Jul;2(7):541-51
pubmed: 15197390
ACS Synth Biol. 2014 Jan 17;3(1):1-12
pubmed: 24328185
Appl Environ Microbiol. 2009 Oct;75(19):6087-93
pubmed: 19684173
Cell. 2013 Nov 21;155(5):1131-40
pubmed: 24267892
Chem Sci. 2018 Aug 2;9(36):7247-7252
pubmed: 30288245
Chem Commun (Camb). 2016 May 10;52(40):6701-4
pubmed: 27117678
Protein Eng. 1987 Feb-Mar;1(2):107-13
pubmed: 3507693
J Biotechnol. 2013 Jan 20;163(2):273-9
pubmed: 22982517
Nat Chem. 2010 Sep;2(9):772-9
pubmed: 20729899
Proc Natl Acad Sci U S A. 2008 Nov 18;105(46):17626-31
pubmed: 18927233
Biophys J. 2014 Dec 16;107(12):2761-2766
pubmed: 25517143
J Biol Chem. 2008 May 23;283(21):14366-75
pubmed: 18332146
Curr Opin Biotechnol. 2015 Dec;36:98-106
pubmed: 26322735
Appl Environ Microbiol. 2005 Jun;71(6):2962-9
pubmed: 15932991
Photosynth Res. 2014 Sep;121(2-3):125-33
pubmed: 24504539
Nat Nanotechnol. 2015 Sep;10(9):779-84
pubmed: 26192207
Curr Opin Biotechnol. 2008 Oct;19(5):492-9
pubmed: 18725290
Angew Chem Int Ed Engl. 2014 Feb 3;53(6):1534-7
pubmed: 24453074
Nat Struct Mol Biol. 2015 Jan;22(1):8-10
pubmed: 25565027
Biotechnol Adv. 2017 Nov 1;35(6):805-814
pubmed: 28627424
J Biol Chem. 2015 Oct 2;290(40):24519-33
pubmed: 26283792
Metab Eng. 2010 Jul;12(4):307-31
pubmed: 20346409
Proc Natl Acad Sci U S A. 2012 Jan 10;109(2):478-83
pubmed: 22184212
Science. 2005 Aug 5;309(5736):936-8
pubmed: 16081736
J Biol Chem. 2000 Jul 14;275(28):21486-91
pubmed: 10887205
Mol Cell. 2010 Apr 23;38(2):305-15
pubmed: 20417607
J Biol Chem. 2014 Aug 8;289(32):22377-84
pubmed: 24873823
J Cell Biol. 2010 Aug 23;190(4):541-51
pubmed: 20713603
Nat Chem Biol. 2012 May 17;8(6):527-35
pubmed: 22596204
PLoS One. 2012;7(3):e33342
pubmed: 22428024
Science. 2011 May 6;332(6030):680-6
pubmed: 21551057
Curr Opin Struct Biol. 2004 Dec;14(6):690-9
pubmed: 15582393
Nat Commun. 2013;4:1409
pubmed: 23361000
Science. 2008 Apr 4;320(5872):103-6
pubmed: 18388293
Sci Rep. 2016 May 17;6:26065
pubmed: 27184291
Curr Opin Struct Biol. 2006 Dec;16(6):676-85
pubmed: 17079133
Nature. 2006 Mar 16;440(7082):297-302
pubmed: 16541064
Microb Cell Fact. 2018 Jul 31;17(1):120
pubmed: 30064437
Biochemistry. 2011 May 31;50(21):4402-10
pubmed: 21506553
Annu Rev Plant Biol. 2008;59:735-69
pubmed: 18251710
Proc Natl Acad Sci U S A. 2014 Feb 25;111(8):2897-902
pubmed: 24516140
Nature. 2003 Dec 11;426(6967):676-80
pubmed: 14668868
Structure. 2012 Aug 8;20(8):1353-62
pubmed: 22748766
J Am Chem Soc. 2010 May 5;132(17):6025-31
pubmed: 20387835
Proc Natl Acad Sci U S A. 1998 Feb 17;95(4):1460-5
pubmed: 9465037
Front Microbiol. 2017 Jul 31;8:1441
pubmed: 28824573
J Am Chem Soc. 2012 Mar 28;134(12):5516-9
pubmed: 22414276
Mol Cell. 2006 Nov 3;24(3):383-95
pubmed: 17081989
Eur J Cell Biol. 1997 Dec;74(4):399-406
pubmed: 9438137
Proc Natl Acad Sci U S A. 2012 Sep 11;109(37):14995-5000
pubmed: 22927404
PLoS One. 2012;7(10):e48360
pubmed: 23144756
ACS Synth Biol. 2016 Dec 16;5(12):1396-1403
pubmed: 27487319
Protein Sci. 2009 Dec;18(12):2629-35
pubmed: 19844993
Cell. 2014 Jan 16;156(1-2):183-94
pubmed: 24361104
Metab Eng. 2014 Jul;24:61-9
pubmed: 24815549
ACS Synth Biol. 2014 Jul 18;3(7):454-465
pubmed: 24933391
J Biotechnol. 2017 Sep 20;258:126-135
pubmed: 28359868
Nat Nanotechnol. 2011 Nov 06;6(12):763-72
pubmed: 22056726
Sci Rep. 2016 Apr 11;6:24359
pubmed: 27063436
J Biol Chem. 2010 Nov 26;285(48):37838-46
pubmed: 20870711
J Biol Chem. 2001 Apr 6;276(14):10577-80
pubmed: 11279227
Nat Biotechnol. 2009 Aug;27(8):753-9
pubmed: 19648908
Methods Enzymol. 2011;497:447-68
pubmed: 21601098
Science. 2014 Aug 15;345(6198):799-804
pubmed: 25124436
Metab Eng. 2016 Jul;36:48-56
pubmed: 26969252
J Mol Biol. 2014 May 29;426(11):2217-28
pubmed: 24631000
J Biol Chem. 1999 Apr 30;274(18):12193-6
pubmed: 10212181
ACS Synth Biol. 2017 Oct 20;6(10):1880-1891
pubmed: 28585808
Nat Biotechnol. 2013 Feb;31(2):170-4
pubmed: 23334451
Bioresour Bioprocess. 2017;4(1):36
pubmed: 28824835
Metab Eng. 2008 Sep;10(5):255-66
pubmed: 18606241
Metab Eng. 2017 Nov;44:108-116
pubmed: 28962875
Nat Biotechnol. 2014 Oct;32(10):1011-8
pubmed: 25262299
Trends Cell Biol. 2012 Dec;22(12):662-70
pubmed: 22841504
Biotechnol Bioeng. 2020 May;117(5):1446-1457
pubmed: 32043560
Science. 2004 Dec 17;306(5704):2068-72
pubmed: 15604402
Nat Methods. 2011 Mar;8(3):221-9
pubmed: 21358626
Commun Integr Biol. 2015 Jun 23;8(3):e1039755
pubmed: 26478774
Science. 2011 Apr 15;332(6027):342-6
pubmed: 21493857
Curr Opin Biotechnol. 2013 Aug;24(4):555-61
pubmed: 23566376
Annu Rev Biophys. 2010;39:185-205
pubmed: 20192762
Curr Opin Biotechnol. 2014 Oct;29:156-62
pubmed: 24927371
J Biol Eng. 2010 Feb 25;4:3
pubmed: 20184755
Biochem Biophys Res Commun. 2008 Dec 5;377(1):62-7
pubmed: 18823945
Metab Eng. 2011 Nov;13(6):648-55
pubmed: 21907299
Microbiol Mol Biol Rev. 2011 Sep;75(3):491-506, second page of table of contents
pubmed: 21885682
Chem Rec. 2001;1(2):140-51
pubmed: 11893063
Nat Protoc. 2012 Oct;7(10):1797-807
pubmed: 22955695
ACS Synth Biol. 2017 Aug 18;6(8):1534-1544
pubmed: 28497697
J Biotechnol. 2012 Jan;157(1):258-60
pubmed: 22100267
Nano Lett. 2016 Mar 9;16(3):1590-5
pubmed: 26617073
Biotechnol Bioeng. 2013 Jul;110(7):1858-64
pubmed: 23404255
Nature. 2009 May 21;459(7245):414-8
pubmed: 19458720
Nature. 1998 Aug 6;394(6693):539-44
pubmed: 9707114
Science. 2010 Dec 3;330(6009):1355-8
pubmed: 21127247
Nat Biotechnol. 2019 Aug;37(8):869-876
pubmed: 31285593
Genes Dev. 2000 May 1;14(9):1027-47
pubmed: 10809663
J Exp Bot. 2016 Apr;67(8):2495-506
pubmed: 26969746
Chem Commun (Camb). 2013 May 8;49(36):3766-8
pubmed: 23535691
Microb Cell Fact. 2005 Sep 12;4:27
pubmed: 16156893
J Am Chem Soc. 2010 Jul 28;132(29):9937-9
pubmed: 20590144
Nature. 2000 Mar 9;404(6774):151-8
pubmed: 10724160
Nucleic Acids Res. 2009 Aug;37(15):5001-6
pubmed: 19531737
Biochemistry. 2009 Mar 3;48(8):1663-74
pubmed: 19199428