2pfc

From Proteopedia

(Difference between revisions)

Current revision

Structure of Mycobacterium tuberculosis Rv0098

Structural highlights

2pfc is a 1 chain structure with sequence from Mycobacterium tuberculosis. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.3Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

INLPD_MYCTU Involved in the biosynthesis of a unique class of isonitrile lipopeptides (INLPs) that seem to function as virulence factors in M.tuberculosis and to play a role in metal acquisition (PubMed:28634299). Catalyzes a Michael addition of glycine to the beta-position of an alpha,beta-unsaturated fatty acyl-[ACP], producing a (3R)-3-[(carboxymethyl)amino]fatty acid. Acts on the (2E)-decenoyl moiety loaded on the acyl-carrier protein (ACP) Rv0100, forming the product (3R)-3-[(carboxymethyl)amino]decanoate released from the ACP (By similarity). Displays thioesterase activity with a preference for long chain fatty acyl groups; in vitro, cleaves the thioester linkage of palmitoyl-CoA, stearoyl-CoA, lauroyl-CoA and hexanoyl-CoA (PubMed:17524985). Contains low levels of trans-enoyl hydratase activity (PubMed:19136596).[UniProtKB:B2HKM2]^[1] ^[2] ^[3]

Publication Abstract from PubMed

Rv0098 is part of an operon, Rv0096-Rv0101, from Mycobacterium tuberculosis (Mtb) that is essential for Mtb's survival in mouse macrophages. This operon also contains an acyl carrier protein and one of the only two nonribosomal peptide synthases in Mtb. Rv0098 is annotated in the genome as a hypothetical protein and was proposed to be an acyl-coenzyme A (CoA) dehydratase. The structure of Rv0098, together with subsequent biochemical analysis, indicated that Rv0098 is a long-chain fatty acyl-CoA thioesterase (FcoT). However, FcoT lacks a general base or a nucleophile that is always found in the catalytic site of type II and type I thioesterases, respectively. The active site of Mtb FcoT reveals the structural basis for its substrate specificity for long-chain acyl-CoA and allows us to propose a catalytic mechanism for the enzyme. The characterization of Mtb FcoT provides a putative function of this operon that is crucial for Mtb pathogenicity.

Identification of a type III thioesterase reveals the function of an operon crucial for Mtb virulence.,Wang F, Langley R, Gulten G, Wang L, Sacchettini JC Chem Biol. 2007 May;14(5):543-51. PMID:17524985^[4]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Wang F, Langley R, Gulten G, Wang L, Sacchettini JC. Identification of a type III thioesterase reveals the function of an operon crucial for Mtb virulence. Chem Biol. 2007 May;14(5):543-51. PMID:17524985 doi:http://dx.doi.org/S1074-5521(07)00141-X
↑ Gurvitz A, Hiltunen JK, Kastaniotis AJ. Heterologous expression of mycobacterial proteins in Saccharomyces cerevisiae reveals two physiologically functional 3-hydroxyacyl-thioester dehydratases, HtdX and HtdY, in addition to HadABC and HtdZ. J Bacteriol. 2009 Apr;191(8):2683-90. doi: 10.1128/JB.01046-08. Epub 2009 Jan 9. PMID:19136596 doi:http://dx.doi.org/10.1128/JB.01046-08
↑ Harris NC, Sato M, Herman NA, Twigg F, Cai W, Liu J, Zhu X, Downey J, Khalaf R, Martin J, Koshino H, Zhang W. Biosynthesis of isonitrile lipopeptides by conserved nonribosomal peptide synthetase gene clusters in Actinobacteria. Proc Natl Acad Sci U S A. 2017 Jul 3;114(27):7025-7030. PMID:28634299 doi:10.1073/pnas.1705016114
↑ Wang F, Langley R, Gulten G, Wang L, Sacchettini JC. Identification of a type III thioesterase reveals the function of an operon crucial for Mtb virulence. Chem Biol. 2007 May;14(5):543-51. PMID:17524985 doi:http://dx.doi.org/S1074-5521(07)00141-X

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2pfc"

Categories: Large Structures | Mycobacterium tuberculosis | Sacchettini JC | Wang F

@@ Line 3: / Line 3: @@
 <StructureSection load='2pfc' size='340' side='right'caption='[[2pfc]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2pfc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus tuberculosis" (zopf 1883) klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PFC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PFC FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2pfc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PFC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PFC FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.3&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
 <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2pfc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pfc OCA], [https://pdbe.org/2pfc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pfc RCSB], [https://www.ebi.ac.uk/pdbsum/2pfc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pfc ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/INLPD_MYCTU INLPD_MYCTU] Involved in the biosynthesis of a unique class of isonitrile lipopeptides (INLPs) that seem to function as virulence factors in M.tuberculosis and to play a role in metal acquisition (PubMed:28634299). Catalyzes a Michael addition of glycine to the beta-position of an alpha,beta-unsaturated fatty acyl-[ACP], producing a (3R)-3-[(carboxymethyl)amino]fatty acid. Acts on the (2E)-decenoyl moiety loaded on the acyl-carrier protein (ACP) Rv0100, forming the product (3R)-3-[(carboxymethyl)amino]decanoate released from the ACP (By similarity). Displays thioesterase activity with a preference for long chain fatty acyl groups; in vitro, cleaves the thioester linkage of palmitoyl-CoA, stearoyl-CoA, lauroyl-CoA and hexanoyl-CoA (PubMed:17524985). Contains low levels of trans-enoyl hydratase activity (PubMed:19136596).[UniProtKB:B2HKM2]<ref>PMID:17524985</ref> <ref>PMID:19136596</ref> <ref>PMID:28634299</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 24: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Sacchettini, J C]]
+[[Category: Mycobacterium tuberculosis]]
-[[Category: Wang, F]]
+[[Category: Sacchettini JC]]
-[[Category: Thioesterase]]
+[[Category: Wang F]]
-[[Category: Tuberculosis]]
-[[Category: Unknown function]]
-[[Category: Virulence]]

2pfc

From Proteopedia

Current revision

Structure of Mycobacterium tuberculosis Rv0098

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

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