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7s5k

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M. xanthus ferritin-like protein EncB

Structural highlights

7s5k is a 10 chain structure with sequence from Myxococcus xanthus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.95Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ENCB_MYXXD Cargo protein of a type 1 encapsulin nanocompartment. May help nucleate Fe atoms in the interior of the encapsulin nanocompartment (Probable). Present in about 36 copies/encapsulin nanocompartment (PubMed:25024436).^[1] ^[2]

Publication Abstract from PubMed

Encapsulins are bacterial organelle-like cages involved in various aspects of metabolism, especially protection from oxidative stress. They can serve as vehicles for a wide range of medical applications. Encapsulin shell proteins are structurally similar to HK97 bacteriophage capsid protein and their function depends on the encapsulated cargos. The Myxococcus xanthus encapsulin system comprises EncA and three cargos: EncB, EncC, and EncD. EncB and EncC are similar to bacterial ferritins that can oxidize Fe(+2) to less toxic Fe(+3). We analyzed EncA, EncB, and EncC by cryo-EM and X-ray crystallography. Cryo-EM shows that EncA cages can have T = 3 and T = 1 symmetry and that EncA T = 1 has a unique protomer arrangement. Also, we define EncB and EncC binding sites on EncA. X-ray crystallography of EncB and EncC reveals conformational changes at the ferroxidase center and additional metal binding sites, suggesting a mechanism for Fe oxidation and storage within the encapsulin shell.

Structural characterization of the Myxococcusxanthus encapsulin and ferritin-like cargo system gives insight into its iron storage mechanism.,Eren E, Wang B, Winkler DC, Watts NR, Steven AC, Wingfield PT Structure. 2022 Feb 2. pii: S0969-2126(22)00008-9. doi:, 10.1016/j.str.2022.01.008. PMID:35150605^[3]

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

References

↑ McHugh CA, Fontana J, Nemecek D, Cheng N, Aksyuk AA, Heymann JB, Winkler DC, Lam AS, Wall JS, Steven AC, Hoiczyk E. A virus capsid-like nanocompartment that stores iron and protects bacteria from oxidative stress. EMBO J. 2014 Jul 14. pii: e201488566. PMID:25024436 doi:http://dx.doi.org/10.15252/embj.201488566
↑ McHugh CA, Fontana J, Nemecek D, Cheng N, Aksyuk AA, Heymann JB, Winkler DC, Lam AS, Wall JS, Steven AC, Hoiczyk E. A virus capsid-like nanocompartment that stores iron and protects bacteria from oxidative stress. EMBO J. 2014 Jul 14. pii: e201488566. PMID:25024436 doi:http://dx.doi.org/10.15252/embj.201488566
↑ Eren E, Wang B, Winkler DC, Watts NR, Steven AC, Wingfield PT. Structural characterization of the Myxococcusxanthus encapsulin and ferritin-like cargo system gives insight into its iron storage mechanism. Structure. 2022 Feb 2. pii: S0969-2126(22)00008-9. doi:, 10.1016/j.str.2022.01.008. PMID:35150605 doi:http://dx.doi.org/10.1016/j.str.2022.01.008

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/7s5k"

Categories: Large Structures | Myxococcus xanthus | Eren E

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 7s5k is ON HOLD
+==M. xanthus ferritin-like protein EncB==
+<StructureSection load='7s5k' size='340' side='right'caption='[[7s5k]], [[Resolution|resolution]] 1.95&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[7s5k]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Myxococcus_xanthus Myxococcus xanthus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7S5K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7S5K FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.95&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</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=7s5k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7s5k OCA], [https://pdbe.org/7s5k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7s5k RCSB], [https://www.ebi.ac.uk/pdbsum/7s5k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7s5k ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/ENCB_MYXXD ENCB_MYXXD] Cargo protein of a type 1 encapsulin nanocompartment. May help nucleate Fe atoms in the interior of the encapsulin nanocompartment (Probable). Present in about 36 copies/encapsulin nanocompartment (PubMed:25024436).<ref>PMID:25024436</ref> <ref>PMID:25024436</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Encapsulins are bacterial organelle-like cages involved in various aspects of metabolism, especially protection from oxidative stress. They can serve as vehicles for a wide range of medical applications. Encapsulin shell proteins are structurally similar to HK97 bacteriophage capsid protein and their function depends on the encapsulated cargos. The Myxococcus xanthus encapsulin system comprises EncA and three cargos: EncB, EncC, and EncD. EncB and EncC are similar to bacterial ferritins that can oxidize Fe(+2) to less toxic Fe(+3). We analyzed EncA, EncB, and EncC by cryo-EM and X-ray crystallography. Cryo-EM shows that EncA cages can have T = 3 and T = 1 symmetry and that EncA T = 1 has a unique protomer arrangement. Also, we define EncB and EncC binding sites on EncA. X-ray crystallography of EncB and EncC reveals conformational changes at the ferroxidase center and additional metal binding sites, suggesting a mechanism for Fe oxidation and storage within the encapsulin shell.
-Authors: Eren, E.
+Structural characterization of the Myxococcusxanthus encapsulin and ferritin-like cargo system gives insight into its iron storage mechanism.,Eren E, Wang B, Winkler DC, Watts NR, Steven AC, Wingfield PT Structure. 2022 Feb 2. pii: S0969-2126(22)00008-9. doi:, 10.1016/j.str.2022.01.008. PMID:35150605<ref>PMID:35150605</ref>
-Description: M. xanthus EncB
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Eren, E]]
+<div class="pdbe-citations 7s5k" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Myxococcus xanthus]]
+[[Category: Eren E]]

7s5k

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Current revision

M. xanthus ferritin-like protein EncB

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

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