5d6v: Difference between revisions

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~~'''Unreleased structure'''~~

~~The entry~~ 5d6v is ~~ON HOLD~~

==PduJ K25A mutant, from Salmonella enterica serovar Typhimurium LT2, PduJ mutant==

~~Authors~~: ~~Chun~~, S., ~~Sawaya~~, M.R., ~~Yeates~~, T.O.

== Structural highlights ==

<table><tr><td colspan='2'>[[5d6v]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium_str._LT2 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D6V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5D6V FirstGlance]. <br>

~~Description~~: PduJ ~~K25A mutant~~, ~~from Salmonella enterica serovar Typhimurium LT2~~, PduJ ~~mutant~~

</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5Å</td></tr>

[[Category: ~~Unreleased~~ Structures]]

<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5d6v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d6v OCA], [https://pdbe.org/5d6v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5d6v RCSB], [https://www.ebi.ac.uk/pdbsum/5d6v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5d6v ProSAT]</span></td></tr>

[[Category: ~~Sawaya, M~~.R]]

</table>

[[Category: ~~Yeates, T.O~~]]

== Function ==

[[Category: ~~Chun, S~~]]

[https://www.uniprot.org/uniprot/PDUJ_SALTY PDUJ_SALTY] One of the major shell proteins of the bacterial microcompartment (BMC) dedicated to 1,2-propanediol (1,2-PD) degradation. The isolated BMC shell component protein ratio for J:A:B':B:K:T:U is approximately 15:10:7:6:1:1:2 (PubMed:12923081). At least one of PduA or PduJ is required for BMC assembly; it must be encoded as the first gene in the pdu operon (PubMed:33227310, PubMed:27561553). Required for structural integrity of BMCs and to mitigate propionaldehyde toxicity, probably joins facets responsible for BMC closure (PubMed:21239588). Edge residues (particularly Lys-25) are important for function and assembly of the BMC (PubMed:24747050). 80% identical to PduA; although their pore regions appear structurally identical, unlike PduA plays no role in 1,2-PD diffusion into or out of the BMC shell. If pduJ is cloned in the chromosomal position of pduA it is able to complement a pduA deletion; it then has a functional pore as it assumes the transport functions of PduA (PubMed:27561553). Overexpression of this protein leads to aberrant filaments that extend the length of the cell, cross the cleavage furrow and impair division. The filaments form nanotubes with a hollow center (PubMed:33227310). Modeling suggests PduJ is probably the hub for binding multiple enzymes to the interior of the BMC; modeling suggests PduC, PduD, PduG and PduM are targeted to PduJ (Probable).<ref>PMID:12923081</ref> <ref>PMID:21239588</ref> <ref>PMID:24747050</ref> <ref>PMID:27561553</ref> <ref>PMID:33227310</ref> <ref>PMID:25646976</ref> The 1,2-propanediol (1,2-PD) degradation bacterial microcompartment (BMC) concentrates low levels of 1,2-PD catabolic enzymes, concentrates volatile reaction intermediates thus enhancing pathway flux and keeps the level of toxic, mutagenic propionaldehyde low.<ref>PMID:18296526</ref> <ref>PMID:28475631</ref>

== References ==

__TOC__

</StructureSection>

[[Category: Large Structures]]

[[Category: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]]

[[Category: Chun S]]

[[Category: Sawaya MR]]

[[Category: Yeates TO]]

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 5d6v is ON HOLD
+==PduJ K25A mutant, from Salmonella enterica serovar Typhimurium LT2, PduJ mutant==
+<StructureSection load='5d6v' size='340' side='right'caption='[[5d6v]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
-Authors: Chun, S., Sawaya, M.R., Yeates, T.O.
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5d6v]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium_str._LT2 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D6V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5D6V FirstGlance]. <br>
-Description: PduJ K25A mutant, from Salmonella enterica serovar Typhimurium LT2, PduJ mutant
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
-[[Category: Unreleased Structures]]
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5d6v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d6v OCA], [https://pdbe.org/5d6v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5d6v RCSB], [https://www.ebi.ac.uk/pdbsum/5d6v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5d6v ProSAT]</span></td></tr>
-[[Category: Sawaya, M.R]]
+</table>
-[[Category: Yeates, T.O]]
+== Function ==
-[[Category: Chun, S]]
+[https://www.uniprot.org/uniprot/PDUJ_SALTY PDUJ_SALTY] One of the major shell proteins of the bacterial microcompartment (BMC) dedicated to 1,2-propanediol (1,2-PD) degradation. The isolated BMC shell component protein ratio for J:A:B':B:K:T:U is approximately 15:10:7:6:1:1:2 (PubMed:12923081). At least one of PduA or PduJ is required for BMC assembly; it must be encoded as the first gene in the pdu operon (PubMed:33227310, PubMed:27561553). Required for structural integrity of BMCs and to mitigate propionaldehyde toxicity, probably joins facets responsible for BMC closure (PubMed:21239588). Edge residues (particularly Lys-25) are important for function and assembly of the BMC (PubMed:24747050). 80% identical to PduA; although their pore regions appear structurally identical, unlike PduA plays no role in 1,2-PD diffusion into or out of the BMC shell. If pduJ is cloned in the chromosomal position of pduA it is able to complement a pduA deletion; it then has a functional pore as it assumes the transport functions of PduA (PubMed:27561553). Overexpression of this protein leads to aberrant filaments that extend the length of the cell, cross the cleavage furrow and impair division. The filaments form nanotubes with a hollow center (PubMed:33227310). Modeling suggests PduJ is probably the hub for binding multiple enzymes to the interior of the BMC; modeling suggests PduC, PduD, PduG and PduM are targeted to PduJ (Probable).<ref>PMID:12923081</ref> <ref>PMID:21239588</ref> <ref>PMID:24747050</ref> <ref>PMID:27561553</ref> <ref>PMID:33227310</ref> <ref>PMID:25646976</ref>   The 1,2-propanediol (1,2-PD) degradation bacterial microcompartment (BMC) concentrates low levels of 1,2-PD catabolic enzymes, concentrates volatile reaction intermediates thus enhancing pathway flux and keeps the level of toxic, mutagenic propionaldehyde low.<ref>PMID:18296526</ref> <ref>PMID:28475631</ref>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]]
+[[Category: Chun S]]
+[[Category: Sawaya MR]]
+[[Category: Yeates TO]]