3nsg: Difference between revisions

Latest revision as of 00:33, 28 December 2023

Crystal Structure of OmpF, an Outer Membrane Protein from Salmonella typhi

Structural highlights

3nsg is a 3 chain structure with sequence from Salmonella enterica subsp. enterica serovar Typhi str. Ty21a. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.79Å
Ligands:	FLC, GOL, LDA, MSE, SO4, TAM, TLA
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

OMPF_SALTY Forms pores that allow passive diffusion of small molecules across the outer membrane. It is also a receptor for the bacteriophage T2 (By similarity).

Publication Abstract from PubMed

OmpF is a major general diffusion porin of Salmonella typhi, a Gram-negative bacterium, which is an obligatory human pathogen causing typhoid. The structure of S. typhi Ty21a OmpF (PDB Id: 3NSG) determined at 2.8A resolution by X-ray crystallography shows a 16-stranded beta-barrel with three beta-barrel monomers associated to form a trimer. The packing observed in S. typhi Ty21a rfOmpF crystals has not been observed earlier in other porin structures. The variations seen in the loop regions provide a starting point for using the S. typhi OmpF for structure-based multi-valent vaccine design. Along one side of the S. typhi Ty21a OmpF pore there exists a staircase arrangement of basic residues (20R, 60R, 62K, 65R, 77R, 130R and 16K), which also contribute, to the electrostatic potential in the pore. This structure suggests the presence of asymmetric electrostatics in the porin oligomer. Moreover, antibiotic translocation, permeability and reduced uptake in the case of mutants can be understood based on the structure paving the way for designing new antibiotics.

Asymmetric pore occupancy in crystal structure of OmpF porin from Salmonella typhi.,Balasubramaniam D, Arockiasamy A, Kumar PD, Sharma A, Krishnaswamy S J Struct Biol. 2012 Jun;178(3):233-44. Epub 2012 Apr 16. PMID:22525817^[1]

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

References

↑ Balasubramaniam D, Arockiasamy A, Kumar PD, Sharma A, Krishnaswamy S. Asymmetric pore occupancy in crystal structure of OmpF porin from Salmonella typhi. J Struct Biol. 2012 Jun;178(3):233-44. Epub 2012 Apr 16. PMID:22525817 doi:10.1016/j.jsb.2012.04.005

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Balasubramaniam D, Arockiasamy A, Kumar PD, Sharma A, Krishnaswamy S. Asymmetric pore occupancy in crystal structure of OmpF porin from Salmonella typhi. J Struct Biol. 2012 Jun;178(3):233-44. Epub 2012 Apr 16. PMID:22525817 doi:10.1016/j.jsb.2012.04.005

[1]

@@ Line 3: / Line 3: @@
 <StructureSection load='3nsg' size='340' side='right'caption='[[3nsg]], [[Resolution|resolution]] 2.79&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3nsg]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhi_str._ty21a Salmonella enterica subsp. enterica serovar typhi str. ty21a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NSG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NSG FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3nsg]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhi_str._Ty21a Salmonella enterica subsp. enterica serovar Typhi str. Ty21a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NSG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NSG FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE-N-OXIDE'>LDA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TAM:TRIS(HYDROXYETHYL)AMINOMETHANE'>TAM</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</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]] 2.79&#8491;</td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE-N-OXIDE'>LDA</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TAM:TRIS(HYDROXYETHYL)AMINOMETHANE'>TAM</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ompF ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=527001 Salmonella enterica subsp. enterica serovar Typhi str. Ty21a])</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=3nsg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nsg OCA], [https://pdbe.org/3nsg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3nsg RCSB], [https://www.ebi.ac.uk/pdbsum/3nsg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3nsg ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/OMPF_SALTY OMPF_SALTY] Forms pores that allow passive diffusion of small molecules across the outer membrane. It is also a receptor for the bacteriophage T2 (By similarity).
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 26: / Line 27: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Salmonella enterica subsp. enterica serovar typhi str. ty21a]]
+[[Category: Salmonella enterica subsp. enterica serovar Typhi str. Ty21a]]
-[[Category: Arockiasamy, A]]
+[[Category: Arockiasamy A]]
-[[Category: Balasubramaniam, D]]
+[[Category: Balasubramaniam D]]
-[[Category: Krishnaswamy, S]]
+[[Category: Krishnaswamy S]]
-[[Category: Sharma, A]]
+[[Category: Sharma A]]
-[[Category: Beta barrel]]
-[[Category: Beta barrel membrane protein]]
-[[Category: Membrane protein]]
-[[Category: Outer membrane protein]]
-[[Category: Porin]]

3nsg: Difference between revisions

Latest revision as of 00:33, 28 December 2023

Crystal Structure of OmpF, an Outer Membrane Protein from Salmonella typhi

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools