1sm7

From Proteopedia

(Difference between revisions)

Current revision

Solution structure of the recombinant pronapin precursor, BnIb.

Structural highlights

1sm7 is a 1 chain structure with sequence from Brassica napus. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Solution NMR, 19 models
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q8GT96_BRANA

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

NMR spectroscopy has been used to determine the solution structure of the precursor form of the recombinant napin BnIb, rproBnIb, a 2S albumin, 109-residue protein from the seeds of Brassica napus. More than 90% of the side-chain proton resonances were unambiguously assigned from the analysis of two-dimensional correlation (COSY), total correlation (TOCSY), and nuclear Overhauser effect (NOESY) spectra. The final structures were computed by using restrained molecular dynamics on the basis of 1316 upper-limit distance constraints derived from NOE cross-correlation intensities. The computed structures exhibited a root-mean-square deviation (RMSD) radius of 0.66 A for the backbone and 1.16 A for the side-chain heavy atoms of the structural core. The resulting structure consists of five amphipathic helices arranged in a right-handed super helix, a folding motif found in other proteins of the prolamin superfamily. As in the case of the mature protein, the recombinant precursor behaves as a plant food allergen. To trace out the origin and characteristics of its allergenic properties, rproBnIb was assayed against simulated gastric fluid and found to be very resistant to proteolysis. Also, heat treatment of the protein followed up to 85 degrees C by circular dichroism showed a very limited unfolding, which was recovered after cooling to 20 degrees C, indicating a high thermal stability. These results suggest that rproBnIb, as other 2S albumins, may be able to reach the gut immune system intact. A comparison of the putative epitopes against IgE antibodies of the three members of the prolamine family [2S albumins, nonspecific lipid transfer proteins (nsLTPs), and alpha-amylase/trypsin inhibitors] indicates that there are not common surfaces of interaction with IgE. Though the epitopes appear to be located in different regions of the proteins, they do comply with the requirements of being solvent-exposed and flexible.

Solution structure and stability against digestion of rproBnIb, a recombinant 2S albumin from rapeseed: relationship to its allergenic properties.,Pantoja-Uceda D, Palomares O, Bruix M, Villalba M, Rodriguez R, Rico M, Santoro J Biochemistry. 2004 Dec 28;43(51):16036-45. PMID:15609998^[1]

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

References

↑ Pantoja-Uceda D, Palomares O, Bruix M, Villalba M, Rodriguez R, Rico M, Santoro J. Solution structure and stability against digestion of rproBnIb, a recombinant 2S albumin from rapeseed: relationship to its allergenic properties. Biochemistry. 2004 Dec 28;43(51):16036-45. PMID:15609998 doi:http://dx.doi.org/10.1021/bi048069x

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1sm7"

@@ Line 1: / Line 1: @@
 ==Solution structure of the recombinant pronapin precursor, BnIb.==
-<StructureSection load='1sm7' size='340' side='right' caption='[[1sm7]], [[NMR_Ensembles_of_Models | 19 NMR models]]' scene=''>
+<StructureSection load='1sm7' size='340' side='right'caption='[[1sm7]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1sm7]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Brassica_napus Brassica napus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SM7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1SM7 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1sm7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Brassica_napus Brassica napus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SM7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SM7 FirstGlance]. <br>
-</td></tr><tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1pnb|1pnb]]</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR, 19 models</td></tr>
-<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1sm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sm7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1sm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1sm7 PDBsum]</span></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=1sm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sm7 OCA], [https://pdbe.org/1sm7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1sm7 RCSB], [https://www.ebi.ac.uk/pdbsum/1sm7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1sm7 ProSAT]</span></td></tr>
-<table>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q8GT96_BRANA Q8GT96_BRANA]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/sm/1sm7_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/sm/1sm7_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
-</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1sm7 ConSurf].
 <div style="clear:both"></div>
 <div style="background-color:#fffaf0;">
@@ Line 24: / Line 27: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 1sm7" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
@@ Line 29: / Line 33: @@
 </StructureSection>
 [[Category: Brassica napus]]
-[[Category: Bruix, M.]]
+[[Category: Large Structures]]
-[[Category: Palomares, O.]]
+[[Category: Bruix M]]
-[[Category: Pantoja-Uceda, D.]]
+[[Category: Palomares O]]
-[[Category: Rico, M.]]
+[[Category: Pantoja-Uceda D]]
-[[Category: Rodriguez, R.]]
+[[Category: Rico M]]
-[[Category: Santoro, J.]]
+[[Category: Rodriguez R]]
-[[Category: Villalba, M.]]
+[[Category: Santoro J]]
-[[Category: All alpha-helix]]
+[[Category: Villalba M]]
-[[Category: Plant protein]]
-[[Category: Right-handed superhelix]]

1sm7

From Proteopedia

Current revision

Solution structure of the recombinant pronapin precursor, BnIb.

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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