This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


2b3b

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:15, 14 February 2024) (edit) (undo)
 
(13 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2b3b.gif|left|200px]]
 
-
{{Structure
+
==Thermus thermophilus Glucose/Galactose Binding Protein With Bound Glucose==
-
|PDB= 2b3b |SIZE=350|CAPTION= <scene name='initialview01'>2b3b</scene>, resolution 1.950&Aring;
+
<StructureSection load='2b3b' size='340' side='right'caption='[[2b3b]], [[Resolution|resolution]] 1.95&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=GLC:GLUCOSE'>GLC</scene> and <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>
+
<table><tr><td colspan='2'>[[2b3b]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB27 Thermus thermophilus HB27]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B3B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B3B FirstGlance]. <br>
-
|ACTIVITY=
+
</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>
-
|GENE= ttc0328 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</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=2b3b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b3b OCA], [https://pdbe.org/2b3b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b3b RCSB], [https://www.ebi.ac.uk/pdbsum/2b3b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b3b ProSAT]</span></td></tr>
-
 
+
</table>
-
'''Thermus thermophilus Glucose/Galactose Binding Protein With Bound Glucose'''
+
== Function ==
-
 
+
[https://www.uniprot.org/uniprot/Q72KX2_THET2 Q72KX2_THET2]
-
 
+
== Evolutionary Conservation ==
-
==Overview==
+
[[Image:Consurf_key_small.gif|200px|right]]
-
Periplasmic binding proteins (PBPs) comprise a protein superfamily that is involved in prokaryotic solute transport and chemotaxis. These proteins have been used to engineer reagentless biosensors to detect natural or non-natural ligands. There is considerable interest in obtaining very stable members of this superfamily from thermophilic bacteria to use as robust engineerable parts in biosensor development. Analysis of the recently determined genome sequence of Thermus thermophilus revealed the presence of more than 30 putative PBPs in this thermophile. One of these is annotated as a glucose binding protein (GBP) based on its genetic linkage to genes that are homologous to an ATP-binding cassette glucose transport system, although the PBP sequence is homologous to periplasmic maltose binding proteins (MBPs). Here we present the cloning, over-expression, characterization of cognate ligands, and determination of the X-ray crystal structure of this gene product. We find that it is a very stable (apo-protein Tm value is 100(+/- 2) degrees C; complexes 106(+/- 3) degrees C and 111(+/- 1) degrees C for glucose and galactose, respectively) glucose (Kd value is 0.08(+/- 0.03) microM) and galactose (Kd value is 0.94(+/- 0.04) microM) binding protein. Determination of the X-ray crystal structure revealed that this T. thermophilus glucose binding protein (ttGBP) is structurally homologous to MBPs rather than other GBPs. The di or tri-saccharide ligands in MBPs are accommodated in long relatively shallow grooves. In the ttGBP binding site, this groove is partially filled by two loops and an alpha-helix, which create a buried binding site that allows binding of only monosaccharides. Comparison of ttGBP and MBP provides a clear example of structural adaptations by which the size of ligand binding sites can be controlled in the PBP super family.
+
Check<jmol>
-
 
+
<jmolCheckbox>
-
==About this Structure==
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b3/2b3b_consurf.spt"</scriptWhenChecked>
-
2B3B is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B3B OCA].
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
 
+
<text>to colour the structure by Evolutionary Conservation</text>
-
==Reference==
+
</jmolCheckbox>
-
The crystal structure of a thermophilic glucose binding protein reveals adaptations that interconvert mono and di-saccharide binding sites., Cuneo MJ, Changela A, Warren JJ, Beese LS, Hellinga HW, J Mol Biol. 2006 Sep 15;362(2):259-70. Epub 2006 Aug 10. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16904687 16904687]
+
</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=2b3b ConSurf].
-
[[Category: Single protein]]
+
<div style="clear:both"></div>
-
[[Category: Thermus thermophilus]]
+
__TOC__
-
[[Category: Beese, L S.]]
+
</StructureSection>
-
[[Category: Changela, A.]]
+
[[Category: Large Structures]]
-
[[Category: Cuneo, M J.]]
+
[[Category: Thermus thermophilus HB27]]
-
[[Category: Hellinga, H W.]]
+
[[Category: Beese LS]]
-
[[Category: Warren, J J.]]
+
[[Category: Changela A]]
-
[[Category: BGC]]
+
[[Category: Cuneo MJ]]
-
[[Category: GLC]]
+
[[Category: Hellinga HW]]
-
[[Category: galactose]]
+
[[Category: Warren JJ]]
-
[[Category: glucose]]
+
-
[[Category: periplasmic binding protein]]
+
-
[[Category: protein-carbohydrate complex]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:57:01 2008''
+

Current revision

Thermus thermophilus Glucose/Galactose Binding Protein With Bound Glucose

PDB ID 2b3b

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2b3b"
Personal tools