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.


2b5a

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:16, 14 February 2024) (edit) (undo)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2b5a.gif|left|200px]]
 
-
{{Structure
+
==C.BclI, Control Element of the BclI Restriction-Modification System==
-
|PDB= 2b5a |SIZE=350|CAPTION= <scene name='initialview01'>2b5a</scene>, resolution 1.543&Aring;
+
<StructureSection load='2b5a' size='340' side='right'caption='[[2b5a]], [[Resolution|resolution]] 1.54&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=ACY:ACETIC ACID'>ACY</scene>
+
<table><tr><td colspan='2'>[[2b5a]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_caldolyticus Bacillus caldolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B5A 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]] 1.543&#8491;</td></tr>
-
|GENE= bclIC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1394 Bacillus caldolyticus])
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</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=2b5a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5a OCA], [https://pdbe.org/2b5a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b5a RCSB], [https://www.ebi.ac.uk/pdbsum/2b5a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b5a ProSAT]</span></td></tr>
-
 
+
</table>
-
'''C.BclI, Control Element of the BclI Restriction-Modification System'''
+
== Evolutionary Conservation ==
-
 
+
[[Image:Consurf_key_small.gif|200px|right]]
-
 
+
Check<jmol>
-
==Overview==
+
<jmolCheckbox>
-
Protection from DNA invasion is afforded by restriction-modification systems in many bacteria. The efficiency of protection depends crucially on the relative expression levels of restriction versus methytransferase genes. This regulation is provided by a controller protein, named C protein. Studies of the Bcll system in E. coli suggest that C.Bcll functions as a negative regulator for M.Bcll expression, implying that it plays a role in defense against foreign DNA during virus infection. C.Bcll binds (Kd = 14.3 nM) to a 2-fold symmetric C box DNA sequence that overlaps with the putative -35 promoter region upstream of the bcllM and bcllC genes. The C.Bcll fold comprises five alpha helices: two helices form a helix-turn-helix motif, and the remaining three helices form the extensive dimer interface. The C.Bcll-DNA model proposed suggests that DNA bending might play an important role in gene regulation, and that Glu27 and Asp31 in C.Bcll might function critically in the regulation.
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b5/2b5a_consurf.spt"</scriptWhenChecked>
-
 
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
==About this Structure==
+
<text>to colour the structure by Evolutionary Conservation</text>
-
2B5A is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Bacillus_caldolyticus Bacillus caldolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5A OCA].
+
</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/main_output.php?pdb_ID=2b5a ConSurf].
-
==Reference==
+
<div style="clear:both"></div>
-
Crystal structure of the restriction-modification system control element C.Bcll and mapping of its binding site., Sawaya MR, Zhu Z, Mersha F, Chan SH, Dabur R, Xu SY, Balendiran GK, Structure. 2005 Dec;13(12):1837-47. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16338412 16338412]
+
__TOC__
-
[[Category: Bacillus caldolyticus]]
+
</StructureSection>
-
[[Category: Protein complex]]
+
[[Category: Large Structures]]
-
[[Category: Balendiran, G K.]]
+
[[Category: Balendiran GK]]
-
[[Category: Chan, S H.]]
+
[[Category: Chan SH]]
-
[[Category: Dabur, R.]]
+
[[Category: Dabur R]]
-
[[Category: Mersha, F.]]
+
[[Category: Mersha F]]
-
[[Category: Sawaya, M R.]]
+
[[Category: Sawaya MR]]
-
[[Category: Xu, S Y.]]
+
[[Category: Xu SY]]
-
[[Category: Zhu, Z.]]
+
[[Category: Zhu Z]]
-
[[Category: ACY]]
+
-
[[Category: helix-turn-helix motif]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:57:46 2008''
+

Current revision

C.BclI, Control Element of the BclI Restriction-Modification System

PDB ID 2b5a

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/2b5a"
Personal tools