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New page: left|200px<br /> <applet load="1j59" size="450" color="white" frame="true" align="right" spinBox="true" caption="1j59, resolution 2.50Å" /> '''CATABOLITE GENE ACT...
 
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[[Image:1j59.gif|left|200px]]<br />
<applet load="1j59" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1j59, resolution 2.50&Aring;" />
'''CATABOLITE GENE ACTIVATOR PROTEIN (CAP)/DNA COMPLEX + ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE'''<br />


==Overview==
==CATABOLITE GENE ACTIVATOR PROTEIN (CAP)/DNA COMPLEX + ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE==
The crystallographic structure of the CAP-DNA complex at 3.0 A resolution, has been reported previously. For technical reasons, the reported, structure had been determined using a gapped DNA molecule lacking two, phosphates important for CAP-DNA interaction. In this work, we report the, crystallographic structure of the CAP-DNA complex at 2.5 A resolution, using a DNA molecule having all phosphates important for CAP-DNA, interaction. The present resolution permits unambiguous identification of, amino acid-base and amino acid-phosphate hydrogen bonded contacts in the, CAP-DNA complex. In addition, the present resolution permits accurate, definition of the kinked DNA conformation in the CAP-DNA complex.
<StructureSection load='1j59' size='340' side='right'caption='[[1j59]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1j59]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1ber 1ber]. The December 2003 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Catabolite Activator Protein''  by David S. Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2003_12 10.2210/rcsb_pdb/mom_2003_12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J59 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1J59 FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</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=1j59 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j59 OCA], [https://pdbe.org/1j59 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1j59 RCSB], [https://www.ebi.ac.uk/pdbsum/1j59 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1j59 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/CRP_ECOLI CRP_ECOLI] This protein complexes with cyclic AMP and binds to specific DNA sites near the promoter to regulate the transcription of several catabolite-sensitive operons. The protein induces a severe bend in the DNA. Acts as a negative regulator of its own synthesis as well as for adenylate cyclase (cyaA), which generates cAMP.<ref>PMID:2982847</ref>
== 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/j5/1j59_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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/main_output.php?pdb_ID=1j59 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The crystallographic structure of the CAP-DNA complex at 3.0 A resolution has been reported previously. For technical reasons, the reported structure had been determined using a gapped DNA molecule lacking two phosphates important for CAP-DNA interaction. In this work, we report the crystallographic structure of the CAP-DNA complex at 2.5 A resolution using a DNA molecule having all phosphates important for CAP-DNA interaction. The present resolution permits unambiguous identification of amino acid-base and amino acid-phosphate hydrogen bonded contacts in the CAP-DNA complex. In addition, the present resolution permits accurate definition of the kinked DNA conformation in the CAP-DNA complex.


==About this Structure==
Structure of the CAP-DNA complex at 2.5 angstroms resolution: a complete picture of the protein-DNA interface.,Parkinson G, Wilson C, Gunasekera A, Ebright YW, Ebright RE, Berman HM J Mol Biol. 1996 Jul 19;260(3):395-408. PMID:8757802<ref>PMID:8757802</ref>
1J59 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with CMP as [http://en.wikipedia.org/wiki/ligand ligand]. This structure superseeds the now removed PDB entry 1BER. The following page contains interesting information on the relation of 1J59 with [[http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb48_1.html Catabolite Activator Protein]]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1J59 OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
Structure of the CAP-DNA complex at 2.5 angstroms resolution: a complete picture of the protein-DNA interface., Parkinson G, Wilson C, Gunasekera A, Ebright YW, Ebright RE, Berman HM, J Mol Biol. 1996 Jul 19;260(3):395-408. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8757802 8757802]
</div>
<div class="pdbe-citations 1j59" style="background-color:#fffaf0;"></div>
 
==See Also==
*[[Catabolite gene activator protein 3D structures|Catabolite gene activator protein 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Catabolite Activator Protein]]
[[Category: Catabolite Activator Protein]]
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Berman, H.M.]]
[[Category: RCSB PDB Molecule of the Month]]
[[Category: Ebright, R.H.]]
[[Category: Berman HM]]
[[Category: Ebright, Y.W.]]
[[Category: Ebright RH]]
[[Category: Gunasekera, A.]]
[[Category: Ebright YW]]
[[Category: Parkinson, G.]]
[[Category: Gunasekera A]]
[[Category: Wilson, C.]]
[[Category: Parkinson G]]
[[Category: CMP]]
[[Category: Wilson C]]
[[Category: gene-regulatory]]
[[Category: protein-dna complex]]
 
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