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.


1kaf

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1kaf" size="450" color="white" frame="true" align="right" spinBox="true" caption="1kaf, resolution 1.6&Aring;" /> '''DNA Binding Domain Of...)
Current revision (08:41, 22 May 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1kaf.gif|left|200px]]<br /><applet load="1kaf" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1kaf, resolution 1.6&Aring;" />
 
-
'''DNA Binding Domain Of The Phage T4 Transcription Factor MotA (AA105-211)'''<br />
 
-
==Overview==
+
==DNA Binding Domain Of The Phage T4 Transcription Factor MotA (AA105-211)==
-
MotA is a transcription factor from bacteriophage T4 that helps adapt the, host Escherichia coli transcription apparatus to T4 middle promoters. We, have determined the crystal structure of the C-terminal DNA-binding domain, of MotA (MotCF) to 1.6 A resolution using multiwavelength, anomalous, diffraction methods. The structure reveals a novel DNA-binding alpha/beta, motif that contains an exposed beta-sheet surface that mediates, interactions with the DNA. Independent biochemical experiments have shown, that MotCF binds to one surface of a single turn of DNA through, interactions in adjacent major and minor grooves. We present a model of, the interaction in which beta-ribbons at opposite corners of the, six-stranded beta-sheet penetrate the DNA grooves, and call the motif a, 'double wing' to emphasize similarities to the 'winged-helix' motif. The, model is consistent with data on how MotA functions at middle promoters, and provides an explanation for why MotA can form non-specific multimers, on DNA.
+
<StructureSection load='1kaf' size='340' side='right'caption='[[1kaf]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1kaf]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KAF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KAF 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]] 1.6&#8491;</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=1kaf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kaf OCA], [https://pdbe.org/1kaf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kaf RCSB], [https://www.ebi.ac.uk/pdbsum/1kaf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kaf ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/MOTA_BPT4 MOTA_BPT4] Required for the transcriptional activation of middle promoters. Middle promoters are characterized by the presence of the conserved sequence [AT]3TGCTTNA (MotA box). MotA binds directly to MotA boxes.
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
MotA is a transcription factor from bacteriophage T4 that helps adapt the host Escherichia coli transcription apparatus to T4 middle promoters. We have determined the crystal structure of the C-terminal DNA-binding domain of MotA (MotCF) to 1.6 A resolution using multiwavelength, anomalous diffraction methods. The structure reveals a novel DNA-binding alpha/beta motif that contains an exposed beta-sheet surface that mediates interactions with the DNA. Independent biochemical experiments have shown that MotCF binds to one surface of a single turn of DNA through interactions in adjacent major and minor grooves. We present a model of the interaction in which beta-ribbons at opposite corners of the six-stranded beta-sheet penetrate the DNA grooves, and call the motif a 'double wing' to emphasize similarities to the 'winged-helix' motif. The model is consistent with data on how MotA functions at middle promoters, and provides an explanation for why MotA can form non-specific multimers on DNA.
-
==About this Structure==
+
The MotA transcription factor from bacteriophage T4 contains a novel DNA-binding domain: the 'double wing' motif.,Li N, Sickmier EA, Zhang R, Joachimiak A, White SW Mol Microbiol. 2002 Mar;43(5):1079-88. PMID:11918797<ref>PMID:11918797</ref>
-
1KAF is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacteriophage_t4 Bacteriophage t4]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1KAF OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
The MotA transcription factor from bacteriophage T4 contains a novel DNA-binding domain: the 'double wing' motif., Li N, Sickmier EA, Zhang R, Joachimiak A, White SW, Mol Microbiol. 2002 Mar;43(5):1079-88. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11918797 11918797]
+
</div>
-
[[Category: Bacteriophage t4]]
+
<div class="pdbe-citations 1kaf" style="background-color:#fffaf0;"></div>
-
[[Category: Single protein]]
+
== References ==
-
[[Category: Joachimiak, A.]]
+
<references/>
-
[[Category: Li, N.]]
+
__TOC__
-
[[Category: Sickmier, E.A.]]
+
</StructureSection>
-
[[Category: White, S.W.]]
+
[[Category: Escherichia virus T4]]
-
[[Category: Zhang, R.]]
+
[[Category: Large Structures]]
-
[[Category: escherichia coli; x-ray crystallography; protein-dna interactions; structural genomics; eubacterial promoters.]]
+
[[Category: Joachimiak A]]
-
 
+
[[Category: Li N]]
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 19:00:00 2007''
+
[[Category: Sickmier EA]]
 +
[[Category: White SW]]
 +
[[Category: Zhang R]]

Current revision

DNA Binding Domain Of The Phage T4 Transcription Factor MotA (AA105-211)

PDB ID 1kaf

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/1kaf"
Personal tools