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1zq3

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NMR Solution Structure of the Bicoid Homeodomain Bound to the Consensus DNA Binding Site TAATCC

Structural highlights

1zq3 is a 3 chain structure with sequence from Drosophila melanogaster. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Solution NMR
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

BCD_DROME Segment polarity protein that provides positional cues for the development of head and thoracic segments. Regulates the expression of zygotic genes, possibly through its homeodomain, and inhibits the activity of other maternal gene products. May also bind RNA. Interacts with Bin1 to repress transcription of bicoid target genes in the anterior tip of the embryo; a process known as retraction.

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

The solution structure of the homeodomain of the Drosophila morphogenic protein Bicoid (Bcd) complexed with a TAATCC DNA site is described. Bicoid is the only known protein that uses a homeodomain to regulate translation, as well as transcription, by binding to both RNA and DNA during early Drosophila development; in addition, the Bcd homeodomain can recognize an array of different DNA sites. The dual functionality and broad recognition capabilities signify that the Bcd homeodomain may possess unique structural/dynamic properties. Bicoid is the founding member of the K50 class of homeodomain proteins, containing a lysine residue at the critical 50th position (K50) of the homeodomain sequence, a residue required for DNA and RNA recognition; Bcd also has an arginine residue at the 54th position (R54), which is essential for RNA recognition. Bcd is the only known homeodomain with the K50/R54 combination of residues. The Bcd structure indicates that this homeodomain conforms to the conserved topology of the homeodomain motif, but exhibits a significant variation from other homeodomain structures at the end of helix 1. A key result is the observation that the side-chains of the DNA-contacting residues K50, N51 and R54 all show strong signs of flexibility in the protein-DNA interface. This finding is supportive of the adaptive-recognition theory of protein-DNA interactions.

The solution structure of the native K50 Bicoid homeodomain bound to the consensus TAATCC DNA-binding site.,Baird-Titus JM, Clark-Baldwin K, Dave V, Caperelli CA, Ma J, Rance M J Mol Biol. 2006 Mar 10;356(5):1137-51. Epub 2005 Dec 22. PMID:16406070^[1]

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

References

↑ Baird-Titus JM, Clark-Baldwin K, Dave V, Caperelli CA, Ma J, Rance M. The solution structure of the native K50 Bicoid homeodomain bound to the consensus TAATCC DNA-binding site. J Mol Biol. 2006 Mar 10;356(5):1137-51. Epub 2005 Dec 22. PMID:16406070 doi:10.1016/j.jmb.2005.12.007

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/1zq3"

@@ Line 1: / Line 1: @@
 ==NMR Solution Structure of the Bicoid Homeodomain Bound to the Consensus DNA Binding Site TAATCC==
-<StructureSection load='1zq3' size='340' side='right'caption='[[1zq3]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
+<StructureSection load='1zq3' size='340' side='right'caption='[[1zq3]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1zq3]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Drome Drome]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZQ3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZQ3 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1zq3]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZQ3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZQ3 FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">bcd ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 DROME])</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=1zq3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zq3 OCA], [https://pdbe.org/1zq3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zq3 RCSB], [https://www.ebi.ac.uk/pdbsum/1zq3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zq3 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/BCD_DROME BCD_DROME]] Segment polarity protein that provides positional cues for the development of head and thoracic segments. Regulates the expression of zygotic genes, possibly through its homeodomain, and inhibits the activity of other maternal gene products. May also bind RNA. Interacts with Bin1 to repress transcription of bicoid target genes in the anterior tip of the embryo; a process known as retraction.
+[https://www.uniprot.org/uniprot/BCD_DROME BCD_DROME] Segment polarity protein that provides positional cues for the development of head and thoracic segments. Regulates the expression of zygotic genes, possibly through its homeodomain, and inhibits the activity of other maternal gene products. May also bind RNA. Interacts with Bin1 to repress transcription of bicoid target genes in the anterior tip of the embryo; a process known as retraction.
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 32: / Line 32: @@
 __TOC__
 </StructureSection>
-[[Category: Drome]]
+[[Category: Drosophila melanogaster]]
 [[Category: Large Structures]]
-[[Category: Baird-Titus, J M]]
+[[Category: Baird-Titus JM]]
-[[Category: Clark-Baldwin, K]]
+[[Category: Clark-Baldwin K]]
-[[Category: Ma, J]]
+[[Category: Ma J]]
-[[Category: Rance, M]]
+[[Category: Rance M]]
-[[Category: Vrushank, D]]
+[[Category: Vrushank D]]
-[[Category: Dna-binding domain]]
-[[Category: Double helix]]
-[[Category: Helix-turn-helix]]
-[[Category: Homeodomain]]
-[[Category: K50]]
-[[Category: Protein-dna complex]]
-[[Category: Recognition helix]]
-[[Category: Transcription factor]]
-[[Category: Transcription-dna complex]]
-[[Category: Translational control]]

1zq3

From Proteopedia

Current revision

NMR Solution Structure of the Bicoid Homeodomain Bound to the Consensus DNA Binding Site TAATCC

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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