1jkq

From Proteopedia

(Difference between revisions)

Current revision

Testing the Water-Mediated HIN Recombinase DNA Recognition by Systematic Mutations

Structural highlights

1jkq is a 3 chain structure with sequence from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.86Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

HIN_SALTY A DNA fragment of approximately 900 base pairs, adjacent to the fljB (H2) gene, which specifies the synthesis of phase-2 flagellin, can exist in either orientation with respect to fljB. The orientation of the inversion region controls expression of fljB. The hin gene occupies about two-thirds of the inversion region; it is required for the inversion of the fljB controlling region.

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 Hin recombinase specifically recognizes its DNA-binding site by means of both major and minor groove interactions. A previous X-ray structure, together with new structures of the Hin DNA-binding domain bound to a recombination half-site that were solved as part of the present study, have revealed that two ordered water molecules are present within the major groove interface. In this report, we test the importance of these waters directly by X-ray crystal structure analysis of complexes with four mutant DNA sequences. These structures, combined with their Hin-binding properties, provide strong support for the critical importance of one of the intermediate waters. A lesser but demonstrable role is ascribed to the second water molecule. The mutant structures also illustrate the prominent roles of thymine methyls both in stabilizing intermediate waters and in interfering with water or amino acid side chain interactions with DNA.

Testing water-mediated DNA recognition by the Hin recombinase.,Chiu TK, Sohn C, Dickerson RE, Johnson RC EMBO J. 2002 Feb 15;21(4):801-14. PMID:11847127^[1]

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

References

↑ Chiu TK, Sohn C, Dickerson RE, Johnson RC. Testing water-mediated DNA recognition by the Hin recombinase. EMBO J. 2002 Feb 15;21(4):801-14. PMID:11847127 doi:http://dx.doi.org/10.1093/emboj/21.4.801

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1jkq"

@@ Line 1: / Line 1: @@
 ==Testing the Water-Mediated HIN Recombinase DNA Recognition by Systematic Mutations==
-<StructureSection load='1jkq' size='340' side='right' caption='[[1jkq]], [[Resolution|resolution]] 2.86&Aring;' scene=''>
+<StructureSection load='1jkq' size='340' side='right'caption='[[1jkq]], [[Resolution|resolution]] 2.86&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1jkq]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JKQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JKQ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1jkq]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium_str._LT2 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JKQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JKQ FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1hcr|1hcr]], [[1ijw|1ijw]], [[1jj6|1jj6]], [[1jj8|1jj8]], [[1jko|1jko]], [[1jkp|1jkp]], [[1jkr|1jkr]]</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.86&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1jkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jkq OCA], [http://pdbe.org/1jkq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1jkq RCSB], [http://www.ebi.ac.uk/pdbsum/1jkq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1jkq ProSAT]</span></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=1jkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jkq OCA], [https://pdbe.org/1jkq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jkq RCSB], [https://www.ebi.ac.uk/pdbsum/1jkq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jkq ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/HIN_SALTY HIN_SALTY]] A DNA fragment of approximately 900 base pairs, adjacent to the fljB (H2) gene, which specifies the synthesis of phase-2 flagellin, can exist in either orientation with respect to fljB. The orientation of the inversion region controls expression of fljB. The hin gene occupies about two-thirds of the inversion region; it is required for the inversion of the fljB controlling region.
+[https://www.uniprot.org/uniprot/HIN_SALTY HIN_SALTY] A DNA fragment of approximately 900 base pairs, adjacent to the fljB (H2) gene, which specifies the synthesis of phase-2 flagellin, can exist in either orientation with respect to fljB. The orientation of the inversion region controls expression of fljB. The hin gene occupies about two-thirds of the inversion region; it is required for the inversion of the fljB controlling region.
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 28: / Line 28: @@
 </div>
 <div class="pdbe-citations 1jkq" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Resolvase 3D structures|Resolvase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Chiu, T K]]
+[[Category: Large Structures]]
-[[Category: Dickerson, R E]]
+[[Category: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]]
-[[Category: Johnson, R C]]
+[[Category: Chiu TK]]
-[[Category: Sohn, C]]
+[[Category: Dickerson RE]]
-[[Category: Dna binding protein-dna complex]]
+[[Category: Johnson RC]]
-[[Category: G9t mutant]]
+[[Category: Sohn C]]
-[[Category: Hin recombinase]]
-[[Category: Protein-dna complex]]
-[[Category: Water-mediated recognition]]

1jkq

From Proteopedia

Current revision

Testing the Water-Mediated HIN Recombinase DNA Recognition by Systematic Mutations

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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