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| - | [[Image:1egk.gif|left|200px]] | |
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| - | {{Structure
| + | ==CRYSTAL STRUCTURE OF A NUCLEIC ACID FOUR-WAY JUNCTION== |
| - | |PDB= 1egk |SIZE=350|CAPTION= <scene name='initialview01'>1egk</scene>, resolution 3.1Å
| + | <StructureSection load='1egk' size='340' side='right'caption='[[1egk]], [[Resolution|resolution]] 3.10Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=A:ADENOSINE-5'-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5'-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=DA:2'-DEOXYADENOSINE-5'-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene>
| + | <table><tr><td colspan='2'>[[1egk]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EGK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EGK 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]] 3.1Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr> |
| - | |DOMAIN=
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1egk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1egk OCA], [https://pdbe.org/1egk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1egk RCSB], [https://www.ebi.ac.uk/pdbsum/1egk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1egk ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=[[1br3|1BR3]]
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1egk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1egk OCA], [http://www.ebi.ac.uk/pdbsum/1egk PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1egk RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''CRYSTAL STRUCTURE OF A NUCLEIC ACID FOUR-WAY JUNCTION'''
| + | [[Category: Joyce GF]] |
| - | | + | [[Category: Nowakowski J]] |
| - | | + | [[Category: Shim PJ]] |
| - | ==Overview==
| + | [[Category: Stout CD]] |
| - | A crystal structure of a 108 nucleotide RNA-DNA complex containing a four-way junction was solved at 3.1 A resolution. The structure of the junction differs substantially from the "stacked-X" conformation observed previously, due to a 135 degrees rotation of the branches. Comparison of the two conformers provides insight into the factors contributing to the flexibility of four-way junctions. The stacked-X conformation maximizes base-stacking but causes unfavorable repulsion between phosphate groups, whereas the 135 degrees -rotated "crossed" conformation minimizes electrostatic clashes at the expense of reduced base-stacking. Despite the large rotation of the branches, both junction structures exhibit an antiparallel arrangement of the continuous strands and opposite polarity of the crossover strands.
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| - | | + | |
| - | ==About this Structure==
| + | |
| - | 1EGK is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EGK OCA].
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| - | | + | |
| - | ==Reference==
| + | |
| - | Alternative conformations of a nucleic acid four-way junction., Nowakowski J, Shim PJ, Stout CD, Joyce GF, J Mol Biol. 2000 Jun 30;300(1):93-102. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10864501 10864501]
| + | |
| - | [[Category: Protein complex]] | + | |
| - | [[Category: Joyce, G F.]] | + | |
| - | [[Category: Nowakowski, J.]] | + | |
| - | [[Category: Shim, P J.]] | + | |
| - | [[Category: Stout, C D.]] | + | |
| - | [[Category: 10-23 dna enzyme]]
| + | |
| - | [[Category: four-way junction]]
| + | |
| - | [[Category: nucleic acid]]
| + | |
| - | [[Category: ribozyme]]
| + | |
| - | [[Category: rna-dna complex]]
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| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 20:02:08 2008''
| + | |
