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| - | [[Image:1ana.jpg|left|200px]] | |
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| - | {{Structure
| + | ==HELIX GEOMETRY AND HYDRATION IN AN A-DNA TETRAMER. IC-C-G-G== |
| - | |PDB= 1ana |SIZE=350|CAPTION= <scene name='initialview01'>1ana</scene>, resolution 2.000Å
| + | <StructureSection load='1ana' size='340' side='right'caption='[[1ana]], [[Resolution|resolution]] 2.00Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND=
| + | <table><tr><td colspan='2'>[[1ana]] is a 2 chain structure. The November 2001 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA'' by David S. Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2001_11 10.2210/rcsb_pdb/mom_2001_11]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ANA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ANA 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]] 2Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C38:5-IODO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>C38</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=1ana FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ana OCA], [https://pdbe.org/1ana PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ana RCSB], [https://www.ebi.ac.uk/pdbsum/1ana PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ana ProSAT]</span></td></tr> |
| - | | + | </table> |
| - | '''HELIX GEOMETRY AND HYDRATION IN AN A-DNA TETRAMER. IC-C-G-G'''
| + | __TOC__ |
| - | | + | </StructureSection> |
| - | | + | |
| - | ==Overview== | + | |
| - | The DNA oligomer of sequence IC-C-G-G has been synthesized, and its X-ray crystal structure solved at a resolution of 2.0 A, using anomalous scattering from iodines in phase analysis: 48 cycles of Jack-Levitt restrained least-squares refinement resulted in a residual error of 19.9% over all data, or 16.5% for two-sigma data. Two double-helical tetramers stack in the crystal to form a continuous octamer, except for the two missing phosphate connections across the center. The octamer has a mean helix rotation of 33.7 degrees (10.7 base-pairs per turn), rise of 2.87 A, mean inclination angle of base-pairs of 14 degrees, and mean base-pair propeller twist of +16.3 degrees. Local variations in both helix rotation and base plane roll angles, including those across the center of the octamer, are as predicted from base sequence by sum functions sigma 1 and sigma 2. The three known DNA octamers: IC-C-G-G/IC-C-G-G, G-G-T-A-T-A-C-C and G-G-C-C-G-G-C-C, make up a graded series in this order, with monotonically changing structural parameters. An exhaustive comparison of torsion angle correlations among the known A helices confirms some structural expectations and reveals some new features. 86 water molecules have been located per double-helical IC-C-G-G tetramer (the asymmetric unit), of which 451/2 per tetramer lie within a first hydrogen-bonded shell of hydration. No ordered water structure is observed comparable to the minor groove spine of hydration in B-DNA.
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| - | ==About this Structure== | + | |
| - | 1ANA is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. The following page contains interesting information on the relation of 1ANA with [[http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb23_1.html DNA]]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ANA OCA].
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| - | ==Reference== | + | |
| - | Helix geometry and hydration in an A-DNA tetramer: IC-C-G-G., Conner BN, Yoon C, Dickerson JL, Dickerson RE, J Mol Biol. 1984 Apr 25;174(4):663-95. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/6726797 6726797]
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| | [[Category: DNA]] | | [[Category: DNA]] |
| - | [[Category: Protein complex]] | + | [[Category: Large Structures]] |
| - | [[Category: Conner, B N.]] | + | [[Category: RCSB PDB Molecule of the Month]] |
| - | [[Category: Dickerson, J L.]] | + | [[Category: Conner BN]] |
| - | [[Category: Dickerson, R E.]] | + | [[Category: Dickerson JL]] |
| - | [[Category: Yoon, C.]] | + | [[Category: Dickerson RE]] |
| - | [[Category: a-dna]] | + | [[Category: Yoon C]] |
| - | [[Category: double helix]]
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| - | [[Category: modified]]
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| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 09:59:51 2008''
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