118d

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[[Image:118d.gif|left|200px]]
[[Image:118d.gif|left|200px]]
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{{Structure
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|PDB= 118d |SIZE=350|CAPTION= <scene name='initialview01'>118d</scene>, resolution 1.640&Aring;
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The line below this paragraph, containing "STRUCTURE_118d", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>
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{{STRUCTURE_118d| PDB=118d | SCENE= }}
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=118d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=118d OCA], [http://www.ebi.ac.uk/pdbsum/118d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=118d RCSB]</span>
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'''CRYSTAL AND MOLECULAR STRUCTURE OF D(GTGCGCAC): INVESTIGATION OF THE EFFECTS OF BASE SEQUENCE ON THE CONFORMATION OF OCTAMER DUPLEXES'''
'''CRYSTAL AND MOLECULAR STRUCTURE OF D(GTGCGCAC): INVESTIGATION OF THE EFFECTS OF BASE SEQUENCE ON THE CONFORMATION OF OCTAMER DUPLEXES'''
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==About this Structure==
==About this Structure==
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118D 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=118D OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=118D OCA].
==Reference==
==Reference==
Crystal and molecular structure of d(GTGCGCAC): investigation of the effects of base sequence on the conformation of octamer duplexes., Bingman C, Li X, Zon G, Sundaralingam M, Biochemistry. 1992 Dec 29;31(51):12803-12. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/1463751 1463751]
Crystal and molecular structure of d(GTGCGCAC): investigation of the effects of base sequence on the conformation of octamer duplexes., Bingman C, Li X, Zon G, Sundaralingam M, Biochemistry. 1992 Dec 29;31(51):12803-12. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/1463751 1463751]
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[[Category: Protein complex]]
 
[[Category: Bingman, C.]]
[[Category: Bingman, C.]]
[[Category: Li, X.]]
[[Category: Li, X.]]
[[Category: Sundaralingam, M.]]
[[Category: Sundaralingam, M.]]
[[Category: Zon, G.]]
[[Category: Zon, G.]]
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[[Category: a-dna]]
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[[Category: A-dna]]
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[[Category: double helix]]
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[[Category: Double helix]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 09:26:55 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 18:27:02 2008''
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Revision as of 06:26, 2 May 2008

Image:118d.gif

Template:STRUCTURE 118d

CRYSTAL AND MOLECULAR STRUCTURE OF D(GTGCGCAC): INVESTIGATION OF THE EFFECTS OF BASE SEQUENCE ON THE CONFORMATION OF OCTAMER DUPLEXES


Overview

The structure of the self-complementary deoxyoctanucleotide d(GTGCGCAC), which crystallized as an A-type helix in the space group P4(3)2(1)2, with one strand in the crystallographic asymmetric unit has been determined and refined to a final R-value of 0.154 using 1.64-A diffraction data collected on an area detector. In contrast to the closely related sequence d(GTGTACAC)tet, there was no evidence for an ordered spermine molecule in the major groove of this octamer. Ordered water is found associated with almost all the exposed hydrogen bonding groups of the octamer. A pentagonal ring of water molecules is hydrogen bonded to O6 and N7 of G3 and the N4 and O6 of the C4.G13 base pair. A detailed comparison of the local helical parameters of d(GTGCGCAC) and d(GTGTACAC)tet is presented. The base sequence change at the center of the octamers affects several of the local helical parameters, via both intra- and interduplex interactions within the crystal.

About this Structure

Full crystallographic information is available from OCA.

Reference

Crystal and molecular structure of d(GTGCGCAC): investigation of the effects of base sequence on the conformation of octamer duplexes., Bingman C, Li X, Zon G, Sundaralingam M, Biochemistry. 1992 Dec 29;31(51):12803-12. PMID:1463751 Page seeded by OCA on Fri May 2 09:26:55 2008

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