1o55
From Proteopedia
(New page: 200px<br /><applet load="1o55" size="450" color="white" frame="true" align="right" spinBox="true" caption="1o55, resolution 1.040Å" /> '''MOLECULAR STRUCTURE...) |
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| - | [[Image:1o55.gif|left|200px]]<br /><applet load="1o55" size=" | + | [[Image:1o55.gif|left|200px]]<br /><applet load="1o55" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1o55, resolution 1.040Å" /> | caption="1o55, resolution 1.040Å" /> | ||
'''MOLECULAR STRUCTURE OF TWO CRYSTAL FORMS OF CYCLIC TRIADENYLIC ACID AT 1 ANGSTROM RESOLUTION'''<br /> | '''MOLECULAR STRUCTURE OF TWO CRYSTAL FORMS OF CYCLIC TRIADENYLIC ACID AT 1 ANGSTROM RESOLUTION'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The three dimensional structures of cyclic deoxytriadenylic acid, c-d(ApApAp), from two different trigonal crystal forms (space groups P3 | + | The three dimensional structures of cyclic deoxytriadenylic acid, c-d(ApApAp), from two different trigonal crystal forms (space groups P3 and R32) have been determined by x-ray diffraction analysis at 1A resolution. Both structures were solved by direct methods and refined by anisotropic least squares refinement to R-factors of 0.109 and 0.137 for the P3 and R32 forms, respectively. In both crystal forms, each of the two independent c-d(ApApAp) molecules sits on the crystallographic 3-fold axis. All four independent c-d(ApApAp) molecules have similar backbone conformations. The deoxyriboses are in the S-type pucker with pseudorotation angles ranging from 156.7 degrees to 168.6 degrees and the bases have anti glycosyl torsion angles (chi falling in two ranges, one at -104.3 degrees and the other ranging from -141.0 degrees to -143.8 degrees). In the R32 form, a hexahydrated cobalt(II) ion is found to coordinate through bridging water molecules to N1, N3, and N7 atoms of three adjacent adenines and oxygen atoms of phosphates. Comparison with other structures of cyclic oligonucleotides indicates that the sugar adopts N-type pucker in cyclic dinucleotides and S-type pucker in cyclic trinucleotides, regardless whether the sugar is a ribose or a deoxyribose. |
==About this Structure== | ==About this Structure== | ||
| - | 1O55 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with CO as [http://en.wikipedia.org/wiki/ligand ligand]. This structure | + | 1O55 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=CO:'>CO</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. This structure supersedes the now removed PDB entry 415D. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O55 OCA]. |
==Reference== | ==Reference== | ||
Molecular structure of two crystal forms of cyclic triadenylic acid at 1A resolution., Gao YG, Robinson H, Guan Y, Liaw YC, van Boom JH, van der Marel GA, Wang AH, J Biomol Struct Dyn. 1998 Aug;16(1):69-76. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9745896 9745896] | Molecular structure of two crystal forms of cyclic triadenylic acid at 1A resolution., Gao YG, Robinson H, Guan Y, Liaw YC, van Boom JH, van der Marel GA, Wang AH, J Biomol Struct Dyn. 1998 Aug;16(1):69-76. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9745896 9745896] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Boom, J | + | [[Category: Boom, J H.van.]] |
| - | [[Category: Gao, Y | + | [[Category: Gao, Y G.]] |
[[Category: Guan, Y.]] | [[Category: Guan, Y.]] | ||
| - | [[Category: Liaw, Y | + | [[Category: Liaw, Y C.]] |
| - | [[Category: Marel, G | + | [[Category: Marel, G A.van der.]] |
[[Category: Robinson, H.]] | [[Category: Robinson, H.]] | ||
| - | [[Category: Wang, A | + | [[Category: Wang, A H.]] |
[[Category: CO]] | [[Category: CO]] | ||
[[Category: cyclic trinucleotide]] | [[Category: cyclic trinucleotide]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:13:37 2008'' |
Revision as of 12:13, 21 February 2008
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MOLECULAR STRUCTURE OF TWO CRYSTAL FORMS OF CYCLIC TRIADENYLIC ACID AT 1 ANGSTROM RESOLUTION
Overview
The three dimensional structures of cyclic deoxytriadenylic acid, c-d(ApApAp), from two different trigonal crystal forms (space groups P3 and R32) have been determined by x-ray diffraction analysis at 1A resolution. Both structures were solved by direct methods and refined by anisotropic least squares refinement to R-factors of 0.109 and 0.137 for the P3 and R32 forms, respectively. In both crystal forms, each of the two independent c-d(ApApAp) molecules sits on the crystallographic 3-fold axis. All four independent c-d(ApApAp) molecules have similar backbone conformations. The deoxyriboses are in the S-type pucker with pseudorotation angles ranging from 156.7 degrees to 168.6 degrees and the bases have anti glycosyl torsion angles (chi falling in two ranges, one at -104.3 degrees and the other ranging from -141.0 degrees to -143.8 degrees). In the R32 form, a hexahydrated cobalt(II) ion is found to coordinate through bridging water molecules to N1, N3, and N7 atoms of three adjacent adenines and oxygen atoms of phosphates. Comparison with other structures of cyclic oligonucleotides indicates that the sugar adopts N-type pucker in cyclic dinucleotides and S-type pucker in cyclic trinucleotides, regardless whether the sugar is a ribose or a deoxyribose.
About this Structure
1O55 is a Protein complex structure of sequences from [1] with as ligand. This structure supersedes the now removed PDB entry 415D. Full crystallographic information is available from OCA.
Reference
Molecular structure of two crystal forms of cyclic triadenylic acid at 1A resolution., Gao YG, Robinson H, Guan Y, Liaw YC, van Boom JH, van der Marel GA, Wang AH, J Biomol Struct Dyn. 1998 Aug;16(1):69-76. PMID:9745896
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