463d
From Proteopedia
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|PDB= 463d |SIZE=350|CAPTION= <scene name='initialview01'>463d</scene>, resolution 1.45Å | |PDB= 463d |SIZE=350|CAPTION= <scene name='initialview01'>463d</scene>, resolution 1.45Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=CA:CALCIUM ION'>CA</scene> | + | |LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</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> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=463d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=463d OCA], [http://www.ebi.ac.uk/pdbsum/463d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=463d RCSB]</span> | ||
}} | }} | ||
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[[Category: Liu, J.]] | [[Category: Liu, J.]] | ||
[[Category: Subirana, J A.]] | [[Category: Subirana, J A.]] | ||
| - | [[Category: CA]] | ||
[[Category: ca2+ binding]] | [[Category: ca2+ binding]] | ||
[[Category: dickerson-drew dodecamer]] | [[Category: dickerson-drew dodecamer]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:37:30 2008'' |
Revision as of 02:37, 31 March 2008
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| , resolution 1.45Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
CALCIUM FORM OF D(CGCGAATTCGCG)2
Overview
The dodecamer d(CGCGAATTCGCG) was the first oligonucleotide to be crystallized as a B-DNA duplex. Its structure was analyzed in detail in the early 1980s. Here we show that, in the presence of Ca(2+), it crystallizes in a different way (R3 space group). The dodecamers form parallel columns of straight duplexes with ten base pairs in the B form. The terminal cytosines in each molecule are disordered, whereas the terminal guanines are placed in the minor groove of neighbor duplexes. The central GAATTC region is practically identical to that found in the classic structure of the same dodecamer crystallized in the P2(1)2(1)2(1) space group in the presence of Mg(2+) and spermine. Its structure is thus independent of the crystallization conditions which have been used.
About this Structure
463D is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Structure of d(CGCGAATTCGCG) in the presence of Ca(2+) ions., Liu J, Subirana JA, J Biol Chem. 1999 Aug 27;274(35):24749-52. PMID:10455145
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