1ue3
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 1ue3 |SIZE=350|CAPTION= <scene name='initialview01'>1ue3</scene>, resolution 2.15Å | |PDB= 1ue3 |SIZE=350|CAPTION= <scene name='initialview01'>1ue3</scene>, resolution 2.15Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene> | + | |LIGAND= <scene name='pdbligand=CL:CHLORIDE+ION'>CL</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=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE+ION'>NCO</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1ue2|1UE2]], [[1ue4|1UE4]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ue3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ue3 OCA], [http://www.ebi.ac.uk/pdbsum/1ue3 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ue3 RCSB]</span> | ||
}} | }} | ||
| Line 27: | Line 30: | ||
[[Category: Takenaka, A.]] | [[Category: Takenaka, A.]] | ||
[[Category: Watanabe, K.]] | [[Category: Watanabe, K.]] | ||
| - | [[Category: CL]] | ||
| - | [[Category: MG]] | ||
| - | [[Category: NCO]] | ||
[[Category: base-intercalated duplex]] | [[Category: base-intercalated duplex]] | ||
[[Category: dna]] | [[Category: dna]] | ||
| Line 36: | Line 36: | ||
[[Category: zipper-like duplex]] | [[Category: zipper-like duplex]] | ||
| - | ''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 00:09:04 2008'' |
Revision as of 21:09, 30 March 2008
| |||||||
| , resolution 2.15Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , , | ||||||
| Related: | 1UE2, 1UE4
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of d(GCGAAAGC) containing hexaamminecobalt
Overview
A DNA fragment d(GCGAAAGC), postulated to adopt a stable mini-hairpin structure on the basis of its extraordinary properties, has been X-ray analyzed. Two octamers related by a crystallographic twofold symmetry are aligned in an antiparallel fashion and associate to form a duplex, which is maintained by two Watson-Crick G.C base pairs and a subsequent sheared G.A pair at both ends. The central two A residues are free from base-pair formation. The corresponding base moieties of the two strands are intercalated and stacked on each other, forming a long column of G(1)-C(2)-G(3)-A(4)-A(5)(*)-A(5)-A(4)(*)-G(3)(*)-C(2)(*)-G(1)(*) (asterisks indicate the counter-strand). The Watson-Crick and major-groove sites of the four stacked adenine bases are exposed to the solvent region, suggesting a functional role. Since this structural motif is similar to those found in the nonamers d(G(Br)CGAAAGCT) and d(G(I)CGAAAGCT), the base-intercalated duplex may be a stable form of the specific sequence. Electrophoresis results suggest that the octamer has two states, monomeric and dimeric, in solution depending on the Mg(2+) concentration. The present duplex is preferred under the crystallization conditions, which correspond to physiologically allowed conditions.
About this Structure
1UE3 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Structure of d(GCGAAAGC) (hexagonal form): a base-intercalated duplex as a stable structure., Sunami T, Kondo J, Hirao I, Watanabe K, Miura KI, Takenaka A, Acta Crystallogr D Biol Crystallogr. 2004 Jan;60(Pt 1):90-6. Epub 2003 Dec, 18. PMID:14684897
Page seeded by OCA on Mon Mar 31 00:09:04 2008
