This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
331d
From Proteopedia
| Line 1: | Line 1: | ||
| - | [[Image:331d.gif|left|200px]] | + | [[Image:331d.gif|left|200px]] |
| - | + | ||
| - | '''CRYSTAL STRUCTURE OF D(GCGCGCG) WITH 5'-OVERHANG G'S''' | + | {{Structure |
| + | |PDB= 331d |SIZE=350|CAPTION= <scene name='initialview01'>331d</scene>, resolution 1.650Å | ||
| + | |SITE= | ||
| + | |LIGAND= <scene name='pdbligand=NCO:COBALT HEXAMMINE ION'>NCO</scene> | ||
| + | |ACTIVITY= | ||
| + | |GENE= | ||
| + | }} | ||
| + | |||
| + | '''CRYSTAL STRUCTURE OF D(GCGCGCG) WITH 5'-OVERHANG G'S''' | ||
| + | |||
==Overview== | ==Overview== | ||
| Line 7: | Line 16: | ||
==About this Structure== | ==About this Structure== | ||
| - | 331D is a [ | + | 331D 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=331D OCA]. |
==Reference== | ==Reference== | ||
| - | Crystal structure of d(GCGCGCG) with 5'-overhang G residues., Pan B, Ban C, Wahl MC, Sundaralingam M, Biophys J. 1997 Sep;73(3):1553-61. PMID:[http:// | + | Crystal structure of d(GCGCGCG) with 5'-overhang G residues., Pan B, Ban C, Wahl MC, Sundaralingam M, Biophys J. 1997 Sep;73(3):1553-61. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9284322 9284322] |
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Ban, C.]] | [[Category: Ban, C.]] | ||
| Line 22: | Line 31: | ||
[[Category: z-dna]] | [[Category: z-dna]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:54:40 2008'' |
Revision as of 16:54, 20 March 2008
| |||||||
| , resolution 1.650Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | |||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
CRYSTAL STRUCTURE OF D(GCGCGCG) WITH 5'-OVERHANG G'S
Overview
The crystal structure of the DNA heptamer d(GCGCGCG) has been solved at 1.65 A resolution by the molecular replacement method and refined to an R-value of 0.184 for 3598 reflections. The heptamer forms a Z-DNA d(CGCGCG)2 with 5'-overhang G residues instead of an A-DNA d(GCGCGC)2 with 3'-overhang G residues. The overhang G residues from parallel strands of two adjacent duplexes form a trans reverse Hoogsteen G x G basepair that stacks on the six Z-DNA basepairs to produce a pseudocontinuous helix. The reverse Hoogsteen G x G basepair is unusual in that the displacement of one G base relative to the other allows them to participate in a bifurcated (G1)N2 . . . N7(G8) and an enhanced (G8)C8-H . . . O6(G1) hydrogen bond, in addition to the two usual hydrogen bonds. The 5'-overhang G residues are anti and C2'-endo while the 3'-terminal G residues are syn and C2'-endo. The conformations of both G residues are different from the syn/C3'-endo for the guanosine in a standard Z-DNA. The two cobalt hexammine ions bind to the phosphate groups in both GpC and CpG steps in Z(I) and Z(II) conformations. The water structure motif is similar to the other Z-DNA structures.
About this Structure
331D is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Crystal structure of d(GCGCGCG) with 5'-overhang G residues., Pan B, Ban C, Wahl MC, Sundaralingam M, Biophys J. 1997 Sep;73(3):1553-61. PMID:9284322
Page seeded by OCA on Thu Mar 20 18:54:40 2008
Categories: Protein complex | Ban, C. | Pan, B. | Sundaralingam, M. | Wahl, M. | NCO | Double helix | Flipped-out base | Overhanging base | Z-dna
