1d58: Difference between revisions

Revision as of 11:32, 20 March 2008

, resolution 1.700Å

Ligands:

Coordinates:

THE MOLECULAR STRUCTURE OF A 4'-EPIADRIAMYCIN COMPLEX WITH D(TGATCA) AT 1.7 ANGSTROM RESOLUTION-COMPARISON WITH THE STRUCTURE OF 4'-EPIADRIAMYCIN D(TGTACA) AND D(CGATCG) COMPLEXES

OverviewOverview

The structure of the complex between d(TGATCA) and the anthracycline 4'-epiadriamycin has been determined by crystallographic methods. The crystals are tetragonal, space group P4(1)2(1)2 with unit cell dimensions of a = 28.01, c = 52.95A. The asymmetric unit consists of one strand of hexanucleotide, one molecule of 4'-epiadriamycin and 34 waters. The R-factor is 20.2% for 1694 reflections with F greater than or equal to 2 sigma F to 1.7A. Two asymmetric units associate to generate a duplex complexed with two drug molecules at the d(TpG) steps of the duplex. The chromophore intercalates between these base pairs with the anthracycline amino-sugar positioned in the minor groove. The double helix is a distorted B-DNA type structure. Our structure determination of d(TGATCA) complexed to 4'-epiadriamycin allows for comparison with the previously reported structures of 4'-epiadriamycin bound to d(TGTACA) and to d(CGATCG). The three complexes are similar in gross features and the intercalation geometry is the same irrespective of whether a d(CpG) or d(TpG) sequence is involved. However, the orientation of the amino-sugar displays a dependence on the sequence adjacent to the intercalation site. The flexibility of this amino-sugar may help explain why this class of antibiotics displays a relative insensitivity to base sequence when they bind to DNA.

About this StructureAbout this Structure

1D58 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.

ReferenceReference

The molecular structure of a 4'-epiadriamycin complex with d(TGATCA) at 1.7A resolution: comparison with the structure of 4'-epiadriamycin d(TGTACA) and d(CGATCG) complexes., Langlois d'Estaintot B, Gallois B, Brown T, Hunter WN, Nucleic Acids Res. 1992 Jul 25;20(14):3561-6. PMID:1641324

Page seeded by OCA on Thu Mar 20 10:32:59 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-[[Image:1d58.gif|left|200px]]<br /><applet load="1d58" size="350" color="white" frame="true" align="right" spinBox="true"
+[[Image:1d58.gif|left|200px]]
-caption="1d58, resolution 1.700&Aring;" />
-'''THE MOLECULAR STRUCTURE OF A 4'-EPIADRIAMYCIN COMPLEX WITH D(TGATCA) AT 1.7 ANGSTROM RESOLUTION-COMPARISON WITH THE STRUCTURE OF 4'-EPIADRIAMYCIN D(TGTACA) AND D(CGATCG) COMPLEXES'''<br />
+ {{Structure
+|PDB= 1d58 |SIZE=350|CAPTION= <scene name='initialview01'>1d58</scene>, resolution 1.700&Aring;
+|SITE=
+|LIGAND= <scene name='pdbligand=DM6:4'-EPIDOXORUBICIN'>DM6</scene>
+|ACTIVITY=
+|GENE=
+}}
+'''THE MOLECULAR STRUCTURE OF A 4'-EPIADRIAMYCIN COMPLEX WITH D(TGATCA) AT 1.7 ANGSTROM RESOLUTION-COMPARISON WITH THE STRUCTURE OF 4'-EPIADRIAMYCIN D(TGTACA) AND D(CGATCG) COMPLEXES'''
 ==Overview==
@@ Line 7: / Line 16: @@
 ==About this Structure==
-D58 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=DM6:'>DM6</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D58 OCA].
+D58 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=1D58 OCA].
 ==Reference==
-The molecular structure of a 4'-epiadriamycin complex with d(TGATCA) at 1.7A resolution: comparison with the structure of 4'-epiadriamycin d(TGTACA) and d(CGATCG) complexes., Langlois d'Estaintot B, Gallois B, Brown T, Hunter WN, Nucleic Acids Res. 1992 Jul 25;20(14):3561-6. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=1641324 1641324]
+The molecular structure of a 4'-epiadriamycin complex with d(TGATCA) at 1.7A resolution: comparison with the structure of 4'-epiadriamycin d(TGTACA) and d(CGATCG) complexes., Langlois d'Estaintot B, Gallois B, Brown T, Hunter WN, Nucleic Acids Res. 1992 Jul 25;20(14):3561-6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/1641324 1641324]
 [[Category: Protein complex]]
 [[Category: Brown, T.]]
@@ Line 21: / Line 30: @@
 [[Category: right handed dna]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:13:08 2008''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 10:32:59 2008''