1ehl
From Proteopedia
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| - | [[Image:1ehl.gif|left|200px]] | + | [[Image:1ehl.gif|left|200px]] |
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| - | '''64M-2 ANTIBODY FAB COMPLEXED WITH D(5HT)(6-4)T''' | + | {{Structure |
| + | |PDB= 1ehl |SIZE=350|CAPTION= <scene name='initialview01'>1ehl</scene>, resolution 2.4Å | ||
| + | |SITE= | ||
| + | |LIGAND= | ||
| + | |ACTIVITY= | ||
| + | |GENE= | ||
| + | }} | ||
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| + | '''64M-2 ANTIBODY FAB COMPLEXED WITH D(5HT)(6-4)T''' | ||
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==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 1EHL is a [ | + | 1EHL is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EHL OCA]. |
==Reference== | ==Reference== | ||
| - | Crystal structure of the 64M-2 antibody Fab fragment in complex with a DNA dT(6-4)T photoproduct formed by ultraviolet radiation., Yokoyama H, Mizutani R, Satow Y, Komatsu Y, Ohtsuka E, Nikaido O, J Mol Biol. 2000 Jun 9;299(3):711-23. PMID:[http:// | + | Crystal structure of the 64M-2 antibody Fab fragment in complex with a DNA dT(6-4)T photoproduct formed by ultraviolet radiation., Yokoyama H, Mizutani R, Satow Y, Komatsu Y, Ohtsuka E, Nikaido O, J Mol Biol. 2000 Jun 9;299(3):711-23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10835279 10835279] |
[[Category: Mus musculus]] | [[Category: Mus musculus]] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
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[[Category: protein-dna complex]] | [[Category: protein-dna complex]] | ||
| - | ''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 10:55:46 2008'' |
Revision as of 08:55, 20 March 2008
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| Coordinates: | save as pdb, mmCIF, xml | ||||||
64M-2 ANTIBODY FAB COMPLEXED WITH D(5HT)(6-4)T
Overview
DNA photoproducts with (6-4) pyrimidine-pyrimidone adducts formed by ultraviolet radiation are implicated in mutagenesis and cancer, particularly skin cancer. The crystal structure of the Fab fragment of the murine 64M-2 antibody specific to DNA T(6-4)T photoproducts is determined as a complex with dT(6-4)T, a (6-4) pyrimidine-pyrimidone photodimer of dTpT, at 2.4 A resolution to a crystallographic R-factor of 0.199 and an R(free) value of 0.279. The 64M-2 Fab molecule is in an extended arrangement with an elbow angle of 174 degrees, and its five complementarity-determining regions, except L2, are involved in the ligand binding. The bound dT(6-4)T ligand adopting a ring structure with (6-4) linked 5' thymine-3' pyrimidone bases is fully accommodated in an antigen-binding pocket of about 15 Ax10 A. The 5'-thymine and 3'-pyrimidone bases are in half-chair and planar conformations, respectively, and are nearly perpendicular to each other. The 5'-thymine base is hydrogen-bonded to Arg95H and Ser96H, and is in van der Waals contact with Tyr100iH. The 3'-pyrimidone base is hydrogen-bonded to His35H, and is in contact with Trp33H. Three water molecules are located at the interface between the bases and the Fab residues. Hydrogen bonds involving these water molecules also contribute to Fab recognition of the dT(6-4)T bases. The sugar-phosphate backbone connecting the bases is surrounded by residues His27dL, Tyr32L, Ser92L, Trp33H, and Ser58H, but is not hydrogen-bonded to these residues.
About this Structure
1EHL is a Protein complex structure of sequences from Mus musculus. Full crystallographic information is available from OCA.
Reference
Crystal structure of the 64M-2 antibody Fab fragment in complex with a DNA dT(6-4)T photoproduct formed by ultraviolet radiation., Yokoyama H, Mizutani R, Satow Y, Komatsu Y, Ohtsuka E, Nikaido O, J Mol Biol. 2000 Jun 9;299(3):711-23. PMID:10835279
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