1ztt
From Proteopedia
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|PDB= 1ztt |SIZE=350|CAPTION= <scene name='initialview01'>1ztt</scene>, resolution 1.85Å | |PDB= 1ztt |SIZE=350|CAPTION= <scene name='initialview01'>1ztt</scene>, resolution 1.85Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=NT:NETROPSIN'>NT</scene> | + | |LIGAND= <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>, <scene name='pdbligand=NT:NETROPSIN'>NT</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/RNA-directed_DNA_polymerase RNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.49 2.7.7.49] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-directed_DNA_polymerase RNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.49 2.7.7.49] </span> |
|GENE= POL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11801 Moloney murine leukemia virus]) | |GENE= POL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11801 Moloney murine leukemia virus]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1ztw|1ZTW]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ztt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ztt OCA], [http://www.ebi.ac.uk/pdbsum/1ztt PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ztt RCSB]</span> | ||
}} | }} | ||
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[[Category: Goodwin, K D.]] | [[Category: Goodwin, K D.]] | ||
[[Category: Long, E C.]] | [[Category: Long, E C.]] | ||
| - | [[Category: NT]] | ||
[[Category: drug-dna complex]] | [[Category: drug-dna complex]] | ||
[[Category: mmlv-rt]] | [[Category: mmlv-rt]] | ||
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[[Category: protein-dna complex]] | [[Category: protein-dna complex]] | ||
| - | ''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 01:41:32 2008'' |
Revision as of 22:41, 30 March 2008
| |||||||
| , resolution 1.85Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , | ||||||
| Gene: | POL (Moloney murine leukemia virus) | ||||||
| Activity: | RNA-directed DNA polymerase, with EC number 2.7.7.49 | ||||||
| Related: | 1ZTW
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Netropsin bound to d(CTTAATTCGAATTAAG) in complex with MMLV RT catalytic fragment
Overview
Netropsin is a well-characterized DNA minor groove binding compound that serves as a model for the study of drug-DNA interactions. Our laboratory has developed a novel host-guest approach to study drug-DNA interactions in which the host, the N-terminal fragment of Moloney murine leukemia virus reverse transcriptase (MMLV RT) is co-crystallized with a DNA oligonucleotide guest in the presence and absence of drug. We have co-crystallized netropsin with the RT fragment bound to the symmetric 16mer d(CTTAATTCGAATTAAG)2 and determined the structure of the complex at 1.85 A. In contrast to previously reported netropsin-DNA structures, our oligonucleotide contains two AATT sites that bind netropsin with flanking 5' and 3' sequences that are not symmetric. The asymmetric unit of the RT fragment-DNA-netropsin crystals contains one protein molecule and one-half of the 16mer with one netropsin molecule bound. The guanidinium moiety of netropsin binds in a narrow part of the minor groove, while the amidinium is bound in the widest region within the site. We compare this structure to other Class I netropsin-DNA structures and find that the asymmetry of minor groove widths in the AATT site contributes to the orientation of netropsin within the groove while hydrogen bonding patterns vary in the different structures.
About this Structure
1ZTT is a Single protein structure of sequence from Moloney murine leukemia virus. Full crystallographic information is available from OCA.
Reference
A host-guest approach for determining drug-DNA interactions: an example using netropsin., Goodwin KD, Long EC, Georgiadis MM, Nucleic Acids Res. 2005 Jul 27;33(13):4106-16. Print 2005. PMID:16049022
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