Thermus AQuaticus DNA polymerase

SEQUENCE:MRGMLPLFEPKGRVLLVDGHHLAYRTFHALKGLTTSRGEPVQAVYGFAKSLLKALKEDGDAVIVVFDAKAPSFRHEAYGGYKAGRAPTPEDFPRQLALIKELVDLLGLARLEVPGYEADDVLASLAKKAEKEGYEVRILTADKDLYQLLSDRIHVLHPEGYLITPAWLWEKYGLRPDQWADYRALTGDESDNLPGVKGIGEKTARKLLEEWGSLEALLKNLDRLKPAIREKILAHMDDLKLSWDLAKVRTDLPLEVDFAKRREPDRERLRAFLERLEFGSLLHEFGLLESPKALEEAPWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKALRDLKEARGLLAKDLSVLALREGLGLPPGDDPMLLAYLLDPSNTTPEGVARRYGGEWTEEAGERAALSERLFANLWGRLEGEERLLWLYREVERPLSAVLAHMEATGVRLDVAYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDELGLPAIGKTEKTGKRSTSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDLIHPRTGRLHTRFNQTATATGRLCCCDPNLQNIPVRTPLGQRIRRGFIAEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGRDIHTETASWMFGVPREAVDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEEGRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFPRLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGVYPLAVPLEVEVGIGEDWLSAKE by Dave Phillis Spring 2010

Dna Replication

PCR Reaction

Helices and Beta Barrels and side chains

DNA and “O” helix

Magnesium metal

Magnesium Interactions

ALL ZINC

Hydrogen Bonding CTP

HYDROPHOBIC INTERACTIONS

ALL HYDRO AND H-BOND

ALL CTP

Sequence Alignment

Sequence Alignment

Literature Cited 1. , F.; Stoffel, S.; Saiki, R.; Myambo, K.; Drummond, R.; Gelfand, D., (1989) Isolation, Characterization, and Expression in Escherichia coli of the DNA Polymerase Gene from Thermus aquaticus. Journal of Biological Chemistry. 264:6427-6437.2. Patel, P.; Kawate, H.; Adman, E.; Loeb, L., (2000) A single highly mutable catalytic site amino acid is critical for DNA polymerase fidelity. Journal of Biological Chemistry. Nov 7. 3. Steitz, T. (1999) DNA Polymerases: Structural Diversity and common Mechanisms. Journal of Biological Chemistry. 274: 17395-17398. 4. Urs, U.; Ramachandran, M.; Krishna Murthy, H., (1999) Structure of Taq polymerase shows a new orientation for the structure-specific nuclease domain. Acta Cryst. D55:1971-1977. 5. Villbrant, B. ; Sobek, H. ; Frey, B.; Schomburg, D., (2000) Domain exchange: chimeras of thermus aquaticus DNA polymerase, escherichia DNA polymerase I and thermotoga neapolitana DNA polymerase. Protein Engineering. 9:645-54. 6. Kim, Y.; Eom, S.; Wang, J.; Lee, D.; Suh, S.; Steitz, T., (1995) Crystal structure of Thermus aquaticus DNA polymerase Nature 376, 612-616 (17 August 1995)7. Chien A, Edgar DB, Trela JM (1976). "Deoxyribonucleic acid polymerase from the extreme thermophile Thermus aquaticus". J. Bact. 127 (3): 1550–7. 8. Saiki, RK; et al. (1988). "Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase.". Science 239 (4839): 487–91.9. Saiki, RK; et al. (1985). "Enzymatic amplification of beta-globin genomic sequences and restriction site analysis for diagnosis of sickle cell anemia" Science 230 (4732): 1350–410. Lawyer FC, et al. (1993). "High-level expression, purification, and enzymatic characterization of full-length Thermus aquaticus DNA polymerase ...". PCR Methods Appl. 2 (4): 275–87.11. Tindall KR and Kunkel TA (1988). "Fidelity of DNA synthesis by the Thermus aquaticus DNA polymerase". Biochemistry 27 (16): 6008–13