Motion in Taq DNA polymerase I [taqpol]
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Classification Known Fragment Motion, Hinge Mechanism [F-h-2]
Structures 2KTQ open ternary complex 3KTQ closed ternary complex 4KTQ binary polI/DNA complex
Description The large fragment of DNA polymerase I resembles a hand, with the DNA bound in the region formed by the "thumb", "palm", and "fingers". In the crystal structures from Thermus aquaticus, the fingers domain rotates downwards towards the bound DNA to add a nucleotide to the growing strand.
Particular values describing motion Overall RMS deviation = 2.09 Experimental Methods = x (Traditional x-ray)
References Y Li, S Korolev, and G Waksman (1998). Crystal structures of open and closed forms of binary and ternary complexes of the large fragment of Thermus aquaticus DNA polymeras I: structural basis for nucleotide incorporation. EMBO Journal, 17:7514-7525.
Data and Graphics Movie of taqpol Morph of 2KTQ->3KTQ
GO terms associated with structures Molecular function nuclease activity, DNA binding, 5'-3' exonuclease activity, DNA-directed DNA polymerase activity Cellular component intracellular Biological process DNA replication
Morphs[ show all images ]
Best representative Morph Morph name Structure #1 Structure #2 Residues Taq polymerase 2KTQ [ A ] 3KTQ [ A ] 540
Automatic morphs Morph Morph name Structure #1 Structure #2 Residues va1qssA-4ktqA DNA Polymerase I 1qss [ A ] 4ktq [ A ] 539 va1qtmA-4ktqA DNA Polymerase I 1qtm [ A ] 4ktq [ A ] 539 va1qsyA-4ktqA DNA Polymerase I 1qsy [ A ] 4ktq [ A ] 539
Copyright 1995-2005 M. Gerstein, W. Krebs, S. Flores, N. Echols, and others
Email: Mark.Gerstein _at_ yale.edu