This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
1kdh
From Proteopedia
| Line 1: | Line 1: | ||
[[Image:1kdh.jpg|left|200px]] | [[Image:1kdh.jpg|left|200px]] | ||
| - | + | <!-- | |
| - | + | The line below this paragraph, containing "STRUCTURE_1kdh", creates the "Structure Box" on the page. | |
| - | + | You may change the PDB parameter (which sets the PDB file loaded into the applet) | |
| - | + | or the SCENE parameter (which sets the initial scene displayed when the page is loaded), | |
| - | + | or leave the SCENE parameter empty for the default display. | |
| - | | | + | --> |
| - | | | + | {{STRUCTURE_1kdh| PDB=1kdh | SCENE= }} |
| - | + | ||
| - | + | ||
| - | }} | + | |
'''Binary Complex of Murine Terminal Deoxynucleotidyl Transferase with a Primer Single Stranded DNA''' | '''Binary Complex of Murine Terminal Deoxynucleotidyl Transferase with a Primer Single Stranded DNA''' | ||
| Line 34: | Line 31: | ||
[[Category: Rougeon, F.]] | [[Category: Rougeon, F.]] | ||
[[Category: Sukumar, N.]] | [[Category: Sukumar, N.]] | ||
| - | [[Category: | + | [[Category: Nucleotidyl transferase]] |
| - | [[Category: | + | [[Category: Polymerase]] |
| - | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 22:36:23 2008'' | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 19:36, 2 May 2008
Binary Complex of Murine Terminal Deoxynucleotidyl Transferase with a Primer Single Stranded DNA
Overview
The crystal structure of the catalytic core of murine terminal deoxynucleotidyltransferase (TdT) at 2.35 A resolution reveals a typical DNA polymerase beta-like fold locked in a closed form. In addition, the structures of two different binary complexes, one with an oligonucleotide primer and the other with an incoming ddATP-Co(2+) complex, show that the substrates and the two divalent ions in the catalytic site are positioned in TdT in a manner similar to that described for the human DNA polymerase beta ternary complex, suggesting a common two metal ions mechanism of nucleotidyl transfer in these two proteins. The inability of TdT to accommodate a template strand can be explained by steric hindrance at the catalytic site caused by a long lariat-like loop, which is absent in DNA polymerase beta. However, displacement of this discriminating loop would be sufficient to unmask a number of evolutionarily conserved residues, which could then interact with a template DNA strand. The present structure can be used to model the recently discovered human polymerase mu, with which it shares 43% sequence identity.
About this Structure
1KDH is a Single protein structure of sequence from Mus musculus. Full crystallographic information is available from OCA.
Reference
Crystal structures of a template-independent DNA polymerase: murine terminal deoxynucleotidyltransferase., Delarue M, Boule JB, Lescar J, Expert-Bezancon N, Jourdan N, Sukumar N, Rougeon F, Papanicolaou C, EMBO J. 2002 Feb 1;21(3):427-39. PMID:11823435 Page seeded by OCA on Fri May 2 22:36:23 2008
