ISDA: 1IH7

Deposition Date 2001-04-18

Release Date 2001-06-13

Last Version Date 2023-08-16

Entry Detail

PDB ID:

1IH7

Keywords:

TRANSFERASE

Title:

High-Resolution Structure of Apo RB69 DNA Polymerase

Biological Source:

Source Organism:

Enterobacteria phage RB69 (Taxon ID: 12353)

Host Organism:

Escherichia coli BL21(DE3)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.21 Å

R-Value Free:

0.25

R-Value Work:

0.21

R-Value Observed:

0.21

Space Group:

P 21 21 21

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA POLYMERASE
Gene (Uniprot):43
Chain IDs:A
Chain Length:903
Number of Molecules:1
Biological Source:Enterobacteria phage RB69

UniProt ID:Q38087 Pfam ID:PF03104, PF00136 EC:2.7.7.7

Ligand Molecules

GMP

Primary Citation

Structure of the Replicating Complex of a Pol alpha Family DNA Polymerase

Franklin, M.C, Wang, J, Steitz, T.A, Wang, J, Sattar, A.K, Wang, C.C, Karam, J.D, Konigsberg, W.H, Steitz, T.A, Shamoo, Y, Steitz, T.A.Show

Cell(Cambridge,Mass.) 105 657 667 (2001)

PMID: 11389835 DOI: 10.1016/S0092-8674(01)00367-1

Abstact

We describe the 2.6 A resolution crystal structure of RB69 DNA polymerase with primer-template DNA and dTTP, capturing the step just before primer extension. This ternary complex structure in the human DNA polymerase alpha family shows a 60 degrees rotation of the fingers domain relative to the apo-protein structure, similar to the fingers movement in pol I family polymerases. Minor groove interactions near the primer 3' terminus suggest a common fidelity mechanism for pol I and pol alpha family polymerases. The duplex product DNA orientation differs by 40 degrees between the polymerizing mode and editing mode structures. The role of the thumb in this DNA motion provides a model for editing in the pol alpha family.

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