ISDA

Entry Detail

PDB ID:

4ELT

Keywords:

TRANSFERASE/DNA

Title:

Snapshot of the large fragment of DNA polymerase I from Thermus Aquaticus processing modified pyrimidines

Biological Source:

Source Organism:

Thermus aquaticus, Synthetic DNA

Host Organism:

Escherichia coli

PDB Version:

Deposition Date:

2012-04-11

Release Date:

2013-03-27

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.20 Å

R-Value Free:

0.20

R-Value Work:

0.16

R-Value Observed:

0.16

Space Group:

P 31 2 1

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Description:DNA polymerase I, thermostable
Chain IDs:A
Chain Length:540
Number of Molecules:1
Biological Source:Thermus aquaticus

UniProt ID:P19821 Pfam ID:PF09281, PF00476 EC:2.7.7.7

Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DOC))-3')
Chain IDs:B
Chain Length:12
Number of Molecules:1
Biological Source:Synthetic DNA

Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(*AP*AP*AP*AP*GP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3')
Chain IDs:C
Chain Length:16
Number of Molecules:1
Biological Source:Synthetic DNA

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details	2D Image
DOC	B	DC	2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE

Ligand Molecules

0R5

ACT

EDO

GOL

Primary Citation

Interactions of non-polar and "Click-able" nucleotides in the confines of a DNA polymerase active site.

Obeid, S, Busskamp, H, Welte, W, Diederichs, K, Marx, A.Show

Chem.Commun.(Camb.) 48 8320 8322 (2012)

PMID: 22766607 DOI: 10.1039/c2cc34181f

Abstact

Modified nucleotides play a paramount role in many cutting-edge biomolecular techniques. The present structural study highlights the plasticity and flexibility of the active site of a DNA polymerase while incorporating non-polar "Click-able" nucleotide analogs and emphasizes new insights into rational design guidelines for modified nucleotides.

Legend

Protein

Chemical

Disease

Primary Citation of related structures