1XWL

BACILLUS STEAROTHERMOPHILUS (NEWLY IDENTIFIED STRAIN AS YET UNNAMED) DNA POLYMERASE FRAGMENT

• PDB DOI: https://doi.org/10.2210/pdb1XWL/pdb
• Entry: 1XWL supersedes: 1BDP

• Classification: DNA REPLICATION
• Organism(s): Geobacillus stearothermophilus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1998-07-22 Released: 1999-01-13 
• Deposition Author(s): Kiefer, J.R., Mao, C., Beese, L.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.291 
• R-Value Work: 0.254 
• R-Value Observed: 0.254 

Literature

Crystal structure of a thermostable Bacillus DNA polymerase I large fragment at 2.1 A resolution.

Kiefer, J.R., Mao, C., Hansen, C.J., Basehore, S.L., Hogrefe, H.H., Braman, J.C., Beese, L.S.

(1997) Structure 5: 95-108

• PubMed: 9016716 
• DOI: https://doi.org/10.1016/s0969-2126(97)00169-x
• Primary Citation of Related Structures:  
  1XWL


• PubMed Abstract: 
  

  The study of DNA polymerases in the Pol l family is central to the understanding of DNA replication and repair. DNA polymerases are used in many molecular biology techniques, including PCR, which require a thermostable polymerase. In order to learn about Pol I function and the basis of thermostability, we undertook structural studies of a new thermostable DNA polymerase.

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Organizational Affiliation: 

Department of Biochemistry, Duke University Medical Centre, Durham, NC 27710, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 66.36 kDa 
• Atom Count: 5,069 
• Modelled Residue Count: 580 
• Deposited Residue Count: 580 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA POLYMERASE I	A	580	Geobacillus stearothermophilus	Mutation(s): 0  Gene Names: BACILLUS STEAROTHERMOPHILUS EC: 2.7.7.7
UniProt
Find proteins for P52026 (Geobacillus stearothermophilus) Explore P52026  Go to UniProtKB:  P52026

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A], C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.291 
• R-Value Work: 0.254 
• R-Value Observed: 0.254 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.106	α = 90
b = 93.868	β = 90
c = 104.577	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-01-13 
Deposition Author(s): Kiefer, J.R., Mao, C., Beese, L.S.
• This entry supersedes: 1BDP

Revision History  

• Version 1.0: 1999-01-13
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-09
  Changes: Database references, Derived calculations, Other, Refinement description