5W6K

Structure of mutant Taq Polymerase incorporating unnatural base pairs Z:P


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.339 Å
  • R-Value Free: 0.275 
  • R-Value Work: 0.224 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Snapshots of an evolved DNA polymerase pre- and post-incorporation of an unnatural nucleotide.

Singh, I.Laos, R.Hoshika, S.Benner, S.A.Georgiadis, M.M.

(2018) Nucleic Acids Res. --: --


Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DNA polymerase I, thermostable
A
540Thermus aquaticusMutation(s): 4 
Gene Names: polA (pol1)
EC: 2.7.7.7
Find proteins for P19821 (Thermus aquaticus)
Go to UniProtKB:  P19821
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DOC))-3')B12Escherichia coli
Entity ID: 3
MoleculeChainsLengthOrganism
DNA (5'-D(P*(1WA)P*GP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3')C13Escherichia coli
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
A5J
Query on A5J

Download SDF File 
Download CCD File 
A
(1R)-1-[6-amino-5-(dihydroxyamino)-2-hydroxypyridin-3-yl]-1,4-anhydro-2-deoxy-5-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-D-erythro-pentitol
C10 H18 N3 O15 P3
KAFFDRNDCIZAAZ-XLPZGREQSA-N
 Ligand Interaction
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
1WA
Query on 1WA
C
DNA LINKINGC10 H16 N5 O7 P

--

DOC
Query on DOC
B
DNA LINKINGC9 H14 N3 O6 PDC
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.339 Å
  • R-Value Free: 0.275 
  • R-Value Work: 0.224 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 109.306α = 90.00
b = 109.306β = 90.00
c = 90.871γ = 120.00
Software Package:
Software NamePurpose
DENZOdata collection
PDB_EXTRACTdata extraction
MOLREPphasing
SCALEPACKdata scaling
PHENIXrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-07-18
    Type: Initial release