5HHI

Structure of human DNA polymerase beta Host-Guest complexed with CBZ-platinated N7-G


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.517 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.222 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Synthesis, structure, and biological evaluation of a platinum-carbazole conjugate.

Cheun, Y.Koag, M.C.Naguib, Y.W.Ouzon-Shubeita, H.Cui, Z.Pakotiprapha, D.Lee, S.

(2018) Chem Biol Drug Des 91: 116-125


Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DNA polymerase beta
A
329Homo sapiensMutation(s): 0 
Gene Names: POLB
EC: 2.7.7.7, 4.2.99.-
Find proteins for P06746 (Homo sapiens)
Go to Gene View: POLB
Go to UniProtKB:  P06746
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(*CP*CP*GP*AP*CP*GP*GP*AP*GP*GP*AP*GP*CP*AP*GP*G)-3')T16synthetic construct
Entity ID: 3
MoleculeChainsLengthOrganism
DNA (5'-D(P*CP*CP*TP*GP*CP*TP*CP*CP*TP*C)-3')P10synthetic construct
Entity ID: 4
MoleculeChainsLengthOrganism
DNA (5'-D(P*GP*TP*CP*GP*G)-3')D5synthetic construct
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
61C
Query on 61C

Download SDF File 
Download CCD File 
P
platinum(4+) chloride azanide [2-(9H-carbazol-9-yl)ethyl]azanide (1:1:2:1)
C14 H17 Cl N4 Pt
YBILSKKWHHSPJW-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.517 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.222 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 54.372α = 90.00
b = 80.119β = 108.94
c = 54.674γ = 90.00
Software Package:
Software NamePurpose
DENZOdata reduction
HKL-2000data scaling
PHENIXrefinement
MOLREPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2016-01-11 
  • Released Date: 2017-01-18 
  • Deposition Author(s): Lee, S., Koag, M.-C.

Revision History 

  • Version 1.0: 2017-01-18
    Type: Initial release
  • Version 1.1: 2018-07-25
    Type: Data collection, Database references