6OE7

Crystal structure of HMCES cross-linked to DNA abasic site


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of HMCES cross-linked to DNA abasic site

Halabelian, L.Li, Y.Zeng, H.Bountra, C.Edwards, A.M.Arrowsmith, C.H.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein
A
276Homo sapiensMutation(s): 0 
Gene Names: HMCES (C3orf37, DC12, SRAPD1)
Find proteins for Q96FZ2 (Homo sapiens)
Go to Gene View: HMCES
Go to UniProtKB:  Q96FZ2
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(*GP*TP*CP*TP*GP*G)-3')C6synthetic construct
Entity ID: 3
MoleculeChainsLengthOrganism
DNA (5'-D(*CP*CP*AP*GP*AP*CP*GP*TP*(DRZ)P*GP*TP*T)-3')B12synthetic construct
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
UNX
Query on UNX

Download SDF File 
Download CCD File 
A, B
UNKNOWN ATOM OR ION
X
*
 Ligand Interaction
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
DRZ
Query on DRZ
B
DNA LINKINGC5 H11 O7 P

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Experimental Data & Validation

Experimental Data

Unit Cell:
Length (Å)Angle (°)
a = 55.509α = 90.00
b = 51.534β = 92.72
c = 149.720γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
REFMACphasing
XDSdata reduction
Aimlessdata scaling
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-04-24
    Type: Initial release