5MHK

ICP4 DNA-binding domain in complex with 19mer DNA duplex from its own promoter


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.212

Literature

Macromolecules
Sequence Display for 5MHK

Classification: TRANSCRIPTION

Total Structure Weight: 122027.32


Macromolecule Entities
Molecule Chains Length Organism Details
RS1 A, B, C, D 231 Human alphaherpesvirus 1 Details: DNA BINDING DOMAIN OF ICP4, RESIDUES 258-487
Gene Name(s): ICP4 IE175 RS1 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
ICP4 DNA BINDING DOMAIN J 4 Human alphaherpesvirus 1 Fragment: LIkely N-terminus of chain D, but chain connectivity is ambiguous
Details: DNA BINDING DOMAIN OF ICP4, RESIDUES 258-487
Gene Name(s): ICP4 IE175 RS1 Gene View
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*GP*CP*TP*CP*CP*GP*TP*GP*TP*GP*GP*AP*CP*GP*AP*TP*CP*GP*G)-3') E, G 19 Human alphaherpesvirus 1 SYNTHETIC DNA, SEQUENCES MATCHES A REGION FROM THE ICP4 PROMOTER (IE3)
DNA (5'-D(*GP*CP*TP*CP*CP*GP*TP*GP*TP*GP*GP*AP*CP*GP*AP*TP*CP*GP*G)-3') F, H 19 Human alphaherpesvirus 1 SYNTHETIC DNA, SEQUENCES MATCHES A REGION FROM THE ICP4 PROMOTER (IE3)

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

A, B, C, D SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

C CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

H MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.212
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 61.51 α = 90.00
b = 100.73 β = 90.00
c = 201.89 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-11-24
  • Released Date: 2017-05-24
  • Deposition author(s): Tunnicliffe, R.B., Lockhart-Cairns, M.P., Levy, C., Mould, P., Jowitt, T.A., Sito, H., Baldock, C., Sandri-Goldin, R.M., Golovanov, A.P.

Revision History

  • 2017-09-06
    Type: Database references