5JIY

Structure of G9a SET-domain with Histone H3K9norLeucine mutant peptide and bound S-adenosylmethionine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.209

Literature

Macromolecules
Sequence Display for 5JIY

Classification: TRANSFERASE

Total Structure Weight: 66886.45

Macromolecule Entities
Molecule Chains Length Organism Details
Histone-lysine N-methyltransferase EHMT2 A, B 274 Homo sapiens EC#: 2.1.1.43 IUBMB
Fragment: UNP residues 882-1155
Gene Name(s): EHMT2 Gene View BAT8 C6orf30 G9A KMT1C NG36
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Histone H3.1 mutant peptide with H3K9nor-leucine F, G 11 Homo sapiens Gene Name(s): HIST1H3A Gene View H3FA HIST1H3B Gene View H3FL HIST1H3C Gene View H3FC HIST1H3D Gene View H3FB HIST1H3E Gene View H3FD HIST1H3F Gene View H3FI HIST1H3G Gene View H3FH HIST1H3H Gene View H3FK HIST1H3I Gene View H3FF HIST1H3J Gene View H3FJ
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B S-ADENOSYLMETHIONINE
C15 H22 N6 O5 S
MEFKEPWMEQBLKI-FCKMPRQPSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
NLE
Query on NLE
F, G L-PEPTIDE LINKING C6 H13 N O2 LEU

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.209
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 56.61 α = 90.00
b = 78.46 β = 90.28
c = 73.08 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-04-22
  • Released Date: 2016-09-14
  • Deposition author(s): Jayaram, H., Bellon, S.F., Poy, F.

Revision History

  • Version 1_0: 2016-09-14

    Type: Initial release