4IJ8

Crystal structure of the complex of SETD8 with SAM

Structural Biology Knowledgebase: 4IJ8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.176

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4IJ8

Classification: TRANSFERASE

Total Structure Weight: 39100.48

Macromolecule Entities
Molecule Chains Length Organism Details
N-lysine methyltransferase SETD8 A, B 165 Homo sapiens Mutation: C343S
Gene Name(s): SETD8 KMT5A Gene View PRSET7 SET07 SET8
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
helical peptide I 10 Unidentified Fragment: SEE REMARK 999

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
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
UNX
Query on UNX

A, B UNKNOWN ATOM OR ION
X
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
UNK
Query on UNK
I L-PEPTIDE LINKING C4 H9 N O2 --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.176
  • Space Group: P 61 2 2

Unit Cell:

Length (Å) Angle (°)
a = 101.44 α = 90.00
b = 101.44 β = 90.00
c = 140.80 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-12-21
  • Released Date: 2013-01-16
  • Deposition author(s): Yu, W., Tempel, W., Li, Y., El Bakkouri, M., Shapira, M., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Brown, P.J., Structural Genomics Consortium (SGC)

Revision History

  • 2014-04-02
    Type: Source and taxonomy | Details: corrected source organism information