3F9X	Transferase	date	Nov 14, 2008
title	Structural Insights Into Lysine Multiple Methylation By Set Methyltransferases, Set8-Y334f H4-Lys20me2 Adohcy
authors	J.F.Couture, L.M.A.Dirk, J.S.Brunzelle, R.L.Houtz, R.C.Trievel
compound		source
Molecule: Histone-Lysine N-Methyltransferase Setd8 Chain: A, B, C, D Fragment: Set Domain: Unp Residues 232-393 Synonym: H4-K20-Hmtase Setd8, Set Domain-Containing Protein Domain-Containing Protein 07, Prset07, Pr-Set7, Lysine N- Methyltransferase 5a; Ec: 2.1.1.43 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_taxid: 9606 Gene: Setd8, Kmt5a, Prset7, Set07, Set8 Expression_system: Escherichia Coli Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_vector: Parallel Expression_system_plasmid: Phis2
Molecule: Histone H4 Chain: E, F, G, H Fragment: Unp Residues 16-25 Engineered: Yes		Synthetic: Yes Other_details: Synthetic Peptide Corresponding To Residues Human Histone H4
symmetry	Space Group: P 1	R_factor 0.181 R_Free 0.207
crystal cell	length a length b length c angle alpha angle beta angle gamma 44.112 45.742 94.760 89.45 87.59 89.90
method	X-Ray Diffraction	resolution	1.25 Å
ligand	MLY, SAH	enzyme	Transferase E.C.2.1.1.43 BRENDA
note	3F9X is a representative structure
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Structural origins for the product specificity of SET domain protein methyltransferases., Couture JF, Dirk LM, Brunzelle JS, Houtz RL, Trievel RC, Proc Natl Acad Sci U S A. 2008 Dec 30;105(52):20659-64. Epub 2008 Dec 16. PMID:19088188

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (260 Kb) [Save to disk] Biological Unit Coordinates (3f9x.pdb1.gz) 63 Kb Biological Unit Coordinates (3f9x.pdb2.gz) 66 Kb Biological Unit Coordinates (3f9x.pdb3.gz) 65 Kb Biological Unit Coordinates (3f9x.pdb4.gz) 68 Kb LPC: Ligand-Protein Contacts for 3F9X CSU: Contacts of Structural Units for 3F9X Likely Quarternary Molecular Structure file(s) for 3F9X Structure Factors (2758 Kb) Retrieve 3F9X in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3F9X from S2C, [Save to disk] Re-refined 3f9x structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3F9X in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 3F9X

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 3F9X, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3f9x_C] [3f9x_F] [3f9x_E] [3f9x] [3f9x_A] [3f9x_B] [3f9x_H] [3f9x_D] [3f9x_G] SWISS-PROT database: [P62805] [Q9NQR1] Domain organization of [H4_HUMAN] [SETD8_HUMAN] by SWISSPFAM Domain found in 3F9X: [SET ] by SMART

Other resources with information on 3F9X

Community annotation for 3F9X at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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