5CCM Transferase Transferase Inhibitor date Jul 02, 2015
title Crystal Structure Of Smyd3 With Sam And Epz030456
authors P.A.Boriack-Sjodin
compound source
Molecule: Histone-Lysine N-Methyltransferase Smyd3
Chain: A
Synonym: Set And Mynd Domain-Containing Protein 3,Zinc Fing Domain-Containing Protein 1;
Ec: 2.1.1.43
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Smyd3, Zmynd1, Znfn3a1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.201 R_Free 0.255
crystal
cell
length a length b length c angle alpha angle beta angle gamma
60.484 65.852 107.358 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand 4ZX, SAM, ZN enzyme Transferase E.C.2.1.1.43 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (77 Kb) [Save to disk]
  • Biological Unit Coordinates (5ccm.pdb1.gz) 72 Kb
  • LPC: Ligand-Protein Contacts for 5CCM
  • CSU: Contacts of Structural Units for 5CCM
  • Structure Factors (362 Kb)
  • Retrieve 5CCM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5CCM from S2C, [Save to disk]
  • Re-refined 5ccm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5CCM 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 5CCM
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5ccm_A] [5ccm]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5CCM: [SET ] by SMART
    • Other resources with information on 5CCM
  • Community annotation for 5CCM at PDBWiki (http://pdbwiki.org)

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