3TG5 Transferase date Aug 17, 2011
title Structure Of Smyd2 In Complex With P53 And Sah
authors K.Zhao, L.Wang
compound source
Molecule: N-Lysine Methyltransferase Smyd2
Chain: A
Synonym: Hskm-B, Histone Methyltransferase Smyd2, Lysine N- Methyltransferase 3c, Set And Mynd Domain-Containing Protei
Ec: 2.1.1.-, 2.1.1.43
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Smyd2, Kmt3c
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Expression_system_plasmid: Pfastbac

Molecule: Cellular Tumor Antigen P53
Chain: B
Fragment: Unp Residues 365-375
Synonym: Antigen Ny-Co-13, Phosphoprotein P53, Tumor Suppre
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: This Sequence Is Synthesized
symmetry Space Group: P 21 21 21
R_factor 0.241 R_Free 0.263
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.360 71.670 121.250 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand GOL, SAH, ZN enzyme Transferase E.C.2.1.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure of human SMYD2 reveals the basis of p53 tumor suppressor methylation., Wang L, Li L, Zhang H, Luo X, Dai J, Zhou S, Gu J, Zhu J, Atadja P, Lu C, Li E, Zhao K, J Biol Chem. 2011 Aug 31. PMID:21880715
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (80 Kb) [Save to disk]
  • Biological Unit Coordinates (3tg5.pdb1.gz) 75 Kb
  • LPC: Ligand-Protein Contacts for 3TG5
  • CSU: Contacts of Structural Units for 3TG5
  • Structure Factors (386 Kb)
  • Retrieve 3TG5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3TG5 from S2C, [Save to disk]
  • Re-refined 3tg5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3TG5 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 3TG5
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3TG5, from MSDmotif at EBI
  • Fold representative 3tg5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3tg5_A] [3tg5] [3tg5_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3TG5 with the sequences similar proteins can be viewed for 3TG5's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3TG5
  • Community annotation for 3TG5 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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