4QBQ Transferase date May 08, 2014
title Crystal Structure Of Dnmt3a Add Domain Bound To H3 Peptide
authors H.Li, D.J.Patel
compound source
Molecule: Dna (Cytosine-5)-Methyltransferase 3a
Chain: A, C
Fragment: Add Domain, Unp Residues 476-611
Synonym: Dnmt3a, Dna Methyltransferase Hsaiiia, Dna Mtase H M.Hsaiiia;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dnmt3a
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H3
Chain: P
Fragment: H3 N-Terminal 1-15
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Other_details: This Sequence Occurs Naturally In Humans.
symmetry Space Group: P 1 21 1
R_factor 0.174 R_Free 0.230
length a length b length c angle alpha angle beta angle gamma
41.557 56.424 57.301 90.00 90.27 90.00
method X-Ray Diffractionresolution 2.41 Å
ligand ZN enzyme Transferase E.C. BRENDA
A, C

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk]
  • Biological Unit Coordinates (4qbq.pdb1.gz) 47 Kb
  • LPC: Ligand-Protein Contacts for 4QBQ
  • CSU: Contacts of Structural Units for 4QBQ
  • Structure Factors (155 Kb)
  • Retrieve 4QBQ in mmCIF format [Save to disk]
  • Re-refined 4qbq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4QBQ 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 4QBQ
  • 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 4QBQ, from MSDmotif at EBI
  • Fold representative 4qbq from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4qbq] [4qbq_A] [4qbq_C] [4qbq_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4QBQ
  • Community annotation for 4QBQ at PDBWiki (http://pdbwiki.org)

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