3SD4 Transcription date Jun 08, 2011
title Crystal Structure Of The First Tudor Domain Of Human Phf20
authors G.Cui, M.V.Botuyan, J.R.Thompson, G.Mer
compound source
Molecule: Phd Finger Protein 20
Chain: A, B
Fragment: First Tudor Domain, Unp Residues 4-69
Synonym: Glioma-Expressed Antigen 2, Hepatocellular Carcino Associated Antigen 58, Novel Zinc Finger Protein, Transcrip Factor Tzp;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Phf20, C20orf104, Glea2, Hca58, Nzf, Tzp
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21 Rosetta (Plyss)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptev
symmetry Space Group: P 1 21 1
R_factor 0.229 R_Free 0.236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
37.746 60.761 37.750 90.00 112.82 90.00
method X-Ray Diffractionresolution 1.93 Å
note 3SD4 is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referencePHF20 is an effector protein of p53 double lysine methylation that stabilizes and activates p53., Cui G, Park S, Badeaux AI, Kim D, Lee J, Thompson JR, Yan F, Kaneko S, Yuan Z, Botuyan MV, Bedford MT, Cheng JQ, Mer G, Nat Struct Mol Biol. 2012 Aug 5. doi: 10.1038/nsmb.2353. PMID:22864287
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk]
  • Biological Unit Coordinates (3sd4.pdb1.gz) 25 Kb
  • Biological Unit Coordinates (3sd4.pdb2.gz) 25 Kb
  • CSU: Contacts of Structural Units for 3SD4
  • Structure Factors (154 Kb)
  • Retrieve 3SD4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3SD4 from S2C, [Save to disk]
  • Re-refined 3sd4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3SD4 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 3SD4
  • 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 3SD4, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3sd4_A] [3sd4_B] [3sd4]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3SD4
  • Community annotation for 3SD4 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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