5B73 Metal Binding Protein date Jun 03, 2016
title Crystal Structure Of Human Zmynd8 Phd-Bromo-Pwwp Domain
authors H.Li, Y.Li, X.Zheng
compound source
Molecule: Protein Kinase C-Binding Protein 1
Chain: A
Fragment: Phd-Bromo-Pwwp Domain, Unp Residues 73-406
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Zmynd8
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.187 R_Free 0.224
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.083 67.999 70.309 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceZMYND8 Reads the Dual Histone Mark H3K4me1-H3K14ac to Antagonize the Expression of Metastasis-Linked Genes., Li N, Li Y, Lv J, Zheng X, Wen H, Shen H, Zhu G, Chen TY, Dhar SS, Kan PY, Wang Z, Shiekhattar R, Shi X, Lan F, Chen K, Li W, Li H, Lee MG, Mol Cell. 2016 Aug 4;63(3):470-84. doi: 10.1016/j.molcel.2016.06.035. Epub 2016, Jul 28. PMID:27477906
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (59 Kb) [Save to disk]
  • Biological Unit Coordinates (5b73.pdb1.gz) 55 Kb
  • LPC: Ligand-Protein Contacts for 5B73
  • CSU: Contacts of Structural Units for 5B73
  • Structure Factors (364 Kb)
  • Retrieve 5B73 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5B73 from S2C, [Save to disk]
  • Re-refined 5b73 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5B73 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 5B73
  • 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
  • Fold representative 5b73 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5b73] [5b73_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5B73: [BROMO] [PHD] [PWWP ] by SMART
  • Other resources with information on 5B73
  • Community annotation for 5B73 at PDBWiki (http://pdbwiki.org)

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