5Y1Z Transcription date Jul 22, 2017
title Crystal Structure Of Zmynd8 Phd-Bromo-Pwwp Tandem In Complex Drebrin Adf-H Domain
authors N.Yao, J.Li, H.Liu, J.Wan, W.Liu, M.Zhang
compound source
Molecule: Drebrin
Chain: A, B
Fragment: Unp Residues 1-135
Synonym: Developmentally-Regulated Brain Protein
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dbn1, D0s117e
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Protein Kinase C-Binding Protein 1
Chain: C, D
Fragment: Unp Residues 83-406
Synonym: Cutaneous T-Cell Lymphoma-Associated Antigen Se14- Associated Antigen Se14-3,Rack7,Zinc Finger Mynd Domain-Con Protein 8;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Zmynd8, Kiaa1125, Prkcbp1, Rack7
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.178 R_Free 0.234
length a length b length c angle alpha angle beta angle gamma
54.183 138.095 161.164 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.68 Å
A, B

D, C

Primary referenceThe Structure of the ZMYND8/Drebrin Complex Suggests a Cytoplasmic Sequestering Mechanism of ZMYND8 by Drebrin., Yao N, Li J, Liu H, Wan J, Liu W, Zhang M, Structure. 2017 Sep 13. pii: S0969-2126(17)30290-3. doi:, 10.1016/j.str.2017.08.014. PMID:28966017
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (295 Kb) [Save to disk]
  • Biological Unit Coordinates (5y1z.pdb1.gz) 142 Kb
  • Biological Unit Coordinates (5y1z.pdb2.gz) 145 Kb
  • CSU: Contacts of Structural Units for 5Y1Z
  • Structure Factors (743 Kb)
  • Retrieve 5Y1Z in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5Y1Z from S2C, [Save to disk]
  • View 5Y1Z in 3D
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  • 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 5Y1Z
  • 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 5y1z from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5y1z_A] [5y1z_B] [5y1z_C] [5y1z_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5Y1Z
  • Community annotation for 5Y1Z at PDBWiki (http://pdbwiki.org)

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