4W8F Motor Protein date Aug 24, 2014
title Crystal Structure Of The Dynein Motor Domain In The Amppnp-B
authors H.C.Cheng, G.Bhabha, N.Zhang, R.D.Vale
compound source
Molecule: Dynein Heavy Chain Lysozyme Chimera
Chain: A, B
Synonym: Dynein Heavy Chain,Cytosolic,Dyhc,Lysis Protein,Mu
Engineered: Yes
Mutation: Yes
Organism_scientific: Saccharomyces Cerevisiae, Enterobacter T4;
Organism_common: Baker'S Yeast
Organism_taxid: 559292, 10665
Strain: Atcc 204508 S288c
Gene: Dyn1, Dhc1, Ykr054c
Expression_system: Saccharomyces Cerevisiae
Expression_system_taxid: 4932
symmetry Space Group: P 1 21 1
R_factor 0.228 R_Free 0.262
length a length b length c angle alpha angle beta angle gamma
137.730 154.380 177.550 90.00 96.59 90.00
method X-Ray Diffractionresolution 3.54 Å
ligand ANP, MG enzyme Hydrolase E.C. BRENDA
A, B

Primary referenceAllosteric communication in the Dynein motor domain., Bhabha G, Cheng HC, Zhang N, Moeller A, Liao M, Speir JA, Cheng Y, Vale RD, Cell. 2014 Nov 6;159(4):857-68. doi: 10.1016/j.cell.2014.10.018. PMID:25417161
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2633 Kb) [Save to disk]
  • Biological Unit Coordinates (4w8f.pdb1.gz) 1314 Kb
  • Biological Unit Coordinates (4w8f.pdb2.gz) 1321 Kb
  • Biological Unit Coordinates (4w8f.pdb3.gz) 2622 Kb
  • LPC: Ligand-Protein Contacts for 4W8F
  • CSU: Contacts of Structural Units for 4W8F
  • Structure Factors (888 Kb)
  • Retrieve 4W8F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4W8F from S2C, [Save to disk]
  • Re-refined 4w8f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4W8F 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 4W8F
  • 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 4W8F, from MSDmotif at EBI
  • Fold representative 4w8f from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4w8f_A] [4w8f_B] [4w8f]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4W8F: [AAA ] by SMART
  • Other resources with information on 4W8F
  • Community annotation for 4W8F at PDBWiki (http://pdbwiki.org)

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