4E0M Protein Fibril date Mar 04, 2012
title Svqivyk Segment From Human Tau (305-311) Displayed On 54-Mem Macrocycle Scaffold (Form I)
authors M.Zhao, C.Liu, S.R.Michael, D.Eisenberg
compound source
Molecule: Cyclic Pseudo-Peptide Svqivyk(Orn)Ef(Hao)(4bf)K(O
Chain: A, B, C, D
Engineered: Yes
Synthetic: Yes
Other_details: Synthetic Molecule
symmetry Space Group: C 1 2 1
R_factor 0.185 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
58.320 25.340 50.780 90.00 122.19 90.00
method X-Ray Diffractionresolution 1.75 Å
ligand 4BF, HAO, MPD, ORN, PO4 enzyme
Primary referenceOut-of-register beta-sheets suggest a pathway to toxic amyloid aggregates., Liu C, Zhao M, Jiang L, Cheng PN, Park J, Sawaya MR, Pensalfini A, Gou D, Berk AJ, Glabe CG, Nowick J, Eisenberg D, Proc Natl Acad Sci U S A. 2012 Dec 3. PMID:23213214
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (31 Kb) [Save to disk]
  • Biological Unit Coordinates (4e0m.pdb1.gz) 13 Kb
  • Biological Unit Coordinates (4e0m.pdb2.gz) 13 Kb
  • LPC: Ligand-Protein Contacts for 4E0M
  • CSU: Contacts of Structural Units for 4E0M
  • Structure Factors (123 Kb)
  • Retrieve 4E0M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4E0M from S2C, [Save to disk]
  • Re-refined 4e0m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4E0M 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 4E0M
  • 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 4E0M, from MSDmotif at EBI
  • Fold representative 4e0m from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4e0m_D] [4e0m_B] [4e0m_C] [4e0m] [4e0m_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4E0M
  • Community annotation for 4E0M at PDBWiki (http://pdbwiki.org)

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