3PEG Lipid Binding Protein date Oct 26, 2010
title Crystal Structure Of Neurofibromins Sec14-Ph Module Containi Patient Derived Duplication (Td)
authors S.Welti, S.Kuen, I.D'Angelo, K.Scheffzek
compound source
Molecule: Neurofibromin
Chain: A
Synonym: Neurofibromatosis-Related Protein Nf-1, Neurofibro Truncated;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nf1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 64 2 2
R_factor 0.223 R_Free 0.264
crystal
cell
length a length b length c angle alpha angle beta angle gamma
104.600 104.600 116.300 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.52 Å
ligand MG, PEV, SO4 enzyme
Primary referenceStructural and biochemical consequences of NF1 associated non-truncating mutations in the Sec14-PH module of neurofibromin., Welti S, Kuhn S, D'Angelo I, Bruugger B, Kaufmann D, Scheffzek K, Hum Mutat. 2010 Nov 18. PMID:21089070
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (91 Kb) [Save to disk]
  • Biological Unit Coordinates (3peg.pdb1.gz) 85 Kb
  • Biological Unit Coordinates (3peg.pdb2.gz) 169 Kb
  • LPC: Ligand-Protein Contacts for 3PEG
  • CSU: Contacts of Structural Units for 3PEG
  • Structure Factors (187 Kb)
  • Retrieve 3PEG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3PEG from S2C, [Save to disk]
  • Re-refined 3peg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3PEG 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 3PEG
  • 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 3PEG, from MSDmotif at EBI
  • Fold representative 3peg from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3peg_B] [3peg_A] [3peg]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3PEG with the sequences similar proteins can be viewed for 3PEG's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3PEG
  • Community annotation for 3PEG at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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