3NYL Cell Adhesion date Jul 15, 2010
title The X-Ray Structure Of An Antiparallel Dimer Of The Human Am Precursor Protein E2 Domain
authors Y.Ha, J.Hu, S.Lee, X.Liu, Y.Wang
compound source
Molecule: Amyloid Beta (A4) Protein (Peptidase Nexin-II, Al Disease), Isoform Cra_b;
Chain: A
Fragment: Unp Residues 346-551
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: App, Hcg_1810805
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28
symmetry Space Group: I 4 2 2
R_factor 0.258 R_Free 0.322
length a length b length c angle alpha angle beta angle gamma
83.589 83.589 147.341 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
note 3NYL supersedes 1RW6
Gene HCG

Primary referenceThe X-ray structure of an antiparallel dimer of the human amyloid precursor protein E2 domain., Wang Y, Ha Y, Mol Cell. 2004 Aug 13;15(3):343-53. PMID:15304215
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (36 Kb) [Save to disk]
  • Biological Unit Coordinates (3nyl.pdb1.gz) 61 Kb
  • CSU: Contacts of Structural Units for 3NYL
  • Structure Factors (50 Kb)
  • Retrieve 3NYL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3NYL from S2C, [Save to disk]
  • Re-refined 3nyl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3NYL in 3D
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  • Visual 3D analysis of 3NYL
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  • 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 3NYL, from MSDmotif at EBI
  • Fold representative 3nyl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3nyl_A] [3nyl]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3NYL
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