3UMI

X-ray structure of the E2 domain of the human amyloid precursor protein (APP) in complex with zinc


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.204

Literature

Macromolecules
Sequence Display for 3UMI

Classification: METAL BINDING PROTEIN

Total Structure Weight: 26086.14

Macromolecule Entities
Molecule Chains Length Organism Details
Amyloid beta A4 protein A 211 Homo sapiens Fragment: HUMAN AMYLOID PRECURSOR PROTEIN E2 DOMAIN
Gene Name(s): APP Gene View A4 AD1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CD
Query on CD

A CADMIUM ION
Cd
WLZRMCYVCSSEQC-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.204
  • Space Group: P 43

Unit Cell:

Length (Å) Angle (°)
a = 39.76 α = 90.00
b = 39.76 β = 90.00
c = 126.43 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2011-11-13
  • Released Date: 2012-01-25
  • Deposition author(s): Dahms, S.O., Konnig, I., Roeser, D., Guhrs, K.H., Than, M.E.

Revision History

  • Version 1_0: 2012-01-25

    Type: Initial release

  • Version 1_1: 2012-02-22

    Type: Database references

  • Version 1_2: 2017-11-08

    Type: Advisory, Refinement description