Biological Assembly 1  

 3D View: Structure | Electron Density

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

 3D View: Structure | Electron Density

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

 3D View: Structure | Electron Density

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 3 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 42877.96 
• Atom Count: 2221 
• Residue Count: 370 
• Unique protein chains: 2

1X11

X11 PTB DOMAIN

• DOI: 10.2210/pdb1X11/pdb

• Classification: COMPLEX (PEPTIDE BINDING MODULE/PEPTIDE)
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 1997-07-28 Released: 1998-01-14 
• Deposition Author(s): Lee, C.-H., Zhang, Z., Kuriyan, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Free: 0.304 
• R-Value Work: 0.214 

Literature

Sequence-specific recognition of the internalization motif of the Alzheimer's amyloid precursor protein by the X11 PTB domain.

Zhang, Z., Lee, C.H., Mandiyan, V., Borg, J.P., Margolis, B., Schlessinger, J., Kuriyan, J.

(1997) EMBO J. 16: 6141-6150

• PubMed: 9321393 
• DOI: 10.1093/emboj/16.20.6141
• Primary Citation of Related Structures:  
  1AQC


• PubMed Abstract: 
  

The crystal structure of the phosphotyrosine-binding domain (PTB) of the X11 protein has been determined, in complex with unphosphorylated peptides corresponding to a region of beta-amyloid precursor protein (betaAPP) that is required for receptor internalization. The mode of binding to X11 of the unphosphorylated peptides, which contain an NPxY motif, resembles that of phosphorylated peptides bound to the Shc and IRS-1 PTB domains. Eight peptide residues make specific contacts with the X11 PTB domain, and they collectively achieve high affinity (KD = 0.32 microM) and specificity. These results suggest that, in contrast to the SH2 domains, the PTB domains are primarily peptide-binding domains that have, in some cases, acquired specificity for phosphorylated tyrosines.

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Organizational Affiliation: 

Department of Pharmacology, New York University Medical Center, 550 First Avenue, New York, NY 10016, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
X11	A, B	172	Homo sapiens	Mutation(s): 0  Gene Names: APBA1 (MINT1, X11)
Find proteins for Q02410 (Homo sapiens) Go to Gene View: APBA1 Go to UniProtKB:  Q02410

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
13-MER PEPTIDE	C, D	13	Homo sapiens	Mutation(s): 0  Gene Names: APP (A4, AD1)
Find proteins for P05067 (Homo sapiens) Go to Gene View: APP Go to UniProtKB:  P05067

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Free: 0.304 
• R-Value Work: 0.214 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 74.600	α = 90.00
b = 74.600	β = 90.00
c = 155.400	γ = 90.00

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing
DENZO	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1997-07-28 
• Released Date: 1998-01-14 
• Deposition Author(s): Lee, C.-H., Zhang, Z., Kuriyan, J.

Revision History 

• Version 1.0: 1998-01-14
  Type: Initial release
• Version 1.1: 2008-03-03
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance