4NNM | pdb_00004nnm

Tax-Interacting Protein-1 (TIP-1) PDZ domain bound to Y-iCAL36 (YPTSII) peptide

• PDB DOI: https://doi.org/10.2210/pdb4NNM/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2013-11-18 Released: 2015-01-21 
• Deposition Author(s): Amacher, J.F., Madden, D.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.249 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.205 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.207 (Depositor) 

Starting Model: experimental

Literature

A CAL Inhibitor with Single-PDZ Specificity Rescues deltaF508-CFTR

Cushing, P.R., Amacher, J.F., Vouilleme, L., Culatti, S., Deng, B., Gerber, S.A., Boisguerin, P., Madden, D.R.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 26.49 kDa 
• Atom Count: 2,035 
• Modeled Residue Count: 235 
• Deposited Residue Count: 236 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tax1-binding protein 3	A, B	112	Homo sapiens	Mutation(s): 0  Gene Names: TAX1BP3, TIP1
UniProt & NIH Common Fund Data Resources
Find proteins for O14907 (Homo sapiens) Explore O14907  Go to UniProtKB:  O14907
PHAROS:  O14907 GTEx:  ENSG00000213977

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
TIP-1 PDZ domain	C, D	6	N/A	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	E [auth A], F [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.249 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.205 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.207 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 27.009	α = 79.62
b = 35.043	β = 87.61
c = 65.626	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHENIX	model building
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-01-21 
Deposition Author(s): Amacher, J.F., Madden, D.R.

Revision History  

• Version 1.0: 2015-01-21
  Type: Initial release
  
• Version 1.1: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description