Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 20.48 kDa 
• Atom Count: 1523 
• Modelled Residue Count: 157 
• Deposited Residue Count: 174 
• Unique protein chains: 1

1ZNG

Strong Solute-Solute Dispersive Interactions in a Protein-Ligand Complex

• PDB DOI: 10.2210/pdb1ZNG/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-05-11 Released: 2005-12-20 
• Deposition Author(s): Malham, R., Johnstone, S., Bingham, R.J., Barratt, E., Phillips, S.E., Laughton, C.A., Homans, S.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.216 
• R-Value Work: 0.188 
• R-Value Observed: 0.190 

Literature

Strong Solute-Solute Dispersive Interactions in a Protein-Ligand Complex.

Malham, R., Johnstone, S., Bingham, R.J., Barratt, E., Phillips, S.E., Laughton, C.A., Homans, S.W.

(2005) J Am Chem Soc 127: 17061-17067

• PubMed: 16316253 
• DOI: 10.1021/ja055454g
• Primary Citation of Related Structures:  
  1ZND, 1ZNE, 1ZNG, 1ZNH, 1ZNK, 1ZNL


• PubMed Abstract: 
  

The contributions of solute-solute dispersion interactions to binding thermodynamics have generally been thought to be small, due to the surmised equality between solute-solvent dispersion interactions prior to the interaction versus solute-solute dispersion interactions following the interaction. The thermodynamics of binding of primary alcohols to the major urinary protein (MUP-I) indicate that this general assumption is not justified. The enthalpy of binding becomes more favorable with increasing chain length, whereas the entropy of binding becomes less favorable, both parameters showing a linear dependence. Despite the hydrophobicity of the interacting species, these data show that binding is not dominated by the classical hydrophobic effect, but can be attributed to favorable ligand-protein dispersion interactions.

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Organizational Affiliation: 

Astbury Centre for Structural Molecular Biology, School of Biochemistry & Molecular Biology, University of Leeds, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major Urinary Protein	A	174	Mus musculus	Mutation(s): 0  Gene Names: MUP1, Mup2
UniProt
Find proteins for P11589 (Mus musculus) Explore P11589  Go to UniProtKB:  P11589

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HE4	D [auth A]	HEPTAN-1-OL C7 H16 O BBMCTIGTTCKYKF-UHFFFAOYSA-N
CD	B [auth A], C [auth A]	CADMIUM ION Cd WLZRMCYVCSSEQC-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
HE4	BindingDB:  1ZNG	-TΔS: 20.91 (kJ/mol) from 1 assay(s)
		ΔG: -3.25e+1 (kJ/mol) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.216 
• R-Value Work: 0.188 
• R-Value Observed: 0.190 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.607	α = 90
b = 53.607	β = 90
c = 137.381	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
CNS	refinement
CCP4	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-05-11 
• Released Date: 2005-12-20 
Deposition Author(s): Malham, R., Johnstone, S., Bingham, R.J., Barratt, E., Phillips, S.E., Laughton, C.A., Homans, S.W.

Revision History  

• Version 1.0: 2005-12-20
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance