1ZAN

Crystal structure of anti-NGF AD11 Fab


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.242 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.196 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Dissecting NGF interactions with TrkA and p75 receptors by structural and functional studies of an anti-NGF neutralizing antibody.

Covaceuszach, S.Cassetta, A.Konarev, P.V.Gonfloni, S.Rudolph, R.Svergun, D.I.Lamba, D.Cattaneo, A.

(2008) J Mol Biol 381: 881-896

  • DOI: 10.1016/j.jmb.2008.06.008
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The anti-nerve growth factor (NGF) monoclonal antibody alphaD11 is a potent antagonist that neutralizes the biological functions of its antigen in vivo. NGF antagonism is expected to be a highly effective and safe therapeutic approach in many pain st ...

    The anti-nerve growth factor (NGF) monoclonal antibody alphaD11 is a potent antagonist that neutralizes the biological functions of its antigen in vivo. NGF antagonism is expected to be a highly effective and safe therapeutic approach in many pain states. A comprehensive functional and structural analysis of alphaD11 monoclonal antibody was carried out, showing its ability to neutralize NGF binding to either tropomyosine receptor kinase A (TrkA) or p75 receptors. The 3-D structure of the alphaD11 Fab fragment was solved at 1.7 A resolution. A computational docking model of the alphaD11 Fab-NGF complex, based on epitope mapping using a pool of 44 NGF mutants and experimentally validated by small-angle X-ray scattering, provided the structural basis for identifying the residues involved in alphaD11 Fab binding. The present study pinpoints loop II of NGF to be an important structural determinant for NGF biological activity mediated by TrkA receptor.


    Related Citations: 
    • Purification, crystallization, X-ray diffraction analysis and phasing of a Fab fragment of monoclonal neuroantibody AD11 against nerve growth factor.
      Covaceuszach, S., Cassetta, A., Cattaneo, A., Lamba, D.
      (2004) Acta Crystallogr D Biol Crystallogr D60: 1323

    Organizational Affiliation

    Lay Line Genomics SpA, via di Castel Romano 100, I-00128 Rome, Italy.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Fab AD11 Light ChainL214Rattus norvegicusMutation(s): 0 
Gene Names: LOC500183
Find proteins for Q4KM66 (Rattus norvegicus)
Explore Q4KM66 
Go to UniProtKB:  Q4KM66
Protein Feature View
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  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Fab AD11 Heavy ChainH224Rattus norvegicusMutation(s): 0 
Find proteins for P84751 (Mus musculus)
Explore P84751 
Go to UniProtKB:  P84751
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download CCD File 
L
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.242 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.196 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 114.801α = 90
b = 69.354β = 117.02
c = 64.104γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing
CNSrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-04-04
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance