1FLR

4-4-20 FAB FRAGMENT


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Observed: 0.188 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

1.85 A structure of anti-fluorescein 4-4-20 Fab.

Whitlow, M.Howard, A.J.Wood, J.F.Voss Jr., E.W.Hardman, K.D.

(1995) Protein Eng 8: 749-761

  • DOI: 10.1093/protein/8.8.749
  • Primary Citation of Related Structures:  
    1FLR

  • PubMed Abstract: 
  • The crystal complex of fluorescein bound to the high-affinity anti-fluorescein 4-4-20 Fab (Ka = 10(10) M-1 at 2 degrees C) has been determined at 1.85 A. Isomorphous crystals of two isoelectric forms (pI = 7.5 and 7.9) of the anti-fluorescein 4-4-20 ...

    The crystal complex of fluorescein bound to the high-affinity anti-fluorescein 4-4-20 Fab (Ka = 10(10) M-1 at 2 degrees C) has been determined at 1.85 A. Isomorphous crystals of two isoelectric forms (pI = 7.5 and 7.9) of the anti-fluorescein 4-4-20 Fab, an IgG2A [Gibson et al. (1988) Proteins: Struct. Funct. Genet., 3, 155-160], have been grown. Both complexes crystallize with one molecule in the asymmetric unit in space group P1, with a = 42.75 A, b = 43.87 A, c = 58.17 A, alpha = 95.15 degrees, beta = 86.85 degrees and gamma = 98.01 degrees. The final structure has an R value of 0.188 at 1.85 A resolution. Interactions between bound fluorescein, the complementarity-determining regions (CDRs) of the Fab and the active-site mutants of the 4-4-20 single-chain Fv will be discussed. Differences were found between the structure reported here and the previously reported 2.7 A 4-4-20 Fab structure [Herron et al. (1989) Proteins: Struct. Funct. Genet., 5, 271-280]. Our structure determination was based on 26,328 unique reflections--four times the amount of data used in the previous report. Differences in the two structures could be explained by differences in interpreting the electron density maps at the various resolutions. The r.m.s. deviations between the variable and constant domains of the two structures were 0.77 and 1.54 A, respectively. Four regions of the light chain and four regions of the heavy chain had r.m.s. backbone deviations of > 4 A. The most significant of these was the conformation of the light chain CDR 1.


    Related Citations: 
    • Three-Dimensional Structure of a Fluorescein-Fab Complex Crystallized in 2-Methyl-2,4-Pentanediol
      Herron, J.N., He, X., Mason, M.L., Voss Junior, E.W., Edmundson, A.B.
      (1989) Proteins 5: 271
    • Differences in Crystal Properties and Ligand Affinities of an Antifluorescyl Fab (4-4-20) in Two Solvent Systems
      Gibson, A.L., Herron, J.N., He, X.-M., Patrick, V.A., Mason, M.L., Lin, J.-N., Kranz, D.M., Voss Junior, E.W., Edmundson, A.B.
      (1988) Proteins 3: 155
    • Comparison of Variable Region Primary Structures within an Anti-Fluorescein Idiotype Family
      Bedzyk, W.D., Johnson, L.S., Riordon, G.S., Voss, E.W.
      (1989) J Biol Chem 264: 1565

    Organizational Affiliation

    Enzon Incorporated, Research and Development Department, Piscataway, NJ 08854-3998, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
4-4-20 (IG*G2A=KAPPA=) FAB FRAGMENTH219Mus musculusMutation(s): 0 
Gene Names: Igh-1a
Find proteins for P01865 (Mus musculus)
Explore P01865 
Go to UniProtKB:  P01865
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
4-4-20 (IG*G2A=KAPPA=) FAB FRAGMENTL219Mus musculusMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FLU
Query on FLU

Download CCD File 
L
2-(6-HYDROXY-3-OXO-3H-XANTHEN-9-YL)-BENZOIC ACID
C20 H12 O5
YKGGGCXBWXHKIZ-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
FLUKd:  0.10000000149011612   nM  Binding MOAD
FLUKd :  0.10000000149011612   nM  PDBBind
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Observed: 0.188 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 42.75α = 95.15
b = 43.87β = 86.85
c = 58.17γ = 98.01
Software Package:
Software NamePurpose
XENGENdata collection
PROFFTrefinement
XENGENdata reduction

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 1995-01-19 
  • Released Date: 1995-09-15 
  • Deposition Author(s): Whitlow, M.

Revision History 

  • Version 1.0: 1995-09-15
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Atomic model, Version format compliance