1DCL

MCG, A LAMBDA V TYPE LIGHT-CHAIN DIMER (BENCE-JONES PROTEIN), CRYSTALLIZED FROM AMMONIUM SULFATE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Work: 0.140 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Three-dimensional structure of a light chain dimer crystallized in water. Conformational flexibility of a molecule in two crystal forms.

Ely, K.R.Herron, J.N.Harker, M.Edmundson, A.B.

(1989) J.Mol.Biol. 210: 601-615

  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The three-dimensional structure of an immunoglobulin light chain dimer (Mcg) crystallized in deionized water (orthorhombic form) was determined at 2.0 A resolution by phase extension and crystallographic refinement. This structure was refined side-by ...

    The three-dimensional structure of an immunoglobulin light chain dimer (Mcg) crystallized in deionized water (orthorhombic form) was determined at 2.0 A resolution by phase extension and crystallographic refinement. This structure was refined side-by-side with that of the same molecule crystallized in ammonium sulfate (trigonal form). The dimer adopted markedly different structures in the two solvents. "Elbow bend" angles between pseudo 2-fold axes of rotation relating pairs of "variable" (V) and "constant" (C) domains were found to be 132 degrees in the orthorhombic form and 115 degrees in the trigonal form. Modes of association of the V domains and, to a lesser extent, the pairing interactions of the C domains were different in the two structures. Alterations in the V domain pairing were reflected in the shapes of the binding regions and in the orientations of the side-chains lining the walls of the binding sites. In the trigonal form, for instance, the V domain interface was compartmentalized into a main binding cavity and a deep pocket, whereas these spaces were continuous in the orthorhombic structure. Patterns of ordered water molecules were quite distinct in the two crystal types. In some cases, the solvent structures could be correlated with conformational changes in the proteins. For example, close contacts between V and C domains of monomer 1 of the trigonal form were not retained in orthorhombic crystals. Ordered water molecules filled the space created when the two domains moved apart.


    Related Citations: 
    • The Refinement and Structure of Mcg Bence-Jones Dimer at 2.3 Angstroms Resolution
      Xu, Z.B.,Schiffer, M.
      (1988) Am.Cryst.Assoc.,Abstr.Papers (Annual Meeting) 16: 74
    • Structure of a Lambda-Type Bence-Jones Protein at 3.5-A Resolution
      Schiffer, M.,Girling, R.L.,Ely, K.R.,Edmundson, A.B.
      (1973) Biochemistry 12: 4620


    Organizational Affiliation

    Department of Biology, University of Utah, Salt Lake City 84112.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MCG
A, B
216Homo sapiensMutation(s): 0 
Gene Names: IGLV2-8
Find proteins for P01709 (Homo sapiens)
Go to UniProtKB:  P01709
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Work: 0.140 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 72.300α = 90.00
b = 72.300β = 90.00
c = 185.900γ = 120.00
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 1995-10-16 
  • Released Date: 1997-05-15 
  • Deposition Author(s): Schiffer, M., Xu, Z.B.

Revision History 

  • Version 1.0: 1997-05-15
    Type: Initial release
  • Version 1.1: 2008-03-25
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance