1REI

THE MOLECULAR STRUCTURE OF A DIMER COMPOSED OF THE VARIABLE PORTIONS OF THE BENCE-JONES PROTEIN REI REFINED AT 2.0 ANGSTROMS RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The molecular structure of a dimer composed of the variable portions of the Bence-Jones protein REI refined at 2.0-A resolution.

Epp, O.Lattman, E.E.Schiffer, M.Huber, R.Palm, W.

(1975) Biochemistry 14: 4943-4952

  • DOI: 10.1021/bi00693a025
  • Primary Citation of Related Structures:  
    1REI

  • PubMed Abstract: 
  • The structure of the variable portions of a K-type Bence-Jones protein REI forming a dimer has been determined by X-ray diffraction to a resolution of 2.0 A. The structure has been refined using a constrained crystallographic refinement procedure. Th ...

    The structure of the variable portions of a K-type Bence-Jones protein REI forming a dimer has been determined by X-ray diffraction to a resolution of 2.0 A. The structure has been refined using a constrained crystallographic refinement procedure. The final R value is 0.24 for 15000 significantly measured reflections; the estimated standard deviation of atomic positions is 0.09 A. A more objective assessment of the error in the atomic positions is possible by comparing the two independently refined monomers. The mean deviation of main-chain atoms of the two chains in internal segments in 0.22 A, of main-chain dihedral angles 6.3 degrees for these segments. The unrefined molecular structure of the VREI dimer has been published (Epp, O., Colman, P., Fehlhammer, H., Bode, W., Schiffer, M., Huber, R., and Palm, W. (1974), Eur. J. Biochem. 45, 513). Now a detailed analysis is presented in terms of hydrogen bonds and conformational angles. Secondary structural elements (antiparallel beta structure, reverse turns) are defined. A more precise atomic arrangement of the amino acid residues forming the contact region and the hapten binding site is given as well as the localization of solvent molecules. Two cis-prolines (Pro-8 and Pro-95) were detected. The intrachain disulfide bridge (Cys-23-Cys-88) occurs statistically in two alternative conformations. The structure suggests reasons for strong conservation of several amino acid residues. The knowledge of the refined molecular structure enables crystal structure analyses of related molecules to be made by Patterson search techniques. The calculated phases based on the refined structure are much improved compared to isomorphous phases. Therefore the effects of hapten binding on the molecular structure can be analyzed by the difference Fourier technique with more reliability. Hapten binding studies have been started.


    Related Citations: 
    • Crystal and Molecular Structure of a Dimer Composed of the Variable Portions of the Bence-Jones Protein Rei
      Epp, O., Colman, P., Fehlhammer, H., Bode, W., Schiffer, M., Huber, R., Palm, W.
      (1974) Eur J Biochem 45: 513

    Organizational Affiliation

    Nanyang Technological University, Division of Structural & Computational Biology, School of Biological Sciences, 60 Nanyang Drive, Singapore 637551, Republic of Singapore.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
BENCE-JONES PROTEIN REI (LIGHT CHAIN)AB107Homo sapiensMutation(s): 0 
Gene Names: IGKV1D-33
Find proteins for P01593 (Homo sapiens)
Explore P01593 
Go to UniProtKB:  P01593
NIH Common Fund Data Resources
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.8α = 90
b = 75.8β = 90
c = 98.2γ = 120

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1976-05-19
    Type: Initial release
  • Version 1.1: 2008-03-03
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-11-29
    Changes: Derived calculations, Other