3CD4

REFINEMENT AND ANALYSIS OF THE FIRST TWO DOMAINS OF HUMAN CD4


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Work: 0.197 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Refinement and analysis of the structure of the first two domains of human CD4

Garrett, T.P.J.Wang, J.Yan, Y.Liu, J.Harrison, S.C.

(1993) J.Mol.Biol. 234: 763-778

  • DOI: 10.1006/jmbi.1993.1625

  • PubMed Abstract: 
  • The structure of a fragment of human CD4 containing two immunoglobulin (Ig)-like domains has been determined by X-ray crystallography and refined at 2.2 A resolution. The structure determination involved iterative building and simulated-annealing ref ...

    The structure of a fragment of human CD4 containing two immunoglobulin (Ig)-like domains has been determined by X-ray crystallography and refined at 2.2 A resolution. The structure determination involved iterative building and simulated-annealing refinement, beginning with a partial model. Comparison of domain 1 with an Ig variable domain shows that CD4 has a long and prominent CDR2-like loop (the C"C" corner) and shortened CC' and FG loops (which mediate dimerization in IgV modules). Comparison of domain 2 with Ig modules and domain 1 shows that it can be described as a truncated Ig V domain, in which strands C" and D are deleted. The intersheet disulfide in domain 2 is absent, and there is an altered packing of the two beta-sheets together with a remodeling of the hydrophobic core. The interface between domains 1 and 2 is a lap joint with an extensive hydrophobic surface. The key features of domain 1 that contribute to the interface are found at corresponding positions in domain 2, leading us to propose that the contact between domains 2 and 3 will resemble the one between domains 1 and 2.


    Related Citations: 
    • Atomic Structure of a Fragment of Human Cd4 Containing Two Immunoglobulin-Like Domains
      Wang, J.,Yan, Y.,Garrett, T.P.J.,Liu, J.,Rodgers, D.,Garlick, R.L.,Tarr, G.E.,Husain, Y.,Reinherz, E.L.,Harrison, S.C.
      (1990) Nature 348: 411


    Organizational Affiliation

    Howard Hughes Medical Institute, Cambridge, MA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
T CELL SURFACE GLYCOPROTEIN CD4
A
182Homo sapiensMutation(s): 0 
Gene Names: CD4
Find proteins for P01730 (Homo sapiens)
Go to Gene View: CD4
Go to UniProtKB:  P01730
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Work: 0.197 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 84.230α = 90.00
b = 30.650β = 118.43
c = 88.940γ = 90.00
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORphasing
X-PLORrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1993-10-31
    Type: Initial release
  • Version 1.1: 2008-03-25
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance