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Table 2 Summary of conformational differences between PTS1-liganded and apo-Pex5p(C).

From: A previously unobserved conformation for the human Pex5p receptor suggests roles for intrinsic flexibility and rigid domain motions in ligand binding

DynDomaparameters Pex5p(C)/mSCP2bversus previous apo-Pex5p(C)c Pex5p(C)/mSCP2bversus new apo-Pex5p(C)d new apo-Pex5p(C)dversus previous apo-Pex5p(C)c
Whole protein residues 335–639 335–639 315–639
Whole protein RMSD (Å 2 ) 3.06 3.26 2.20
Fixed domain residues 337–523 337–518 323–485
Fixed domain RMSD (Å 2 ) 1.40 2.32 0.71
Rotation angle (°) 19.7 20.0 14.2
Translation along axis (Å) -0.7 -0.1 0.1
Bending residues 495–500 (end of TPR5 helix A) 523–524 (start of TPR6 helix A) 533–537 (end of TPR6 helix A) 519–520 (loop connection TPRs 5 and 6) 530–531 (middle of TPR6 helix A) 535–536 (end of TPR6 helix A) 588–601 (entire 7C-loop) 485–489 (loop connecting TPRs 4 and 5) 496–499 (end of TPR5 helix A)
% Closure motion 92.0 83.8 1.7
  1. aAs described in [11] and [47]
  2. bAs described in [9], PDB indentifier 2C0L.
  3. cAs described in [9], PDB indentifier 2C0M.
  4. dAs described in this study, PDB identifier 2J9Q.