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Table 3 Structural predictions for Caenorhabditis LBDs by sequence threading

From: Analysis of C. elegans NR2E nuclear receptors defines three conserved clades and ligand-independent functions

LBD

Best structural match

PDB ID

P

CbNHR-67

H. sapiens NR2C2 TR4 LBD

3p0u

1 x 10-6

CeNHR-67

H. sapiens NR2C2 TR4 LBD

3p0u

9 x 10-7

CbFAX-1

H. sapiens NR2F2 COUP LBD

3cjw

0.024

CeFAX-1

H. sapiens NR2F2 COUP LBD

3cjw

0.003

CeNHR-111

H. sapiens NR2F2 COUP LBD

3cjw

1 x 10-5

CbNHR-239

No significant matches.

-

> 0.10

CeNHR-239

No significant matches.

-

> 0.05

  1. Probability values (P) and top match for Caenorhabditis LBDs based on PsiPred and pGenThreader [52, 53]. Additional significant matches to known NR LBD structures were obtained for each protein, however the significance of matches for both FAX-1 LBDs was low. Species abbreviations are given in Figure 1.