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Table 3 Presence of the statistical biases in confirmed type III effectors in rhizobia. Feature 1 means at least 10% Ser residues within the first 50 amino acids.

From: Computational prediction of type III secreted proteins from gram-negative bacteria

   

Features

Species

Effector

GI number

1

2

3

Sino

NopA

55668600

0

1

1

 

NopP

63103266

1

0

0

 

NolB

19749321

1

1

1

 

NolX

52631913

1

0

1

 

NopC*

255767012

1

1

1

 

NopL*

2182720

1

1

0

 

NopP*

2182742

1

0

0

 

NopB*

2182730

1

1

1

 

NopX*

2182728

1

0

1

Meso

NopB*

13475298

1

1

1

 

NolX*

13475296

1

1

1

Brady

NodN*

27379070

0

1

0

 

NolB*

27376923

1

0

1

  1. Feature 2 means that an Ile, Leu, Val, or Pro is located at the third or fourth residue of the protein. Feature 3 means no Asp or Glu residues within the first 12 amino acids. The matrix is boolean, i.e., 1 means true and 0 means false. The involved rhizobial species are abbreviated as Sino for Sinorhizobium, Meso for Mesorhizobium, and Brady for Bradyrhizobium. The effectors marked by * are from the four strains considered in this study. The third column lists GI numbers from NCBI GenBank.
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BMC Bioinformatics

ISSN: 1471-2105

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