Table 2

50 PFAM categories most expanded in the Mtb clade relative to the non-pathogenic, soil-dwelling Mycobacteria

PFAM name

PFAM ID

p-valuea

inter-to-intra-

centroid difference


b PIN domain

PF01850

4.20E-09

1.10E+01


GHMP kinases C terminal

PF08544

1.00E-08

8.80E+00


DHHA1 domain

PF02272

2.10E-08

6.80E+00


KGG Stress-induced bacterial acidophilic repeat motif

PF10685

6.70E-08

6.20E+00


b Protein of unknown function (DUF1396) (lipoproteins within cell wall)

PF07161

4.10E-07

9.20E+00


b Rv0623-like transcription factor (toxin-antitoxin-related)

PF07704

9.30E-07

1.00E+01


Tetratricopeptide repeat

PF07720

9.90E-07

8.60E+00


PA domain

PF02225

1.00E-06

6.40E+00


c Patatin-like phospholipase

PF01734

1.20E-06

9.20E+00


e Protein of unknown function (DUF1490)

PF07371

1.20E-06

1.00E+01


4 FAD binding domain

PF01565

1.30E-06

6.40E+00


Fumarate reductase/succinate dehydrog. flavoprotein C-term domain

PF02910

1.50E-06

5.90E+00


FIST C domain

PF10442

2.00E-06

1.20E+01


Corticotropin ACTH domain

PF00976

2.30E-06

6.00E+00


c Beta-ketoacyl synthase, N-terminal domain

PF00109

2.40E-06

5.00E+00


IlvB leader peptide

PF08049

4.20E-06

3.50E+00


c Beta-ketoacyl synthase, C-terminal domain

PF02801

4.50E-06

4.80E+00


c Acyl transferase domain

PF00698

4.60E-06

5.20E+00


b PPE family (antigenic variability)

PF00823

5.60E-06

1.00E+01


b Proteins of 100 residues with WXG (esx-related)

PF06013

7.10E-06

7.90E+00


b Phd YefM (toxin-antitoxin-related)

PF02604

7.70E-06

9.00E+00


Ponericin

PF07442

7.70E-06

8.70E+00


b Plasmid stabilization system protein (toxin-antitoxin-related)

PF05016

9.90E-06

9.30E+00


Threonine leader peptide

PF08254

1.10E-05

8.90E+00


Toxin 33 Waglerin family

PF08121

2.20E-05

3.20E+00


Phosphatidylethanolamine-binding protein

PF01161

2.20E-05

7.30E+00


b PemK-like protein (toxin-antitoxin-related)

PF02452

3.10E-05

9.00E+00


Erythronolide synthase docking

PF08990

5.60E-05

7.30E+00


d Radical SAM superfamily

PF04055

5.80E-05

3.90E+00


d ThiS family

PF02597

6.60E-05

5.60E+00


b Pentapeptide repeats (8 copies)

PF01469

1.20E-04

1.00E+01


Rubredoxin

PF00301

1.30E-04

3.80E+00


d Pterin 4 alpha carbinolamine dehydratase

PF01329

1.50E-04

8.80E+00


Leucine rich repeat N-terminal domain

PF01462

1.60E-04

1.00E+01


e Domain of unknown function (DUF1610)

PF07754

2.10E-04

2.40E+00


SEC-C motif

PF02810

2.30E-04

3.00E+00


d MoaC family

PF01967

2.60E-04

7.10E+00


Berberine and berberine like

PF08031

2.70E-04

9.30E+00


Cytochrome B6-F complex subunit VI (PetL)

PF05115

2.80E-04

9.40E+00


Region found in RelA/SpoT proteins

PF04607

3.00E-04

5.00E+00


Quinolinate phosphoribosyl transferase, C-terminal domain

PF01729

3.30E-04

4.20E+00


Fumarate reductase subunit C

PF02300

3.70E-04

1.00E+01


LHC Antenna complex alpha/beta subunit

PF00556

5.00E-04

3.20E+00


RNPHF zinc finger

PF08080

5.10E-04

6.50E+00


Protein of unknown function (DUF1416)

PF07210

5.20E-04

9.60E+00


PsbJ

PF01788

5.40E-04

3.70E+00


Bacterial transferase hexapeptide (three repeats)

PF00132

5.50E-04

3.00E+00


N Chalcone and stilbene synthases, N-terminal domain

PF00195

6.60E-04

8.40E+00


d MoaE protein

PF02391

8.00E-04

7.80E+00


b Protein of unknown function (DUF1066) (esx)

PF06359

8.30E-04

1.10E+01


a Bonferroni-corrected p-value calculated from T-test

b pathogenicity or survival within the host

c Lipid metabolism

d Pterin cofactor biosynthesis

e unknown function

McGuire et al. BMC Genomics 2012 13:120   doi:10.1186/1471-2164-13-120

Open Data