Table 2 A selection of nearly "broad-sense natto group"-specific genes.

From: Conserved accessory genes link a phylogenetically distinct Bacillus subtilis strain from Indian bekang to the Japanese natto clade

SeqName1

The number in broad-sense natto group2

Presence in Bekang strain (1/0)

The number in Group B

Description3

GO IDs

GO Names

Enzyme Codes

Enzyme Names

xerC_6

27

1

2

site-specific integrase

P:GO:0,006,310;

F:GO:0,003,677

P:DNA recombination;

F:DNA binding

  

xerC_9

27

1

1

tyrosine-type recombinase/integrase

P:GO:0,006,310;

F:GO:0,003,677

P:DNA recombination;

F:DNA binding

  

xerD_2

27

1

2

tyrosine-type recombinase/integrase

P:GO:0,006,310;

F:GO:0,003,677

P:DNA recombination;

F:DNA binding

  

xerD_3

27

1

1

site-specific integrase

P:GO:0,006,310;

F:GO:0,003,677

P:DNA recombination;

F:DNA binding

  

group_2454

27

1

0

site-specific integrase

P:GO:0,006,310;

F:GO:0,003,677

P:DNA recombination;

F:DNA binding

  

group_4906

27

1

3

transposase

P:GO:0,006,310;

F:GO:0,003,677;

F:GO:0,140,097

P:DNA recombination;

F:DNA binding;

F:catalytic activity, acting on DNA

  

group_6181

22

1

1

IS21 family transposase

P:GO:0,006,310;

F:GO:0,003,677;

F:GO:0,140,097

P:DNA recombination;

F:DNA binding;

F:catalytic activity, acting on DNA

  

group_1396

25

0

3

helix-turn-helix transcriptional regulator

F:GO:0,003,677

F:DNA binding

  

group_1783

27

1

0

ERCC4 domain-containing protein

F:GO:0,003,677;

F:GO:0,003,824

F:DNA binding;

F:catalytic activity

  

group_1787

27

1

1

host-nuclease inhibitor Gam family protein

F:GO:0,003,677

F:DNA binding

  

group_1890

27

1

1

helix-turn-helix transcriptional regulator

F:GO:0,003,677

F:DNA binding

  

group_2132

27

1

2

helix-turn-helix domain-containing protein

F:GO:0,003,677

F:DNA binding

  

group_2184

27

1

2

helix-turn-helix transcriptional regulator

F:GO:0,003,677

F:DNA binding

  

group_2238

27

1

1

helix-turn-helix transcriptional regulator

F:GO:0,003,677

F:DNA binding

  

group_2240

27

1

1

FtsK/SpoIIIE domain-containing protein

F:GO:0,003,677

F:DNA binding

  

group_2450

27

1

0

phage regulatory protein/antirepressor Ant

F:GO:0,003,677

F:DNA binding

  

group_2451

27

1

0

helix-turn-helix transcriptional regulator

F:GO:0,003,677

F:DNA binding

  

group_2452

27

1

0

helix-turn-helix transcriptional regulator

F:GO:0,003,677

F:DNA binding

  

group_2456

27

1

0

helix-turn-helix transcriptional regulator

F:GO:0,003,677

F:DNA binding

  

group_2457

27

1

0

helix-turn-helix domain-containing protein

F:GO:0,003,677

F:DNA binding

  

group_2531

27

1

0

helix-turn-helix transcriptional regulator

F:GO:0,003,677

F:DNA binding

  

group_2546

27

1

3

helix-turn-helix transcriptional regulator

F:GO:0,003,677

F:DNA binding

  

group_2211

27

1

3

MarR family transcriptional regulator

P:GO:0,006,355;

F:GO:0,140,110

P:regulation of DNA-templated transcription;

F:transcription regulator activity

  

group_2518

27

1

1

sigma factor-like helix-turn-helix DNA-binding protein

P:GO:0,006,355;

F:GO:0,140,110

P:regulation of DNA-templated transcription;

F:transcription regulator activity

  

group_5156

26

1

1

IS3 family transposase

P:GO:0,015,074;

F:GO:0,003,676

P:DNA integration;

F:nucleic acid binding

  

insK

23

1

1

IS3 family transposase

P:GO:0,015,074;

F:GO:0,003,676

P:DNA integration;

F:nucleic acid binding

  

amyE_1

25

0

3

Alpha-amylase

F:GO:0,016,787

P:GO:0,005,975

F:hydrolase activity

P:carbohydrate metabolic process

EC:3.2.1.1

alpha-amylase

bglH_2

26

1

3

Aryl-phospho-beta-D-glucosidase BglH

F:GO:0,016,787

P:GO:0,005,975

F:hydrolase activity

P:carbohydrate metabolic process

EC:3.2.1

Glycosylases

cheC_1

26

1

0

CheY-P phosphatase CheC

F:GO:0,016,787

F:hydrolase activity

EC:3

Hydrolases

cwlA_2

27

1

1

N-acetylmuramoyl-L-alanine amidase

F:GO:0,016,787

P:GO:1,901,135;

F:hydrolase activity

P:carbohydrate derivative metabolic process;

EC:3.5.1.28

N-acetylmuramoyl-L-alanine amidase

lagD

27

1

3

peptide cleavage/export ABC transporter

P:GO:0,055,085;

F:GO:0,005,215; F:GO:0,016,787; F:GO:0,140,096; F:GO:0,140,657

P:transmembrane transport;

F:transporter activity;

F:hydrolase activity;

F:catalytic activity, acting on a protein;

F:ATP-dependent activity

EC:3.4; EC:7.6.2.2; EC:7.2.2; EC:3.6.1.15

Acting on peptide bonds (peptidases);

ABC-type xenobiotic transporter;

Catalysing the translocation of inorganic cations;

nucleoside-triphosphate phosphatase

rocB_1

25

1

2

M20/M25/M40 family metallo-hydrolase

F:GO:0,016,787

F:hydrolase activity

EC:3

Hydrolases

uvrD

22

1

3

ATP-dependent helicase

F:GO:0,016,787

F:hydrolase activity

EC:3

Hydrolases

yesZ_1

26

0

1

Beta-galactosidase YesZ

F:GO:0,016,787

P:GO:0,005,975

F:hydrolase activity

P:carbohydrate metabolic process

EC:3.2.1.23

beta-galactosidase

yesZ_2

27

1

1

Beta-galactosidase YesZ

F:GO:0,016,787

P:GO:0,005,975

F:hydrolase activity

P:carbohydrate metabolic process

EC:3.2.1.23

beta-galactosidase

group_689

27

1

3

ABC transporter ATP-binding protein

P:GO:0,055,085;

F:GO:0,005,215; F:GO:0,016,787; F:GO:0,140,657

P:transmembrane transport;

F:transporter activity;

F:hydrolase activity;

F:ATP-dependent activity

EC:7.2.2; EC:3.6.1.15

Catalysing the translocation of inorganic cations;

nucleoside-triphosphate phosphatase

group_2244

27

1

1

N-acetylmuramoyl-L-alanine amidase

F:GO:0,016,787

P:GO:1,901,135;

F:hydrolase activity

P:carbohydrate derivative metabolic process;

EC:3.5.1.28

N-acetylmuramoyl-L-alanine amidase

group_2498

27

1

1

glucosaminidase domain-containing protein

F:GO:0,016,787

F:hydrolase activity

EC:3.5.1.4

amidase

group_2439

27

1

2

terminase TerL endonuclease subunit

F:GO:0,003,824

F:catalytic activity

  

bioF

27

1

3

8-amino-7-oxononanoate synthase

P:GO:0,006,766;

P:GO:0,006,790;

F:GO:0,016,740

P:vitamin metabolic process;

P:sulfur compound metabolic process;

F:transferase activity

EC:2.3.1.47

8-amino-7-oxononanoate synthase

bglF

27

1

2

PTS beta-glucoside transporter subunit IIABC

P:GO:0,055,085;

F:GO:0,005,215; F:GO:0,016,740; C:GO:0,005,886

P:transmembrane transport;

F:transporter activity;

F:transferase activity;

C:plasma membrane

EC:2.7.1

Transferring phosphorus-containing groups

yheI_2

25

0

2

ABC transporter ATP-binding protein

P:GO:0,006,790;

P:GO:0,055,085; P:GO:0,055,086; F:GO:0,005,215; F:GO:0,016,740; F:GO:0,140,657

P:sulfur compound metabolic process;

P:transmembrane transport;

P:nucleobase-containing small molecule metabolic process;

F:transporter activity;

F:transferase activity;

F:ATP-dependent activity

EC:7.2.2; EC:2.7.1.24

Catalysing the translocation of inorganic cations;

dephospho-CoA kinase

group_2412

26

0

2

acyl-CoA carboxylase subunit beta

P:GO:0,006,629;

F:GO:0,016,740; F:GO:0,016,874

P:lipid metabolic process;

F:transferase activity;

F:ligase activity

EC:6.4.1.3; EC:2; EC:6.4.1.2

propionyl-CoA carboxylase;

Transferases; acetyl-CoA carboxylase

group_2494

26

0

0

PTS glucose transporter subunit IIA

P:GO:0,055,085;

F:GO:0,005,215; F:GO:0,016,740

P:transmembrane transport;

F:transporter activity;

F:transferase activity

EC:2.7.1

Transferring phosphorus-containing groups

rssB_2

27

1

2

two-component system response regulator YesNa

P:GO:0,023,052

P:signaling

  

yveA_2

27

1

3

aspartate/proton symporter AspP

P:GO:0,055,085;

F:GO:0,005,215

P:transmembrane transport;

F:transporter activity

  
  1. 1“SeqName” is the name assigned by the Roary analysis.
  2. 2“The number in broad-sense natto group” includes the count for the Bekang strain.
  3. 3“Description” refers to the annotation in the sequence similarity search. arssB and yesN are synonyms for the same gene.
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