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Table 2 Organization and observation of ABC-type carbohydrate uptake transporters in genome, transcriptome and proteome of C. stercorarium DSM8532 T

From: Enhanced whole genome sequence and annotation of Clostridium stercorarium DSM8532T using RNA-seq transcriptomics and high-throughput proteomics

Cluster

Order of genes in cluster2

Peptide coverage (%):

Loci range1

Strand

IMG/ER

ABCdb

 

Clst_0059-0061

+

S-S-M

M-M-X

0/4/11

Clst_0109-0112

+

M-M-S-S

M-M-X-S

0/0/0/0

Clst_0194-0196

+

S-S-M

S-M-M

53/10/13

Clst_0200-0202

+

S-S-M

M-M-S

0/0/2

Clst_0209-0211

+

S-M-S

S-M-M

4/0/0

Clst_0215-0217

+

S-S-M

M-M-S

0/0/37

Clst_0218-0221

+

S-S-S-M

S-S-M-M

8/16/0/0

Clst_0228-0230

+

M-M-S

M-M-S

0/0/36

Clst_0432-0434

+

M-M-S

M-M-S

0/0/10

Clst_0444-0446

−

S-M-S

S-M-M

0/0/5

Clst_0456-0460*

+

N-N-M-S-M

N-N-M-M-S

12/2/0/2/9

Clst_0472-0473

+

M-M

M-M

0/0

Clst_0476

+

S

S

0

Clst_0479-0481

+

S-M-M

S-M-M

34/0/5

Clst_0582

−

S

S

0

Clst_0627-0629

+

S-M-M

S-M-M

24/3/7

Clst_0666-0667

+

S-S

X-M

0/0

Clst_0673-0674

+

M-M

M-M

0/0

Clst_0797-0799

−

M-M-S

M-M-S

16/3/4

Clst_0805-0807

−

M-M-S

M-M-X

18/0/0

Clst_0848-0850

−

S-M-M

S-M-M

4/0/34

Clst_0934-0936

+

M-S-S

S-M-M

24/0/3

Clst_0969-0971

+

S-S-M

M-M-S

0/0/6

Clst_0993-0995

+

S-S-S

M-M-S

0/0/4

Clst_1007-1008

+

M-S

M-M

0/0

Clst_1068-1070

+

M-S-S

S-M-M

5/0/0

Clst_1073-1075

+

S-M-S

M-M-S

0/0/18

Clst_1077-1079

+

M-M-S

S-M-M

3/4/0

Clst_1083-1085

+

S-S-M

M-M-S

0/0/18

Clst_1566-1567

−

M-S

M-M

0/0

Clst_1587-1589

−

M-S-S

S-M-M

0/0/29

Clst_1635-1637

+

S-M-S

S-M-M

24/0/0

Clst_2117-2119

−

M-M-S

M-M-S

0/0/0

Clst_2139-2141

−

S-M-M

S-M-M

0/0/15

Clst_2159-2161

−

M-M-S

S-M-M

14/22/28

Clst_2245-2247

−

S-M-M

S-M-M

0/0/36

Clst_2458-2460*

+

M-N-S

S-N-M

59/69/9

Clst_2539-2541

−

S-M-S

S-M-M

28/0/0

Clst_2544

−

M

S

23

Clst_2579

−

N

N

41

Clst_2595-2597

−

S-S-M

S-M-M

0/0/43

Clst_2619-2621

−

S-M-S

M-M-X

28/4/9

  1. 1Range of loci in genome for genes in cluster (ie. Clst_0059-Clst_0061), 2Order of genes in cluster according to IMG Expert Review annotation platform (IMG/ER) or the ABC transporter database (ABCdb), S = Solute-binding protein, M = Transmembrane domain, N = nucleotide (ATP)-binding domain, X = No match in ABCdb, *Indicates that genes in cluster belong to Carbohydrate Uptake Transporter family 2 (CUT2).