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Table 1 Annotation of genes encoded by the e14 element. The functional annotation of the e14 genes along with the BLAST and FASTA hits, the closest structural homolog if any and the cluster to which the gene belongs are listed. TM indicates the transmembrane region, SS presence of signal sequence, COG, SM, PF, IPR, PS are prefixes to COG, SMART, PFAM, INTERPRO and PROSITE ids respectively. Genes for which direct or indirect evidence for transcriptional or translational expression is available have been indicated with a (+) sign and those genes which are inducible on SOS induction are marked with a (l+) in the last column of the table

From: Analysis of the lambdoid prophage element e14 in the E. coli K-12 genome

Name

Blattner number

Location

Protein length (orientation)

%G+C

Domain architecture and features

Function/similarity (Expression)

YmfD

b1137

659–1324

221 (-)

0.35

IPR001601

Very weak match to Methyltranferase and tellurite resistance TehB (l+)

YmfE

b1138

1325–2029

234 (-)

0.31

TM(22–42, 59–79, 154–174, 186–206)

(l+)

Lit

b1139

2487–3380

297 (+)

0.37

PS00142 TM (61–82, 149–178)

T4 exclusion, Interacts with DNA, is a protease (l+)

IntE

b1140

3471–4598

375 (-)

0.45

IPR002104, PF00589

phage integrase (l+)

Vxis

b1141

4579–4824

81 (-)

0.44

-

phage excisionase (l+)

YmfH

b1142

4861–5172

103 (-)

0.54

TM(42–62, 73–93)

similar to Q8FET3 of E. coli O6 (l+)

YmfI

b1143

5289–5630

113 (+)

0.39

-

(l+)

YmfJ

b1144

5568–5852

94 (-)

0.47

-

similar to Zinc finger protein Q8BGS3 (l+)

YmfK

b1145

6051–6725

224 (-)

0.44

IPR006198, PF00717

cI/c2 repressor (l+)

b1146

b1146

6513–7016

167 (+)

-

-

probable homolog of cro from Shigella flexneri (+)

YmfL

b1147

7048–7617

189 (+)

0.49

-

-

YmfM

b1148

7614–7952

112 (+)

0.50

-

-

YmfN

b1149

7962–9329

455(+)

0.54

IPR005021, PF03354, COG4626, SM00345

Fusion of a replicase and a phage terminase

YmfR

b1150

9341–9523

60 (+)

0.60

TM(5–25, 26–46)

-

YmfO

b1151

9523–9934

137 (+)

0.56

IPR006944, PF04860

Probable pseudogene, phage portal

YmfP

b1152

9935–10714

259 (+)

0.58

-

tail protein (baseplate?)

YmfQ

b1153

10705–11289

194 (+)

0.57

SS(1–32)

tail protein (baseplate?)

YcfK

b1154

11293–11922

209 (+)

0.50

COG3299

tail fibre

YmfS

b1155

11924–12337

137 (+)

0.42

PF02413, IPR003458

tail fibre assembly

TfaE

b1156

12309–12911

200 (-)

0.48

PF02413, IPR003458

tail fibre assembly

StfE

b1157

12911–13411

166 (-)

0.47

-

side tail fibre

PinE

b1158

13477–14031

184 (+)

0.49

PF00239, PF02796, PS00397, PS00398

DNA invertase – catalyses the inversion of 1800 bp P-region (+)

McrA

b1159

14138–14971

277 (+)

0.38

SM00507, IPR002711, IPR003615

Modified cytosine restriction endonuclease A (+)