Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbA   Type   Machinery gene
Locus tag   lmo2308 Genome accession   NC_003210
Coordinates   2388729..2389211 (-) Length   160 a.a.
NCBI ID   NP_465832.1    Uniprot ID   -
Organism   Listeria monocytogenes EGD-e     
Function   ssDNA binding (predicted from homology)   
DNA processing

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 2350398..2403235 2388729..2389211 within 0


Gene organization within MGE regions


Location: 2350398..2403235
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  lmo2264 - 2350398..2351300 (-) 903 NP_465788.1 hypothetical protein -
  lmo2265 - 2351384..2351746 (-) 363 NP_465789.1 hypothetical protein -
  lmo2266 - 2351767..2352615 (-) 849 NP_465790.1 hypothetical protein -
  lmo2267 - 2352616..2356323 (-) 3708 NP_465791.1 ATP-dependent deoxyribonuclease subunit A -
  lmo2268 addB 2356325..2359798 (-) 3474 NP_465792.1 ATP-dependent deoxyribonuclease subunit B -
  lmo2269 - 2359948..2360304 (-) 357 NP_465793.2 hypothetical protein -
  lmo2270 comK' 2360435..2360713 (+) 279 NP_465794.1 competence protein ComK -
  lmo2271 - 2360908..2361141 (-) 234 NP_465795.1 hypothetical protein -
  lmo2272 - 2361582..2361791 (+) 210 NP_465796.1 hypothetical protein -
  lmo2273 - 2361897..2362274 (+) 378 NP_465797.1 hypothetical protein -
  lmo2274 - 2362306..2362656 (+) 351 NP_465798.1 protein gp29 -
  lmo2275 - 2362661..2363110 (+) 450 NP_465799.1 protein gp28 -
  lmo2276 - 2363135..2363632 (+) 498 NP_465800.1 hypothetical protein -
  lmo2277 - 2363709..2364260 (-) 552 NP_465801.1 hypothetical protein -
  lmo2278 lysA 2364754..2365599 (-) 846 NP_465802.1 L-alanoyl-D-glutamate peptidase -
  lmo2279 - 2365599..2365880 (-) 282 NP_465803.1 holin -
  lmo2280 - 2365893..2366258 (-) 366 NP_465804.1 protein gp23 -
  lmo2281 - 2366288..2366446 (-) 159 NP_465805.1 protein gp22 -
  lmo2282 - 2366451..2366768 (-) 318 NP_465806.1 protein gp21 -
  lmo2283 - 2366780..2367853 (-) 1074 NP_465807.1 protein gp20 -
  lmo2284 - 2367853..2368881 (-) 1029 NP_465808.1 protein gp19 -
  lmo2285 - 2368882..2369907 (-) 1026 NP_465809.1 protein gp18 -
  lmo2286 - 2369916..2370734 (-) 819 NP_465810.1 protein gp17 -
  lmo2287 - 2370736..2376099 (-) 5364 NP_465811.1 tape-measure -
  lmo2288 - 2376110..2376715 (-) 606 NP_465812.1 protein gp15 -
  lmo2289 - 2376721..2377143 (-) 423 NP_465813.1 protein gp14 -
  lmo2290 - 2377198..2377530 (-) 333 NP_465814.1 protein gp13 -
  lmo2291 - 2377460..2377894 (-) 435 NP_465815.1 major tail shaft protein -
  lmo2292 - 2377897..2378304 (-) 408 NP_465816.1 protein gp11 -
  lmo2293 - 2378304..2378642 (-) 339 NP_465817.1 protein gp10 -
  lmo2294 - 2378642..2379004 (-) 363 NP_465818.1 protein gp9 -
  lmo2295 - 2379004..2379399 (-) 396 NP_465819.1 protein gp8 -
  lmo2296 - 2379418..2380419 (-) 1002 NP_465820.1 phage coat protein -
  lmo2297 - 2380419..2381009 (-) 591 NP_465821.1 scaffolding protein -
  lmo2298 - 2381088..2382227 (-) 1140 NP_465822.1 protein gp4 -
  lmo2299 - 2382228..2383988 (-) 1761 NP_465823.1 portal protein -
  lmo2300 - 2384001..2385332 (-) 1332 NP_465824.1 terminase large subunit from bacteriophage A118 -
  lmo2301 - 2385301..2386095 (-) 795 NP_465825.1 terminase -
  lmo2302 - 2386141..2386680 (-) 540 NP_465826.1 hypothetical protein -
  lmo2303 - 2387046..2387480 (-) 435 NP_465827.1 hypothetical protein -
  lmo2304 - 2387499..2387663 (-) 165 NP_465828.1 hypothetical protein -
  lmo2305 - 2387792..2388175 (-) 384 NP_465829.1 hypothetical protein -
  lmo2306 - 2388179..2388583 (-) 405 NP_465830.1 hypothetical protein -
  lmo2307 - 2388528..2388710 (-) 183 NP_465831.1 hypothetical protein -
  lmo2308 ssbA 2388729..2389211 (-) 483 NP_465832.1 single-stranded DNA-binding protein Machinery gene
  lmo2309 - 2389208..2389387 (-) 180 NP_465833.1 hypothetical protein -
  lmo2310 - 2389491..2389658 (-) 168 NP_465834.1 hypothetical protein -
  lmo2311 - 2389655..2390116 (-) 462 NP_465835.1 hypothetical protein -
  lmo2312 - 2390113..2390583 (-) 471 NP_465836.1 hypothetical protein -
  lmo2313 - 2390580..2391023 (-) 444 NP_465837.1 hypothetical protein -
  lmo2314 - 2391020..2391217 (-) 198 NP_465838.1 hypothetical protein -
  lmo2315 - 2391220..2391816 (-) 597 NP_465839.1 hypothetical protein -
  lmo2316 - 2391813..2392625 (-) 813 NP_465840.1 site-specific DNA-methyltransferase -
  lmo2317 - 2392622..2393596 (-) 975 NP_465841.1 hypothetical protein -
  lmo2318 - 2393613..2394311 (-) 699 NP_465842.1 hypothetical protein -
  lmo2319 - 2394317..2394793 (-) 477 NP_465843.1 hypothetical protein -
  lmo2320 - 2394790..2394984 (-) 195 NP_465844.1 hypothetical protein -
  lmo2321 - 2395290..2395478 (-) 189 NP_465845.1 hypothetical protein -
  lmo2322 - 2395586..2395801 (-) 216 NP_465846.1 gp44 -
  lmo2323 - 2395798..2396331 (-) 534 NP_465847.1 hypothetical protein -
  lmo2324 - 2396454..2397230 (-) 777 NP_465848.1 anti-repressor -
  lmo2325 - 2397212..2397487 (-) 276 NP_465849.1 hypothetical protein -
  lmo2325a - 2397294..2397491 (+) 198 YP_008475639.1 hypothetical protein -
  lmo2326 - 2397493..2397774 (-) 282 NP_465850.1 hypothetical protein -
  lmo2327 - 2397800..2398084 (-) 285 NP_465851.1 hypothetical protein -
  lmo2328 - 2398287..2398529 (-) 243 NP_465852.1 XRE family transcriptional regulator -
  lmo2329 - 2398685..2399161 (+) 477 NP_465853.1 hypothetical protein -
  lmo2329a - 2399320..2399487 (+) 168 YP_008475640.1 hypothetical protein -
  lmo2330 - 2399542..2400243 (+) 702 NP_465854.1 hypothetical protein -
  lmo2331 - 2400264..2400944 (+) 681 NP_465855.1 hypothetical protein -
  lmo2332 int 2401008..2402366 (+) 1359 NP_465856.1 integrase -
  lmo02333 - 2402357..2402833 (+) 477 YP_008475641.1 hypothetical protein -
  lmo2334 - 2402888..2403235 (-) 348 NP_465857.1 transcriptional regulator -

Sequence

Protein


Download         Length: 160 a.a.        Molecular weight: 17837.65 Da        Isoelectric Point: 4.9909

>NTDB_id=21779 lmo2308 NP_465832.1 2388729..2389211(-) (ssbA) [Listeria monocytogenes EGD-e]
MMNRVVLVGRLTKDPDLRYTPAGVAVATFTLAVNRTFTNQNGEREADFINCVVWRKPAENVANFLKKGSMAGVDGRVQTR
NYEDNDGKRVFVTEVVAESVQFLEPKNNNVEGATSNNYQNKANYSNNNQTSSYRADTSQKSDSFASEGKPIDINEDDLPF

Nucleotide


Download         Length: 483 bp        

>NTDB_id=21779 lmo2308 NP_465832.1 2388729..2389211(-) (ssbA) [Listeria monocytogenes EGD-e]
ATGATGAATCGTGTAGTACTTGTAGGACGATTAACAAAAGATCCGGATTTACGTTACACTCCAGCAGGCGTAGCAGTCGC
GACTTTTACATTAGCAGTAAATCGTACATTCACTAATCAAAACGGAGAACGAGAAGCAGATTTCATTAATTGTGTTGTTT
GGCGCAAACCAGCAGAAAACGTTGCTAATTTCTTGAAGAAAGGAAGCATGGCGGGCGTTGATGGACGTGTTCAAACTCGT
AATTATGAGGATAACGACGGTAAACGTGTTTTCGTTACTGAGGTAGTTGCTGAATCAGTTCAATTCTTAGAACCTAAAAA
TAACAACGTAGAAGGTGCTACATCGAATAATTACCAAAACAAGGCTAATTATTCAAATAACAATCAAACAAGCTCATATC
GAGCGGATACGAGTCAGAAGAGCGATTCATTTGCAAGTGAAGGTAAGCCGATTGATATTAATGAAGATGATTTGCCATTT
TGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-103)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  ssbA Bacillus subtilis subsp. subtilis str. 168

65.116

100

0.7
  ssb Latilactobacillus sakei subsp. sakei 23K

55.294

100

0.587
  ssbB Bacillus subtilis subsp. subtilis str. 168

63.208

66.25

0.419

Multiple sequence alignment