Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   CT113_RS14000 Genome accession   NZ_CP024635
Coordinates   2760937..2761365 (+) Length   142 a.a.
NCBI ID   WP_024526670.1    Uniprot ID   -
Organism   Levilactobacillus brevis strain BDGP6     
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)
Genomic island 2751698..2776776 2760937..2761365 within 0


Gene organization within MGE regions


Location: 2751698..2776776
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CT113_RS13915 (CT113_13900) mscL 2751698..2752075 (-) 378 WP_024526657.1 large-conductance mechanosensitive channel protein MscL -
  CT113_RS13920 (CT113_13905) - 2752325..2753242 (+) 918 WP_035466207.1 DMT family transporter -
  CT113_RS14300 - 2754171..2754317 (-) 147 WP_157771908.1 hypothetical protein -
  CT113_RS13930 (CT113_13915) - 2754387..2754728 (-) 342 WP_024526661.1 hypothetical protein -
  CT113_RS13940 (CT113_13925) - 2755232..2755390 (+) 159 WP_225366207.1 hypothetical protein -
  CT113_RS13950 (CT113_13935) - 2755880..2756206 (-) 327 WP_024526663.1 helix-turn-helix domain-containing protein -
  CT113_RS13955 (CT113_13940) - 2756489..2756698 (+) 210 WP_024526664.1 hypothetical protein -
  CT113_RS13960 (CT113_13945) - 2756701..2757417 (+) 717 WP_024526665.1 phage antirepressor KilAC domain-containing protein -
  CT113_RS13965 (CT113_13950) - 2757582..2758082 (-) 501 WP_143447276.1 hypothetical protein -
  CT113_RS13970 (CT113_13955) - 2758154..2758417 (+) 264 WP_024525105.1 hypothetical protein -
  CT113_RS14305 - 2758477..2758635 (+) 159 WP_157771891.1 hypothetical protein -
  CT113_RS13975 (CT113_13960) - 2758632..2759228 (+) 597 WP_024525106.1 hypothetical protein -
  CT113_RS13980 (CT113_13965) - 2759246..2759449 (+) 204 WP_039105860.1 hypothetical protein -
  CT113_RS13985 (CT113_13970) - 2759559..2759807 (+) 249 WP_024526667.1 hypothetical protein -
  CT113_RS13990 (CT113_13975) - 2759810..2760295 (+) 486 WP_024526668.1 siphovirus Gp157 family protein -
  CT113_RS13995 (CT113_13980) - 2760305..2760940 (+) 636 WP_024526669.1 ERF family protein -
  CT113_RS14000 (CT113_13985) ssb 2760937..2761365 (+) 429 WP_024526670.1 single-stranded DNA-binding protein Machinery gene
  CT113_RS14005 (CT113_13990) - 2761376..2761933 (+) 558 WP_024526671.1 HNH endonuclease -
  CT113_RS14010 (CT113_13995) - 2761943..2762644 (+) 702 WP_024526672.1 putative HNHc nuclease -
  CT113_RS14015 (CT113_14000) - 2762645..2763583 (+) 939 WP_024526673.1 phage replisome organizer N-terminal domain-containing protein -
  CT113_RS14405 (CT113_14005) - 2763580..2763747 (+) 168 WP_035466216.1 hypothetical protein -
  CT113_RS14025 (CT113_14010) - 2763750..2764169 (+) 420 WP_024526674.1 hypothetical protein -
  CT113_RS14030 (CT113_14015) - 2764215..2764829 (+) 615 WP_024526675.1 hypothetical protein -
  CT113_RS14035 (CT113_14020) - 2764867..2765223 (+) 357 WP_024526676.1 hypothetical protein -
  CT113_RS14040 (CT113_14025) - 2765245..2765562 (+) 318 WP_024526677.1 YopX family protein -
  CT113_RS14045 (CT113_14030) - 2765617..2765922 (+) 306 WP_024526678.1 hypothetical protein -
  CT113_RS14050 (CT113_14035) - 2766192..2766620 (+) 429 WP_024526679.1 transcriptional regulator -
  CT113_RS14055 (CT113_14040) - 2767882..2768262 (+) 381 WP_024526680.1 hypothetical protein -
  CT113_RS14060 (CT113_14045) - 2768557..2768880 (+) 324 WP_024526681.1 hypothetical protein -
  CT113_RS14065 (CT113_14050) - 2768931..2769248 (+) 318 WP_024526682.1 hypothetical protein -
  CT113_RS14070 (CT113_14055) - 2769251..2769583 (+) 333 WP_024526683.1 HNH endonuclease -
  CT113_RS14075 (CT113_14060) - 2769742..2770200 (+) 459 WP_024526684.1 phage terminase small subunit P27 family -
  CT113_RS14080 (CT113_14065) - 2770184..2771977 (+) 1794 WP_024526685.1 terminase large subunit -
  CT113_RS14085 (CT113_14070) - 2771997..2773226 (+) 1230 WP_024526686.1 phage portal protein -
  CT113_RS14090 (CT113_14075) - 2773198..2773917 (+) 720 WP_024526687.1 head maturation protease, ClpP-related -
  CT113_RS14095 (CT113_14080) - 2773920..2775065 (+) 1146 WP_024526688.1 phage major capsid protein -
  CT113_RS14100 (CT113_14085) - 2775298..2775642 (+) 345 WP_024526689.1 head-tail connector protein -
  CT113_RS14105 (CT113_14090) - 2775626..2775982 (+) 357 WP_024526690.1 phage head closure protein -
  CT113_RS14110 (CT113_14095) - 2775975..2776394 (+) 420 WP_024526691.1 hypothetical protein -
  CT113_RS14115 (CT113_14100) - 2776381..2776776 (+) 396 WP_225353923.1 DUF806 family protein -

Sequence

Protein


Download         Length: 142 a.a.        Molecular weight: 16020.63 Da        Isoelectric Point: 5.2063

>NTDB_id=254655 CT113_RS14000 WP_024526670.1 2760937..2761365(+) (ssb) [Levilactobacillus brevis strain BDGP6]
MINRVVLTGRLTRDVDLRYTQGGAAVATFNLAVDRRFTNQQGEREADFVSCVVWRKSAENFANFFHKGSLVGIEGRIQTR
NYENQQGQRVYVTEVIVENFSFLELKSSTGNGSYQNDRPQNNTSDPFANGESVDIQDSSLPF

Nucleotide


Download         Length: 429 bp        

>NTDB_id=254655 CT113_RS14000 WP_024526670.1 2760937..2761365(+) (ssb) [Levilactobacillus brevis strain BDGP6]
ATGATTAATCGAGTAGTTTTGACTGGACGACTAACCCGTGATGTGGATTTACGGTATACGCAAGGCGGCGCTGCTGTAGC
TACTTTCAATCTGGCCGTTGATCGGCGGTTCACCAACCAACAAGGTGAGCGCGAAGCTGATTTCGTAAGTTGTGTTGTTT
GGCGTAAGTCGGCAGAAAACTTTGCTAACTTCTTCCACAAAGGATCTCTGGTAGGTATTGAAGGCCGTATTCAAACACGC
AACTATGAAAATCAGCAAGGCCAACGCGTATACGTCACAGAAGTTATTGTTGAGAACTTCTCGTTCTTGGAACTAAAAAG
CTCTACTGGTAACGGTAGTTATCAAAATGATCGACCGCAAAATAATACGAGTGATCCGTTTGCTAATGGTGAATCTGTCG
ACATTCAGGATAGTTCGTTACCATTTTAG

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
  ssb Latilactobacillus sakei subsp. sakei 23K

61.176

100

0.732
  ssbA Bacillus subtilis subsp. subtilis str. 168

56.395

100

0.683
  ssbB Bacillus subtilis subsp. subtilis str. 168

59.434

74.648

0.444
  ssbB/cilA Streptococcus mitis NCTC 12261

39.437

100

0.394
  ssbB/cilA Streptococcus pneumoniae TIGR4

39.437

100

0.394
  ssbB/cilA Streptococcus pneumoniae Rx1

38.732

100

0.387
  ssbB/cilA Streptococcus pneumoniae D39

38.732

100

0.387
  ssbB/cilA Streptococcus pneumoniae R6

38.732

100

0.387
  ssbB/cilA Streptococcus mitis SK321

38.732

100

0.387
  ssbB Streptococcus sobrinus strain NIDR 6715-7

38.732

100

0.387

Multiple sequence alignment