Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbB   Type   Machinery gene
Locus tag   NCDO2118_RS02255 Genome accession   NZ_CP009054
Coordinates   442380..442769 (+) Length   129 a.a.
NCBI ID   WP_012897226.1    Uniprot ID   -
Organism   Lactococcus lactis subsp. lactis NCDO 2118     
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 442380..448867 442380..442769 within 0


Gene organization within MGE regions


Location: 442380..448867
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NCDO2118_RS02255 (NCDO2118_0451) ssbB 442380..442769 (+) 390 WP_012897226.1 single-stranded DNA-binding protein Machinery gene
  NCDO2118_RS02260 (NCDO2118_0452) groES 442889..443173 (+) 285 WP_003131589.1 co-chaperone GroES -
  NCDO2118_RS02265 (NCDO2118_0453) groL 443261..444889 (+) 1629 WP_012897227.1 chaperonin GroEL -
  NCDO2118_RS02270 (NCDO2118_0454) - 444935..445747 (-) 813 WP_012897228.1 MBL fold metallo-hydrolase -
  NCDO2118_RS02275 (NCDO2118_0455) - 445918..447360 (-) 1443 WP_012897229.1 sensor histidine kinase -
  NCDO2118_RS02280 (NCDO2118_0456) yycF 447353..448054 (-) 702 WP_003131580.1 response regulator YycF -
  NCDO2118_RS02285 (NCDO2118_0457) tmk 448232..448867 (+) 636 WP_012897230.1 dTMP kinase -

Sequence

Protein


Download         Length: 129 a.a.        Molecular weight: 14658.71 Da        Isoelectric Point: 8.3705

>NTDB_id=126419 NCDO2118_RS02255 WP_012897226.1 442380..442769(+) (ssbB) [Lactococcus lactis subsp. lactis NCDO 2118]
MNKTMLIGRLTSAPEISKTTNDKSYVRVTLAVNRRFKNEKGEREADFISIIIWGKSAETLVSYAKKGSLISIEGEIRTRN
YTDKQNQKHYVTEILGLSYDLLESRATIALRESAVKTEETLLDAEELPF

Nucleotide


Download         Length: 390 bp        

>NTDB_id=126419 NCDO2118_RS02255 WP_012897226.1 442380..442769(+) (ssbB) [Lactococcus lactis subsp. lactis NCDO 2118]
ATGAATAAAACCATGTTAATTGGACGCTTAACCAGTGCGCCAGAAATTTCAAAAACAACAAATGATAAATCATATGTCCG
TGTGACCTTAGCAGTCAATCGTCGTTTCAAAAATGAAAAAGGAGAACGAGAGGCAGATTTTATTTCAATTATTATTTGGG
GAAAATCTGCAGAAACTTTAGTTTCTTACGCAAAAAAAGGAAGTCTTATTTCAATTGAAGGAGAAATTAGAACTAGAAAT
TATACGGATAAGCAAAATCAAAAACATTATGTCACAGAAATCTTAGGACTGAGTTATGATTTACTTGAAAGTAGGGCAAC
AATCGCTTTACGAGAAAGCGCTGTAAAGACTGAAGAAACCTTACTTGATGCGGAAGAACTCCCTTTCTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(1-95)


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
  ssbB Lactococcus lactis subsp. cremoris KW2

91.473

100

0.915
  ssbB Streptococcus sobrinus strain NIDR 6715-7

60.769

100

0.612
  ssbB/cilA Streptococcus pneumoniae TIGR4

56.923

100

0.574
  ssbB/cilA Streptococcus pneumoniae Rx1

56.154

100

0.566
  ssbB/cilA Streptococcus pneumoniae D39

56.154

100

0.566
  ssbB/cilA Streptococcus pneumoniae R6

56.154

100

0.566
  ssbB/cilA Streptococcus mitis NCTC 12261

56.154

100

0.566
  ssbB/cilA Streptococcus mitis SK321

56.154

100

0.566
  ssbA Streptococcus mutans UA159

55.385

100

0.558
  ssb Latilactobacillus sakei subsp. sakei 23K

43.75

86.822

0.38
  ssbA Bacillus subtilis subsp. subtilis str. 168

44.762

81.395

0.364

Multiple sequence alignment