Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbB   Type   Machinery gene
Locus tag   EFD52_RS01960 Genome accession   NZ_CP033606
Coordinates   383085..383474 (+) Length   129 a.a.
NCBI ID   WP_010905314.1    Uniprot ID   S6EQX8
Organism   Lactococcus lactis strain IL6288     
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 383085..389572 383085..383474 within 0


Gene organization within MGE regions


Location: 383085..389572
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EFD52_RS01960 (EFD52_01960) ssbB 383085..383474 (+) 390 WP_010905314.1 single-stranded DNA-binding protein Machinery gene
  EFD52_RS01965 (EFD52_01965) groES 383594..383878 (+) 285 WP_003131589.1 co-chaperone GroES -
  EFD52_RS01970 (EFD52_01970) groL 383966..385594 (+) 1629 WP_003131585.1 chaperonin GroEL -
  EFD52_RS01975 (EFD52_01975) - 385640..386452 (-) 813 WP_003131583.1 MBL fold metallo-hydrolase -
  EFD52_RS01980 (EFD52_01980) - 386623..388065 (-) 1443 WP_010905315.1 cell wall metabolism sensor histidine kinase WalK -
  EFD52_RS01985 (EFD52_01985) yycF 388058..388759 (-) 702 WP_003131580.1 response regulator YycF -
  EFD52_RS01990 (EFD52_01990) tmk 388937..389572 (+) 636 WP_003131575.1 dTMP kinase -

Sequence

Protein


Download         Length: 129 a.a.        Molecular weight: 14672.73 Da        Isoelectric Point: 8.3705

>NTDB_id=324310 EFD52_RS01960 WP_010905314.1 383085..383474(+) (ssbB) [Lactococcus lactis strain IL6288]
MNKTMLIGRLTSAPEISKTTNDKSYVRVTLAVNRRFKNEKGEREADFISIIIWGKSAETLVSYAKKGSLISIEGEIRTRN
YTDKQNQKHYVTEILGLSYDLLESRATIALRESAIKTEETLLDAEELPF

Nucleotide


Download         Length: 390 bp        

>NTDB_id=324310 EFD52_RS01960 WP_010905314.1 383085..383474(+) (ssbB) [Lactococcus lactis strain IL6288]
ATGAATAAAACCATGTTAATTGGACGCTTAACCAGTGCGCCAGAAATTTCAAAAACAACAAATGATAAATCATATGTCCG
TGTGACCTTGGCAGTCAATCGCCGTTTCAAAAATGAAAAAGGAGAACGAGAGGCAGATTTTATTTCAATTATTATTTGGG
GAAAATCTGCAGAAACTTTAGTTTCTTACGCAAAAAAAGGAAGTCTTATTTCAATTGAAGGAGAAATTAGAACTAGAAAT
TATACGGATAAGCAAAATCAAAAACATTATGTCACAGAAATCTTAGGACTGAGTTATGATTTACTTGAAAGTAGGGCAAC
AATCGCTTTACGAGAAAGCGCTATAAAGACTGAAGAAACCTTACTTGATGCGGAAGAACTCCCTTTCTAA

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
  AlphaFold DB S6EQX8

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

90.698

100

0.907
  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