Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   KFB96_RS13970 Genome accession   NZ_CP073760
Coordinates   3075405..3075947 (-) Length   180 a.a.
NCBI ID   WP_213457861.1    Uniprot ID   -
Organism   MAG: Thiocapsa sp. isolate M50B4     
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 3063642..3075947 3075405..3075947 within 0


Gene organization within MGE regions


Location: 3063642..3075947
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KFB96_RS13920 (KFB96_13920) - 3063642..3065204 (-) 1563 WP_213457870.1 CHAD domain-containing protein -
  KFB96_RS13925 (KFB96_13925) - 3065351..3066016 (-) 666 WP_300970223.1 transposase -
  KFB96_RS26805 - 3065989..3066345 (-) 357 WP_300970225.1 transposase -
  KFB96_RS13930 (KFB96_13930) tnpA 3066368..3066781 (+) 414 WP_213457868.1 IS200/IS605 family transposase -
  KFB96_RS13935 (KFB96_13935) tal 3067087..3068058 (+) 972 WP_213457867.1 transaldolase -
  KFB96_RS13940 (KFB96_13940) rsmA 3068420..3069214 (+) 795 WP_213457866.1 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase RsmA -
  KFB96_RS13945 (KFB96_13945) lon 3069259..3071679 (+) 2421 WP_213458234.1 endopeptidase La -
  KFB96_RS13950 (KFB96_13950) rfbD 3071866..3072777 (-) 912 WP_213457865.1 dTDP-4-dehydrorhamnose reductase -
  KFB96_RS13955 (KFB96_13955) rfbC 3072774..3073340 (-) 567 WP_213457864.1 dTDP-4-dehydrorhamnose 3,5-epimerase -
  KFB96_RS13960 (KFB96_13960) rfbA 3073337..3074218 (-) 882 WP_213457863.1 glucose-1-phosphate thymidylyltransferase RfbA -
  KFB96_RS13965 (KFB96_13965) rfbB 3074215..3075288 (-) 1074 WP_213457862.1 dTDP-glucose 4,6-dehydratase -
  KFB96_RS13970 (KFB96_13970) ssb 3075405..3075947 (-) 543 WP_213457861.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 180 a.a.        Molecular weight: 18943.78 Da        Isoelectric Point: 5.7802

>NTDB_id=560540 KFB96_RS13970 WP_213457861.1 3075405..3075947(-) (ssb) [MAG: Thiocapsa sp. isolate M50B4]
MAGVNKVILIGNLGADPEVRYMPSGDAVANVRIATSETWKDRNTGERQERTEWHNVVFFGKVAEIVKQYVHKGSKIYVEG
KLRTKKWQGQDGQDRYTTEVVVDMNGTMQMLDSRSGGGGVGSSVPFDDAPAYQSRGGGRPQSSSPAPSSGGSSPGGSSPG
GSSPGGSSQGAADFDDDIPF

Nucleotide


Download         Length: 543 bp        

>NTDB_id=560540 KFB96_RS13970 WP_213457861.1 3075405..3075947(-) (ssb) [MAG: Thiocapsa sp. isolate M50B4]
ATGGCAGGCGTCAACAAGGTGATTCTCATCGGCAACCTCGGGGCTGATCCGGAGGTGCGTTACATGCCGAGCGGTGATGC
GGTGGCGAATGTCCGCATCGCAACGAGTGAGACCTGGAAGGACCGGAACACCGGCGAGCGGCAGGAGCGCACCGAATGGC
ACAACGTCGTCTTCTTCGGCAAGGTCGCCGAGATCGTCAAGCAGTATGTGCACAAGGGCTCGAAGATCTACGTCGAAGGC
AAGCTGCGCACTAAAAAATGGCAGGGCCAGGACGGACAAGATCGCTACACGACCGAGGTGGTGGTCGACATGAACGGGAC
GATGCAGATGCTCGACAGCCGTTCCGGCGGTGGTGGTGTCGGATCATCGGTGCCTTTCGATGACGCGCCCGCCTATCAAT
CGCGCGGCGGCGGGCGGCCGCAATCCTCGAGTCCGGCGCCGTCATCCGGAGGCAGCAGCCCTGGAGGCAGCAGCCCTGGA
GGCAGCAGCCCCGGAGGCAGCAGCCAAGGCGCGGCGGATTTCGACGACGATATCCCGTTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(4-110)


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 Vibrio cholerae strain A1552

53.552

100

0.544
  ssb Glaesserella parasuis strain SC1401

50.273

100

0.511
  ssb Neisseria meningitidis MC58

46.739

100

0.478
  ssb Neisseria gonorrhoeae MS11

44.134

99.444

0.439