Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbB   Type   Machinery gene
Locus tag   A361_RS25605 Genome accession   NZ_CP015506
Coordinates   5138555..5138923 (-) Length   122 a.a.
NCBI ID   WP_009332165.1    Uniprot ID   -
Organism   Cytobacillus oceanisediminis 2691     
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 5128914..5138923 5138555..5138923 within 0


Gene organization within MGE regions


Location: 5128914..5138923
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A361_RS25555 (A361_25565) - 5128914..5129555 (+) 642 WP_019380656.1 winged helix-turn-helix domain-containing protein -
  A361_RS25560 (A361_25570) - 5129739..5130125 (+) 387 WP_019380655.1 hypothetical protein -
  A361_RS31560 (A361_25575) - 5130175..5130858 (-) 684 WP_019380654.1 CPBP family intramembrane glutamic endopeptidase -
  A361_RS25570 (A361_25580) - 5131813..5132841 (-) 1029 WP_019380652.1 hypothetical protein -
  A361_RS25575 (A361_25585) - 5133605..5134900 (-) 1296 WP_019380651.1 IS110 family transposase -
  A361_RS25580 (A361_25590) - 5135066..5135791 (-) 726 WP_019380649.1 alpha/beta fold hydrolase -
  A361_RS25590 (A361_25600) - 5136258..5136557 (-) 300 WP_019380647.1 hypothetical protein -
  A361_RS25595 (A361_25605) - 5136679..5137452 (-) 774 WP_019380646.1 Cof-type HAD-IIB family hydrolase -
  A361_RS25600 (A361_25610) - 5138367..5138549 (-) 183 WP_226280796.1 hypothetical protein -
  A361_RS25605 (A361_25615) ssbB 5138555..5138923 (-) 369 WP_009332165.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 122 a.a.        Molecular weight: 14218.24 Da        Isoelectric Point: 9.7599

>NTDB_id=180181 A361_RS25605 WP_009332165.1 5138555..5138923(-) (ssbB) [Cytobacillus oceanisediminis 2691]
MINQVTLVGRLTRDPELKRTQEGIPVTNVTLAVNRQYRNQKGEIDADFVQCTLWKKTAENTSQYCRKGTLIGITGRIQTR
HYDNQEKKRIYVTEVVAESVRFLDRKKTEEFPVTVTKEELPF

Nucleotide


Download         Length: 369 bp        

>NTDB_id=180181 A361_RS25605 WP_009332165.1 5138555..5138923(-) (ssbB) [Cytobacillus oceanisediminis 2691]
ATGATTAATCAAGTGACCCTGGTTGGAAGACTGACAAGGGATCCCGAGCTGAAACGGACACAGGAAGGCATTCCGGTGAC
AAATGTGACGCTGGCAGTAAACCGCCAATACCGCAATCAGAAGGGTGAAATCGATGCGGATTTTGTACAATGCACCTTAT
GGAAGAAAACGGCGGAAAATACATCCCAGTATTGCCGGAAGGGCACCTTGATTGGGATAACCGGGAGAATTCAGACGAGG
CATTATGATAATCAGGAAAAGAAACGCATTTATGTAACAGAGGTGGTAGCGGAATCGGTCCGCTTTCTTGACCGGAAGAA
GACAGAAGAATTCCCGGTGACCGTGACCAAGGAGGAACTGCCATTTTGA

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
  ssbB Bacillus subtilis subsp. subtilis str. 168

60.909

90.164

0.549
  ssbA Bacillus subtilis subsp. subtilis str. 168

54.206

87.705

0.475
  ssb Latilactobacillus sakei subsp. sakei 23K

49.091

90.164

0.443
  ssbB Streptococcus sobrinus strain NIDR 6715-7

39.394

100

0.426
  ssbA Streptococcus mutans UA159

37.879

100

0.41
  ssbB/cilA Streptococcus pneumoniae TIGR4

37.121

100

0.402
  ssbB/cilA Streptococcus mitis NCTC 12261

37.121

100

0.402
  ssbB/cilA Streptococcus pneumoniae Rx1

36.364

100

0.393
  ssbB/cilA Streptococcus pneumoniae D39

36.364

100

0.393
  ssbB/cilA Streptococcus pneumoniae R6

36.364

100

0.393
  ssbB/cilA Streptococcus mitis SK321

36.364

100

0.393
  ssbB Lactococcus lactis subsp. cremoris KW2

41.121

87.705

0.361

Multiple sequence alignment