Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   E4Z98_RS00060 Genome accession   NZ_CP038865
Coordinates   11566..12081 (-) Length   171 a.a.
NCBI ID   WP_135253857.1    Uniprot ID   -
Organism   Vagococcus xieshaowenii strain CF-49     
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 9327..20738 11566..12081 within 0
IS/Tn 12681..13154 11566..12081 flank 600


Gene organization within MGE regions


Location: 9327..20738
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  E4Z98_RS00045 (E4Z98_00045) dnaB 9327..10687 (-) 1361 Protein_10 replicative DNA helicase -
  E4Z98_RS00050 (E4Z98_00050) rplI 10710..11162 (-) 453 WP_135253852.1 50S ribosomal protein L9 -
  E4Z98_RS00055 (E4Z98_00055) rpsR 11305..11547 (-) 243 WP_135253853.1 30S ribosomal protein S18 -
  E4Z98_RS00060 (E4Z98_00060) ssb 11566..12081 (-) 516 WP_135253857.1 single-stranded DNA-binding protein Machinery gene
  E4Z98_RS00065 (E4Z98_00065) rpsF 12126..12425 (-) 300 WP_135253859.1 30S ribosomal protein S6 -
  E4Z98_RS00070 (E4Z98_00070) tnpA 12681..13154 (-) 474 WP_135961145.1 IS200/IS605 family transposase -
  E4Z98_RS00075 (E4Z98_00075) gyrA 13346..16009 (-) 2664 WP_135254017.1 DNA gyrase subunit A -
  E4Z98_RS00080 (E4Z98_00080) gyrB 16038..17978 (-) 1941 WP_135254015.1 DNA topoisomerase (ATP-hydrolyzing) subunit B -
  E4Z98_RS00085 (E4Z98_00085) recF 18015..19142 (-) 1128 WP_135254013.1 DNA replication/repair protein RecF -
  E4Z98_RS00090 (E4Z98_00090) yaaA 19129..19392 (-) 264 WP_135254011.1 S4 domain-containing protein YaaA -
  E4Z98_RS00095 (E4Z98_00095) dnaN 19608..20738 (-) 1131 WP_135254010.1 DNA polymerase III subunit beta -

Sequence

Protein


Download         Length: 171 a.a.        Molecular weight: 18953.70 Da        Isoelectric Point: 4.7093

>NTDB_id=356021 E4Z98_RS00060 WP_135253857.1 11566..12081(-) (ssb) [Vagococcus xieshaowenii strain CF-49]
MINNVVLVGRLTKDPDLRYTANGQATANFTLAVNRSYKNANGQYDADFINVVIWRKPAETLAQYAKKGTLLGVTGRIQTR
NYENQQGQRVYVTEVVCENFQLLESRASSERRQSNDQSFDGGGFSGGQSFNQSFNQSSTQASQNTMPDFGRDADPFASSA
QIDISDDDLPF

Nucleotide


Download         Length: 516 bp        

>NTDB_id=356021 E4Z98_RS00060 WP_135253857.1 11566..12081(-) (ssb) [Vagococcus xieshaowenii strain CF-49]
GTGATTAATAATGTTGTTCTTGTAGGACGATTAACGAAAGACCCTGACTTAAGATACACAGCCAATGGACAAGCAACTGC
CAACTTTACGTTAGCGGTGAACCGTTCATACAAAAATGCAAATGGTCAATATGACGCAGACTTCATTAATGTTGTTATTT
GGCGTAAACCAGCTGAGACTTTAGCGCAATATGCGAAAAAAGGAACATTGTTAGGTGTAACTGGACGTATCCAAACACGT
AATTATGAAAATCAGCAAGGTCAACGTGTTTATGTAACAGAAGTTGTTTGCGAAAACTTCCAATTACTAGAGTCTCGTGC
TTCTAGTGAAAGAAGACAAAGTAACGATCAATCATTTGATGGTGGTGGATTCAGTGGTGGTCAATCATTTAATCAATCAT
TTAACCAATCTTCAACTCAAGCGTCACAGAACACAATGCCAGATTTTGGTAGAGATGCAGACCCGTTTGCATCATCGGCT
CAAATCGACATTTCTGATGATGACTTACCATTCTAA

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

57.955

100

0.596
  ssbA Bacillus subtilis subsp. subtilis str. 168

50.265

100

0.556
  ssbB Bacillus subtilis subsp. subtilis str. 168

58.491

61.988

0.363

Multiple sequence alignment