Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   LBH_RS00040 Genome accession   NZ_CP002427
Coordinates   9446..9964 (+) Length   172 a.a.
NCBI ID   WP_003624902.1    Uniprot ID   -
Organism   Lactobacillus helveticus H9     
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)
IScluster/Tn 10423..12074 9446..9964 flank 459


Gene organization within MGE regions


Location: 9446..12074
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LBH_RS00040 (LBH_0008) ssb 9446..9964 (+) 519 WP_003624902.1 single-stranded DNA-binding protein Machinery gene
  LBH_RS00045 (LBH_0009) rpsR 9993..10226 (+) 234 WP_003628008.1 30S ribosomal protein S18 -
  LBH_RS00050 (LBH_1754) - 10423..10956 (+) 534 Protein_9 ISL3 family transposase -
  LBH_RS00055 - 10958..11635 (-) 678 WP_172987616.1 hypothetical protein -

Sequence

Protein


Download         Length: 172 a.a.        Molecular weight: 18730.30 Da        Isoelectric Point: 4.6034

>NTDB_id=111627 LBH_RS00040 WP_003624902.1 9446..9964(+) (ssb) [Lactobacillus helveticus H9]
MINRVVLVGRLTRDPELRTTGSGISVATFTLAVDRQFTNSQGERDADFISCVIWRKSAENFCNFTSKGSLVGIDGRIQTR
SYDNKDGQRVYVTEVVVDNFALLESRKDREARGQNGGYTPNTGNAGAPSTNNFQNNGGSQNNAQNNNQSNNAQDPFAGSG
DPIDISDDDLPF

Nucleotide


Download         Length: 519 bp        

>NTDB_id=111627 LBH_RS00040 WP_003624902.1 9446..9964(+) (ssb) [Lactobacillus helveticus H9]
ATGATTAATAGAGTTGTACTTGTTGGCCGTTTAACACGTGATCCTGAATTGCGTACTACTGGGAGTGGAATCTCGGTTGC
TACGTTTACTCTTGCTGTTGACCGTCAATTTACAAATAGCCAAGGTGAGAGGGACGCAGACTTTATCAGCTGTGTAATTT
GGAGGAAATCTGCAGAAAACTTCTGCAATTTTACTTCAAAGGGTTCATTGGTTGGTATTGATGGCCGTATTCAAACCAGA
AGTTATGACAATAAAGATGGGCAAAGAGTATATGTAACTGAAGTTGTCGTTGATAACTTCGCATTGCTCGAATCACGCAA
GGATCGTGAAGCCCGCGGTCAAAATGGTGGTTATACACCAAACACTGGAAATGCTGGTGCACCAAGCACTAACAACTTCC
AAAATAATGGTGGATCACAAAATAATGCTCAGAATAATAATCAATCAAACAACGCTCAAGATCCATTTGCAGGCTCTGGC
GATCCAATTGATATTTCTGATGATGATCTTCCATTCTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-102)


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

60.335

100

0.628
  ssbA Bacillus subtilis subsp. subtilis str. 168

54.545

100

0.558
  ssb Glaesserella parasuis strain SC1401

34.807

100

0.366

Multiple sequence alignment