Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   LHV_RS00040 Genome accession   NC_010080
Coordinates   9447..9965 (+) Length   172 a.a.
NCBI ID   WP_003628007.1    Uniprot ID   U6F4D7
Organism   Lactobacillus helveticus DPC 4571     
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)
IS/Tn 10424..11677 9447..9965 flank 459


Gene organization within MGE regions


Location: 9447..11677
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LHV_RS00040 (lhv_0008) ssb 9447..9965 (+) 519 WP_003628007.1 single-stranded DNA-binding protein Machinery gene
  LHV_RS00045 (lhv_0009) rpsR 9994..10227 (+) 234 WP_003628008.1 30S ribosomal protein S18 -
  LHV_RS00050 (lhv_0010) - 10424..11677 (+) 1254 WP_012211199.1 ISL3 family transposase -

Sequence

Protein


Download         Length: 172 a.a.        Molecular weight: 18672.27 Da        Isoelectric Point: 4.7317

>NTDB_id=29553 LHV_RS00040 WP_003628007.1 9447..9965(+) (ssb) [Lactobacillus helveticus DPC 4571]
MINRVVLVGRLTRDPELRTTGSGISVATFTLAVDRQFTNSQGERGADFISCVIWRKSAENFCNFTSKGSLVGIDGRIQTR
SYDNKDGQRVYVTEVVVDNFALLESRKDREARGQNGGYTPNTGNAGAPSTNNFQNNGGSQNNAQNNNQSNNAQDPFAGSG
DPIDISDDDLPF

Nucleotide


Download         Length: 519 bp        

>NTDB_id=29553 LHV_RS00040 WP_003628007.1 9447..9965(+) (ssb) [Lactobacillus helveticus DPC 4571]
ATGATTAATAGAGTTGTACTTGTTGGCCGTTTAACACGTGATCCTGAATTGCGTACTACTGGGAGTGGAATCTCGGTTGC
TACGTTTACTCTTGCTGTTGACCGTCAATTTACAAATAGCCAAGGTGAGAGGGGCGCGGACTTTATCAGCTGTGTAATTT
GGAGGAAATCTGCAGAAAACTTCTGCAATTTTACTTCAAAGGGTTCATTGGTTGGTATTGATGGCCGTATCCAAACCAGA
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
  AlphaFold DB U6F4D7

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