Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   R6M76_RS00040 Genome accession   NZ_CP137608
Coordinates   9552..10103 (+) Length   183 a.a.
NCBI ID   WP_274356002.1    Uniprot ID   -
Organism   Ligilactobacillus salivarius strain C2-1     
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 1532..15514 9552..10103 within 0


Gene organization within MGE regions


Location: 1532..15514
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R6M76_RS00010 (R6M76_00010) dnaN 1532..2671 (+) 1140 WP_003701413.1 DNA polymerase III subunit beta -
  R6M76_RS00015 (R6M76_00015) yaaA 3085..3306 (+) 222 WP_003701414.1 S4 domain-containing protein YaaA -
  R6M76_RS00020 (R6M76_00020) recF 3306..4445 (+) 1140 WP_003705635.1 DNA replication/repair protein RecF -
  R6M76_RS00025 (R6M76_00025) gyrB 4448..6406 (+) 1959 WP_003705636.1 DNA topoisomerase (ATP-hydrolyzing) subunit B -
  R6M76_RS00030 (R6M76_00030) gyrA 6443..8995 (+) 2553 WP_318151369.1 DNA gyrase subunit A -
  R6M76_RS00035 (R6M76_00035) rpsF 9215..9511 (+) 297 WP_269148675.1 30S ribosomal protein S6 -
  R6M76_RS00040 (R6M76_00040) ssb 9552..10103 (+) 552 WP_274356002.1 single-stranded DNA-binding protein Machinery gene
  R6M76_RS00045 (R6M76_00045) rpsR 10125..10361 (+) 237 WP_003701427.1 30S ribosomal protein S18 -
  R6M76_RS00050 (R6M76_00050) - 10412..11275 (-) 864 WP_081537630.1 NAD(P)-dependent oxidoreductase -
  R6M76_RS00055 (R6M76_00055) tnpA 11468..11899 (-) 432 WP_318151370.1 IS200/IS605 family transposase -
  R6M76_RS00060 (R6M76_00060) - 11999..13276 (+) 1278 WP_003708932.1 RNA-guided endonuclease TnpB family protein -
  R6M76_RS00065 (R6M76_00065) - 13491..14504 (+) 1014 WP_318151371.1 glycosyltransferase -
  R6M76_RS00070 (R6M76_00070) - 14732..15514 (+) 783 WP_044005558.1 M23 family metallopeptidase -

Sequence

Protein


Download         Length: 183 a.a.        Molecular weight: 20242.79 Da        Isoelectric Point: 4.4463

>NTDB_id=899277 R6M76_RS00040 WP_274356002.1 9552..10103(+) (ssb) [Ligilactobacillus salivarius strain C2-1]
MINRAILVGRLTRDPDLRYTASGAAVTTFTVAVNRQFTNQQGEREADFINCVMWRKPAENFANFTHKGSLVGIDGRIQTR
SYENQQGTRVYVTEVVAENFSLLESRAEADRYREQHGMTQNNYGNNAPSQNQASQFDSNPFGDSQSNNSFGGNTPSNNGA
DNSADPFADNGQSIDISDDDLPF

Nucleotide


Download         Length: 552 bp        

>NTDB_id=899277 R6M76_RS00040 WP_274356002.1 9552..10103(+) (ssb) [Ligilactobacillus salivarius strain C2-1]
GTGATTAATAGAGCTATTCTAGTAGGCCGTTTAACAAGAGATCCTGATTTACGTTACACGGCTTCTGGAGCTGCGGTTAC
TACATTTACTGTTGCTGTAAATCGTCAATTTACTAACCAACAAGGTGAACGTGAAGCTGATTTCATTAACTGTGTAATGT
GGCGTAAACCAGCAGAAAATTTTGCCAACTTTACTCATAAGGGTTCATTGGTTGGGATTGACGGACGAATTCAAACTCGT
TCTTATGAAAACCAGCAAGGGACAAGAGTATATGTTACAGAAGTTGTAGCCGAGAATTTCTCATTGTTAGAATCACGTGC
CGAAGCAGATCGTTATCGTGAACAACATGGAATGACACAAAATAATTACGGAAATAATGCTCCTTCGCAAAATCAAGCAT
CACAGTTTGATAGCAATCCATTCGGTGATTCTCAATCAAATAATAGTTTTGGTGGAAATACACCATCAAATAATGGAGCA
GATAATAGTGCTGATCCATTTGCTGATAATGGACAATCTATTGATATTTCTGATGATGACTTGCCATTCTAG

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

65.027

100

0.65
  ssbA Bacillus subtilis subsp. subtilis str. 168

56.284

100

0.563