Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   OL235_RS00040 Genome accession   NZ_CP110237
Coordinates   7855..8376 (+) Length   173 a.a.
NCBI ID   WP_275469143.1    Uniprot ID   A0AAF0CUV4
Organism   Vagococcus intermedius strain STAA25     
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 175..12178 7855..8376 within 0


Gene organization within MGE regions


Location: 175..12178
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OL235_RS00010 (OL235_00010) dnaN 175..1305 (+) 1131 WP_275469137.1 DNA polymerase III subunit beta -
  OL235_RS00015 (OL235_00015) yaaA 1505..1762 (+) 258 WP_275469138.1 S4 domain-containing protein YaaA -
  OL235_RS00020 (OL235_00020) recF 1749..2870 (+) 1122 WP_275469139.1 DNA replication/repair protein RecF -
  OL235_RS00025 (OL235_00025) gyrB 2873..4825 (+) 1953 WP_275469140.1 DNA topoisomerase (ATP-hydrolyzing) subunit B -
  OL235_RS00030 (OL235_00030) gyrA 4843..7347 (+) 2505 WP_275469141.1 DNA gyrase subunit A -
  OL235_RS00035 (OL235_00035) rpsF 7513..7812 (+) 300 WP_275469142.1 30S ribosomal protein S6 -
  OL235_RS00040 (OL235_00040) ssb 7855..8376 (+) 522 WP_275469143.1 single-stranded DNA-binding protein Machinery gene
  OL235_RS00045 (OL235_00045) rpsR 8398..8640 (+) 243 WP_275469144.1 30S ribosomal protein S18 -
  OL235_RS00050 (OL235_00050) rplI 8807..9262 (+) 456 WP_275469145.1 50S ribosomal protein L9 -
  OL235_RS00055 (OL235_00055) dnaB 9350..10714 (+) 1365 WP_275469146.1 replicative DNA helicase -
  OL235_RS00060 (OL235_00060) - 10886..12178 (+) 1293 WP_275469147.1 adenylosuccinate synthase -

Sequence

Protein


Download         Length: 173 a.a.        Molecular weight: 19225.01 Da        Isoelectric Point: 4.5984

>NTDB_id=753307 OL235_RS00040 WP_275469143.1 7855..8376(+) (ssb) [Vagococcus intermedius strain STAA25]
MINNVVLVGRLTKDPDLRYTASGSAVATFSLAVNRNFTNQNGEREADFINCVIWRKPAETLANYTRKGSLIGVVGRIQSR
NYENQQGQRVYVTEVVCENFQMLESKNASEQRNQDPGFGGSQAQGGYQQQSNQSFNQSPSSPQQEMPSFTREANDNPFGS
ASQIDISDDDLPF

Nucleotide


Download         Length: 522 bp        

>NTDB_id=753307 OL235_RS00040 WP_275469143.1 7855..8376(+) (ssb) [Vagococcus intermedius strain STAA25]
ATGATTAACAATGTTGTACTTGTCGGCCGTTTGACAAAAGATCCCGACCTACGTTATACAGCAAGTGGCTCAGCAGTTGC
GACTTTTTCTTTGGCAGTAAACAGAAATTTTACTAACCAAAATGGAGAACGTGAAGCTGATTTCATTAATTGTGTAATCT
GGAGAAAACCAGCAGAAACTTTAGCTAATTATACTCGTAAAGGATCTTTGATTGGTGTTGTAGGACGTATTCAATCACGT
AACTATGAGAACCAACAAGGGCAAAGAGTTTATGTTACCGAAGTCGTTTGTGAGAATTTCCAAATGTTAGAATCTAAAAA
CGCCAGTGAGCAAAGAAATCAAGATCCTGGGTTTGGTGGAAGCCAAGCACAAGGTGGTTATCAACAACAAAGCAATCAGT
CGTTTAACCAATCACCATCATCCCCACAACAAGAAATGCCAAGTTTCACACGTGAAGCAAATGATAATCCATTTGGTTCT
GCGTCACAAATTGACATTTCTGATGATGATTTACCATTCTAA

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

62.5

100

0.636
  ssbA Bacillus subtilis subsp. subtilis str. 168

55.376

100

0.595
  ssb Neisseria meningitidis MC58

36.517

100

0.376
  ssbB Bacillus subtilis subsp. subtilis str. 168

60.377

61.272

0.37
  ssb Neisseria gonorrhoeae MS11

35.593

100

0.364