Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   RHO15_RS08800 Genome accession   NZ_CP133959
Coordinates   1955789..1956280 (+) Length   163 a.a.
NCBI ID   WP_392565661.1    Uniprot ID   -
Organism   Utexia brackfieldae strain lpD01     
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 1955789..1993846 1955789..1956280 within 0


Gene organization within MGE regions


Location: 1955789..1993846
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RHO15_RS08800 (RHO15_08745) ssb 1955789..1956280 (+) 492 WP_392565661.1 single-stranded DNA-binding protein Machinery gene
  RHO15_RS08805 (RHO15_08750) - 1956455..1957129 (+) 675 WP_392565662.1 MarC family NAAT transporter -
  RHO15_RS08810 (RHO15_08755) - 1957228..1957920 (-) 693 WP_392565663.1 DUF2461 domain-containing protein -
  RHO15_RS08815 (RHO15_08760) - 1957985..1958161 (-) 177 WP_392565664.1 Trm112 family protein -
  RHO15_RS08820 (RHO15_08765) lpxK 1958204..1959193 (-) 990 WP_392565665.1 tetraacyldisaccharide 4'-kinase -
  RHO15_RS08825 (RHO15_08770) msbA 1959193..1960890 (-) 1698 WP_392567107.1 lipid A ABC transporter ATP-binding protein/permease MsbA -
  RHO15_RS08830 (RHO15_08775) - 1960990..1963317 (-) 2328 WP_392565666.1 DNA internalization-related competence protein ComEC/Rec2 -
  RHO15_RS08835 (RHO15_08780) - 1963628..1963915 (-) 288 WP_392565667.1 integration host factor subunit beta -
  RHO15_RS08840 (RHO15_08785) rpsA 1964004..1965686 (-) 1683 WP_392565668.1 30S ribosomal protein S1 -
  RHO15_RS08845 (RHO15_08790) cmk 1965787..1966464 (-) 678 WP_392567108.1 (d)CMP kinase -
  RHO15_RS08850 (RHO15_08795) aroA 1966514..1967800 (-) 1287 WP_392567109.1 3-phosphoshikimate 1-carboxyvinyltransferase -
  RHO15_RS08855 (RHO15_08800) - 1968044..1968631 (-) 588 WP_392565669.1 sugar O-acetyltransferase -
  RHO15_RS08860 (RHO15_08805) - 1968710..1969588 (-) 879 WP_392565670.1 helix-turn-helix domain-containing protein -
  RHO15_RS08865 (RHO15_08810) - 1970025..1970273 (-) 249 WP_392565671.1 hypothetical protein -
  RHO15_RS08875 (RHO15_08820) dnaQ 1971169..1971921 (-) 753 WP_392565672.1 DNA polymerase III subunit epsilon -
  RHO15_RS08880 (RHO15_08825) rnhA 1972012..1972482 (+) 471 WP_392567110.1 ribonuclease HI -
  RHO15_RS08885 (RHO15_08830) gloB 1972487..1973239 (+) 753 WP_392567111.1 hydroxyacylglutathione hydrolase -
  RHO15_RS08890 (RHO15_08835) - 1973313..1974542 (+) 1230 WP_392565673.1 transglycosylase SLT domain-containing protein -
  RHO15_RS08895 (RHO15_08840) - 1974559..1975329 (-) 771 WP_392565674.1 endonuclease/exonuclease/phosphatase family protein -
  RHO15_RS08900 (RHO15_08845) gshA 1975491..1977050 (-) 1560 WP_392565675.1 glutamate--cysteine ligase -
  RHO15_RS08905 (RHO15_08850) - 1977182..1977868 (-) 687 WP_392565676.1 aspartate/glutamate racemase family protein -
  RHO15_RS08910 (RHO15_08855) rlmC 1977880..1979022 (-) 1143 WP_392565677.1 23S rRNA (uracil(747)-C(5))-methyltransferase RlmC -
  RHO15_RS08915 (RHO15_08860) - 1979213..1980064 (-) 852 WP_392565678.1 carboxylate/amino acid/amine transporter -
  RHO15_RS08920 (RHO15_08865) - 1980330..1980539 (-) 210 WP_392565679.1 cold shock domain-containing protein -
  RHO15_RS08925 (RHO15_08870) - 1980827..1980979 (-) 153 WP_392565680.1 YoaH family protein -
  RHO15_RS08930 (RHO15_08875) - 1981167..1981373 (-) 207 WP_392565681.1 hypothetical protein -
  RHO15_RS08935 (RHO15_08880) - 1981897..1982106 (-) 210 WP_392565682.1 cold shock domain-containing protein -
  RHO15_RS08940 (RHO15_08885) - 1982415..1982681 (-) 267 WP_392565683.1 hypothetical protein -
  RHO15_RS08945 (RHO15_08890) - 1982857..1983201 (-) 345 WP_392565684.1 tail fiber assembly protein -
  RHO15_RS08950 (RHO15_08895) - 1983183..1984328 (-) 1146 WP_392565685.1 phage tail protein -
  RHO15_RS08955 (RHO15_08900) - 1984338..1984544 (-) 207 WP_392565686.1 hypothetical protein -
  RHO15_RS08960 (RHO15_08905) - 1985260..1986084 (+) 825 WP_392565687.1 hypothetical protein -
  RHO15_RS08965 (RHO15_08910) - 1986089..1986382 (-) 294 WP_392565688.1 hypothetical protein -
  RHO15_RS08970 (RHO15_08915) - 1986489..1987058 (+) 570 WP_392565689.1 serine O-acetyltransferase -
  RHO15_RS08975 (RHO15_08920) - 1987051..1987428 (-) 378 WP_392567112.1 DUF3383 family protein -
  RHO15_RS08980 (RHO15_08925) - 1987425..1987952 (-) 528 WP_392565690.1 LIC_12616 family protein -
  RHO15_RS08985 (RHO15_08930) - 1987996..1988295 (-) 300 WP_392565691.1 hypothetical protein -
  RHO15_RS08990 (RHO15_08935) - 1988699..1988950 (+) 252 WP_392565692.1 hypothetical protein -
  RHO15_RS08995 (RHO15_08940) - 1989098..1989580 (-) 483 WP_392565693.1 lysis system i-spanin subunit Rz -
  RHO15_RS09000 (RHO15_08945) - 1989570..1989677 (-) 108 WP_392565694.1 glycoside hydrolase family protein -
  RHO15_RS09005 (RHO15_08950) - 1989718..1989999 (-) 282 WP_392565695.1 lysozyme -
  RHO15_RS09010 (RHO15_08955) - 1989996..1990298 (-) 303 WP_392565696.1 phage holin family protein -
  RHO15_RS09015 (RHO15_08960) - 1990643..1991008 (-) 366 WP_392565697.1 winged helix-turn-helix transcriptional regulator -
  RHO15_RS09020 (RHO15_08965) - 1991235..1992086 (-) 852 WP_392565698.1 ATP-binding protein -
  RHO15_RS09025 (RHO15_08970) - 1992086..1992226 (-) 141 WP_392565699.1 hypothetical protein -
  RHO15_RS09030 - 1992571..1992820 (-) 250 Protein_1759 helix-turn-helix domain-containing protein -
  RHO15_RS09035 (RHO15_08975) - 1993169..1993846 (+) 678 WP_392565700.1 XRE family transcriptional regulator -

Sequence

Protein


Download         Length: 163 a.a.        Molecular weight: 17638.64 Da        Isoelectric Point: 4.9468

>NTDB_id=878026 RHO15_RS08800 WP_392565661.1 1955789..1956280(+) (ssb) [Utexia brackfieldae strain lpD01]
MASRGINKVILVGNLGQDPEVRYLPNGGAVANISIATSESWKDKQTGEQKERTEWHRVVIFGKLAEIAGEYLRKGSQVYI
EGALQTRKWQDQSGQDRYSTEVVVNIGGVLQILGSRNAGDAPAPAANQNWGQSANNMSSAPAASQPAPMSKEPPIDFDDD
IPF

Nucleotide


Download         Length: 492 bp        

>NTDB_id=878026 RHO15_RS08800 WP_392565661.1 1955789..1956280(+) (ssb) [Utexia brackfieldae strain lpD01]
ATGGCAAGTCGTGGTATTAATAAAGTTATTCTGGTTGGTAATTTAGGACAAGATCCTGAAGTTCGTTATTTGCCGAATGG
CGGCGCAGTTGCCAATATCAGTATCGCCACTTCAGAATCCTGGAAAGATAAACAGACGGGCGAACAAAAAGAACGAACTG
AATGGCATCGTGTGGTTATTTTCGGCAAACTAGCTGAAATTGCGGGTGAATATCTGCGTAAAGGTTCACAAGTTTATATT
GAAGGTGCACTGCAAACGCGTAAATGGCAAGATCAAAGTGGTCAGGATCGTTATAGTACCGAAGTTGTCGTTAATATTGG
CGGTGTTTTACAAATTCTTGGTTCACGTAACGCCGGCGATGCACCAGCACCAGCAGCGAATCAAAATTGGGGACAAAGTG
CCAATAATATGTCATCAGCACCCGCTGCTAGCCAACCAGCTCCGATGAGTAAAGAGCCACCAATCGATTTTGATGATGAT
ATACCGTTCTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(6-105)


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 Vibrio cholerae strain A1552

66.102

100

0.718
  ssb Glaesserella parasuis strain SC1401

54.144

100

0.601
  ssb Neisseria gonorrhoeae MS11

44.633

100

0.485
  ssb Neisseria meningitidis MC58

44.633

100

0.485
  ssb Latilactobacillus sakei subsp. sakei 23K

34.286

100

0.368