Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbA   Type   Machinery gene
Locus tag   EH162_RS00125 Genome accession   NZ_CP034111
Coordinates   13795..14268 (-) Length   157 a.a.
NCBI ID   WP_124726168.1    Uniprot ID   -
Organism   Staphylococcus epidermidis strain CDC120     
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 596..26701 13795..14268 within 0


Gene organization within MGE regions


Location: 596..26701
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EH162_RS00010 - 596..958 (-) 363 WP_002504164.1 hypothetical protein -
  EH162_RS00015 - 1022..1207 (-) 186 WP_002456405.1 hypothetical protein -
  EH162_RS00020 - 1226..1855 (-) 630 WP_049401376.1 major tail protein -
  EH162_RS00025 - 1868..2272 (-) 405 WP_124726159.1 hypothetical protein -
  EH162_RS00030 - 2277..2543 (-) 267 WP_124726160.1 hypothetical protein -
  EH162_RS00035 - 2678..3007 (-) 330 WP_100481683.1 head-tail adaptor protein -
  EH162_RS00040 - 2997..3338 (-) 342 WP_124726161.1 head-tail connector protein -
  EH162_RS00045 - 3357..4697 (-) 1341 WP_124726162.1 phage major capsid protein -
  EH162_RS00050 - 4738..5295 (-) 558 WP_103433950.1 HK97 family phage prohead protease -
  EH162_RS00055 - 5285..6517 (-) 1233 WP_002456397.1 phage portal protein -
  EH162_RS00060 - 6517..6711 (-) 195 WP_002500102.1 hypothetical protein -
  EH162_RS00065 - 6723..8417 (-) 1695 WP_124726163.1 terminase TerL endonuclease subunit -
  EH162_RS00070 - 8404..8871 (-) 468 WP_002500104.1 phage terminase small subunit P27 family -
  EH162_RS00075 - 9043..9393 (-) 351 WP_124726230.1 HNH endonuclease -
  EH162_RS00080 - 9870..10316 (-) 447 WP_002484732.1 transcriptional regulator -
  EH162_RS00085 - 10333..10482 (-) 150 WP_002484731.1 DUF1514 family protein -
  EH162_RS00090 - 10482..10649 (-) 168 WP_124726164.1 regulator -
  EH162_RS00095 - 10754..11056 (+) 303 WP_124726165.1 DUF4870 domain-containing protein -
  EH162_RS00100 dut 11147..11569 (-) 423 WP_049367129.1 dUTP diphosphatase -
  EH162_RS00105 - 11626..11943 (+) 318 WP_237624469.1 hypothetical protein -
  EH162_RS13190 - 12083..12430 (-) 348 WP_267953678.1 hypothetical protein -
  EH162_RS00115 - 12431..12838 (-) 408 WP_124726166.1 RusA family crossover junction endodeoxyribonuclease -
  EH162_RS00120 - 12878..13765 (-) 888 WP_124726167.1 DnaD domain protein -
  EH162_RS00125 ssbA 13795..14268 (-) 474 WP_124726168.1 single-stranded DNA-binding protein Machinery gene
  EH162_RS00130 - 14269..14886 (-) 618 WP_237624473.1 MBL fold metallo-hydrolase -
  EH162_RS00135 - 14967..15887 (-) 921 WP_124726170.1 recombinase RecT -
  EH162_RS00140 - 15889..17841 (-) 1953 WP_124726171.1 ATPase -
  EH162_RS12745 - 17903..18079 (-) 177 WP_164493039.1 hypothetical protein -
  EH162_RS00145 - 18167..18448 (+) 282 WP_124726172.1 hypothetical protein -
  EH162_RS12750 - 18445..18591 (-) 147 WP_001830230.1 hypothetical protein -
  EH162_RS00150 - 18605..18814 (-) 210 WP_001830281.1 hypothetical protein -
  EH162_RS12755 - 18869..19045 (+) 177 WP_164493040.1 hypothetical protein -
  EH162_RS00155 - 19207..19701 (-) 495 WP_124726173.1 ORF6C domain-containing protein -
  EH162_RS00160 - 19791..20012 (-) 222 WP_124726174.1 hypothetical protein -
  EH162_RS00165 - 20024..20905 (-) 882 WP_124726175.1 DUF3102 domain-containing protein -
  EH162_RS00170 - 20951..21175 (+) 225 WP_032603797.1 hypothetical protein -
  EH162_RS12760 - 21168..21308 (-) 141 WP_164493041.1 hypothetical protein -
  EH162_RS00175 - 21325..21540 (-) 216 WP_124726176.1 helix-turn-helix transcriptional regulator -
  EH162_RS00180 - 21739..22350 (+) 612 WP_124726177.1 LexA family transcriptional regulator -
  EH162_RS12765 - 22395..22562 (+) 168 WP_164493042.1 hypothetical protein -
  EH162_RS00185 - 22566..23723 (+) 1158 WP_164493043.1 CapA family protein -
  EH162_RS00190 - 24046..24273 (+) 228 WP_237624471.1 hypothetical protein -
  EH162_RS13195 - 24514..24750 (+) 237 WP_124726232.1 hypothetical protein -
  EH162_RS00200 - 24775..25569 (+) 795 WP_124726179.1 DUF1828 domain-containing protein -
  EH162_RS00205 - 25652..26701 (+) 1050 WP_002439151.1 site-specific integrase -

Sequence

Protein


Download         Length: 157 a.a.        Molecular weight: 17693.43 Da        Isoelectric Point: 4.7719

>NTDB_id=329102 EH162_RS00125 WP_124726168.1 13795..14268(-) (ssbA) [Staphylococcus epidermidis strain CDC120]
MINRVVLVGRLTKDPEFRTTPNGVEVTNFILAINRNFTNANGEREADFINVITFRKQAVNVNEYLSKGKLAGVDGRIQSR
SYENQEGRRIFVTEVVADSVQFLEPKNANGSQQNDYYQQQSRAQQGQNRQQSNEPVGDNPFANANGPIDINDDDLPF

Nucleotide


Download         Length: 474 bp        

>NTDB_id=329102 EH162_RS00125 WP_124726168.1 13795..14268(-) (ssbA) [Staphylococcus epidermidis strain CDC120]
ATGATTAACAGAGTCGTATTAGTAGGTCGTTTAACTAAAGATCCAGAGTTTAGAACAACGCCTAACGGTGTTGAAGTAAC
AAACTTCATACTAGCGATTAACCGTAATTTTACGAACGCTAATGGAGAACGAGAAGCAGATTTTATAAACGTTATAACTT
TCAGAAAGCAAGCTGTAAACGTAAACGAGTATTTATCTAAAGGAAAACTAGCAGGCGTTGATGGACGAATTCAATCACGC
AGCTATGAAAATCAAGAAGGTCGTCGGATTTTTGTCACTGAAGTTGTCGCAGATAGTGTTCAATTTCTCGAACCTAAAAA
TGCAAATGGTAGTCAACAAAATGATTACTACCAACAACAATCAAGAGCTCAGCAAGGACAAAACAGACAACAAAGCAATG
AACCGGTTGGAGATAACCCGTTTGCAAACGCTAATGGTCCAATTGATATTAATGATGATGATTTACCATTTTAA

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
  ssbA Bacillus subtilis subsp. subtilis str. 168

58.14

100

0.637
  ssb Latilactobacillus sakei subsp. sakei 23K

50

100

0.541
  ssbB Bacillus subtilis subsp. subtilis str. 168

56.604

67.516

0.382
  ssb Neisseria meningitidis MC58

34.682

100

0.382
  ssb Neisseria gonorrhoeae MS11

34.682

100

0.382

Multiple sequence alignment