Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   EEA44_RS04595 Genome accession   NZ_CP033438
Coordinates   931180..931626 (+) Length   148 a.a.
NCBI ID   WP_065124802.1    Uniprot ID   -
Organism   Pediococcus acidilactici strain ATCC 8042     
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 921283..970090 931180..931626 within 0


Gene organization within MGE regions


Location: 921283..970090
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EEA44_RS04520 - 921283..922458 (-) 1176 WP_133279893.1 tyrosine-type recombinase/integrase -
  EEA44_RS04525 - 922546..922815 (-) 270 WP_133279894.1 hypothetical protein -
  EEA44_RS04530 - 922893..923699 (-) 807 WP_207920878.1 hypothetical protein -
  EEA44_RS04535 - 923680..923910 (+) 231 WP_133279896.1 2-hydroxymuconic semialdehyde hydrolase -
  EEA44_RS04540 - 923995..924987 (-) 993 WP_159225409.1 hypothetical protein -
  EEA44_RS04545 - 925044..925709 (-) 666 WP_133279898.1 LexA family protein -
  EEA44_RS04550 - 925851..926114 (+) 264 WP_229038662.1 helix-turn-helix transcriptional regulator -
  EEA44_RS04555 - 926111..926326 (+) 216 WP_133279899.1 hypothetical protein -
  EEA44_RS04560 - 926411..926875 (+) 465 WP_232621116.1 helix-turn-helix domain-containing protein -
  EEA44_RS04565 - 926876..927157 (+) 282 WP_133279900.1 hypothetical protein -
  EEA44_RS09780 - 927159..927302 (+) 144 WP_159225408.1 hypothetical protein -
  EEA44_RS04570 - 927489..928382 (+) 894 WP_133279901.1 DUF1351 domain-containing protein -
  EEA44_RS04575 - 928385..929224 (+) 840 WP_133279902.1 ERF family protein -
  EEA44_RS04580 - 929217..930098 (+) 882 WP_133279903.1 helix-turn-helix domain-containing protein -
  EEA44_RS04585 - 930103..930825 (+) 723 WP_133279904.1 putative HNHc nuclease -
  EEA44_RS04590 - 930770..931177 (+) 408 WP_133279905.1 hypothetical protein -
  EEA44_RS04595 ssb 931180..931626 (+) 447 WP_065124802.1 single-stranded DNA-binding protein Machinery gene
  EEA44_RS04600 - 931637..931984 (+) 348 WP_065124801.1 DUF1642 domain-containing protein -
  EEA44_RS04605 - 931981..932205 (+) 225 WP_065124800.1 hypothetical protein -
  EEA44_RS09785 - 932225..932383 (+) 159 WP_153903504.1 hypothetical protein -
  EEA44_RS04610 - 932723..933160 (+) 438 WP_159208620.1 ArpU family phage packaging/lysis transcriptional regulator -
  EEA44_RS04620 - 933759..934427 (+) 669 WP_065124798.1 hypothetical protein -
  EEA44_RS09880 - 934496..935185 (+) 690 WP_232621117.1 terminase gpP N-terminus-related DNA-binding protein -
  EEA44_RS04630 - 935172..936479 (+) 1308 WP_133279907.1 PBSX family phage terminase large subunit -
  EEA44_RS04635 - 936543..938045 (+) 1503 WP_232621118.1 phage portal protein -
  EEA44_RS04640 - 938042..939175 (+) 1134 WP_133279909.1 phage minor capsid protein -
  EEA44_RS04645 - 939272..939829 (+) 558 WP_133279910.1 phage scaffolding protein -
  EEA44_RS04650 - 939841..940737 (+) 897 WP_133279911.1 hypothetical protein -
  EEA44_RS04655 - 940809..941228 (+) 420 WP_133279912.1 hypothetical protein -
  EEA44_RS04660 - 941225..941575 (+) 351 WP_133279913.1 putative minor capsid protein -
  EEA44_RS04665 - 941575..941919 (+) 345 WP_133279914.1 minor capsid protein -
  EEA44_RS04670 - 941919..942311 (+) 393 WP_133279915.1 phage tail terminator protein -
  EEA44_RS04675 - 942324..942866 (+) 543 WP_232621119.1 phage tail tube protein -
  EEA44_RS04680 - 942940..943407 (+) 468 WP_133279916.1 Ig-like domain-containing protein -
  EEA44_RS04685 - 943483..943869 (+) 387 WP_133279917.1 hypothetical protein -
  EEA44_RS04690 - 943879..944499 (+) 621 WP_133279918.1 Gp15 family bacteriophage protein -
  EEA44_RS09800 - 944533..950154 (+) 5622 WP_159225406.1 tape measure protein -
  EEA44_RS04700 - 950156..950980 (+) 825 WP_133279919.1 phage tail domain-containing protein -
  EEA44_RS04705 - 950993..952108 (+) 1116 WP_133279920.1 prophage endopeptidase tail family protein -
  EEA44_RS04710 - 952101..952352 (+) 252 WP_133279921.1 hypothetical protein -
  EEA44_RS04715 - 952345..952623 (+) 279 WP_159225405.1 hypothetical protein -
  EEA44_RS04720 - 952625..953374 (+) 750 WP_198465265.1 hypothetical protein -
  EEA44_RS04725 - 953387..954850 (+) 1464 WP_133279923.1 hypothetical protein -
  EEA44_RS09805 - 954862..955020 (+) 159 WP_159225404.1 hypothetical protein -
  EEA44_RS04730 - 955020..955166 (+) 147 WP_133279924.1 XkdX family protein -
  EEA44_RS04735 - 955209..955499 (+) 291 WP_232621120.1 hypothetical protein -
  EEA44_RS04740 - 955499..955753 (+) 255 WP_133279926.1 phage holin -
  EEA44_RS04745 - 955737..956858 (+) 1122 WP_133279927.1 peptidoglycan recognition protein family protein -
  EEA44_RS04750 - 956968..957234 (+) 267 WP_133279928.1 hypothetical protein -
  EEA44_RS04755 dnaG 958049..959905 (+) 1857 WP_002830330.1 DNA primase -
  EEA44_RS04760 rpoD 959923..961062 (+) 1140 WP_002830329.1 RNA polymerase sigma factor RpoD -
  EEA44_RS04765 - 961158..961868 (+) 711 WP_002830328.1 tRNA (adenine(22)-N(1))-methyltransferase -
  EEA44_RS04770 - 961846..962637 (+) 792 WP_004165938.1 Nif3-like dinuclear metal center hexameric protein -
  EEA44_RS04775 clpB 962649..965252 (+) 2604 WP_133279929.1 ATP-dependent chaperone ClpB -
  EEA44_RS04780 - 965360..965536 (-) 177 WP_002831889.1 YjzD family protein -
  EEA44_RS04785 dnaE 965663..968998 (+) 3336 WP_119178945.1 DNA polymerase III subunit alpha -
  EEA44_RS04790 pfkA 969122..970090 (+) 969 WP_002830324.1 6-phosphofructokinase -

Sequence

Protein


Download         Length: 148 a.a.        Molecular weight: 16646.32 Da        Isoelectric Point: 5.7209

>NTDB_id=323742 EEA44_RS04595 WP_065124802.1 931180..931626(+) (ssb) [Pediococcus acidilactici strain ATCC 8042]
MINRTVLVGRLTKDPEIRYTQSGMAVANFTMAVNRQFTNANGEREADFISCIVWRKAAENFCNFTHKGSLVGIDGRIQTS
SYEKEGQRVYATQVVVDSFSLLEPKQQSQQRGQQSNASDALHNNFGQPTNNYSQNNNDFGIDDNDLPF

Nucleotide


Download         Length: 447 bp        

>NTDB_id=323742 EEA44_RS04595 WP_065124802.1 931180..931626(+) (ssb) [Pediococcus acidilactici strain ATCC 8042]
ATGATTAATCGAACCGTATTAGTCGGACGCCTAACCAAGGATCCAGAAATCCGTTATACCCAATCAGGGATGGCGGTGGC
CAACTTTACTATGGCCGTGAACCGGCAGTTCACCAACGCTAATGGCGAGCGAGAAGCGGACTTTATCAGCTGTATTGTCT
GGAGAAAGGCGGCCGAAAACTTCTGTAATTTTACCCACAAAGGATCATTGGTCGGGATTGATGGTCGGATTCAAACTAGT
TCGTACGAAAAGGAAGGTCAACGCGTGTATGCTACACAAGTGGTTGTAGATAGTTTCTCGTTGCTTGAACCAAAGCAACA
AAGCCAACAACGTGGCCAGCAATCCAACGCTAGCGATGCTTTGCATAACAATTTCGGACAACCTACTAACAATTATAGCC
AGAATAATAACGATTTCGGCATCGACGATAATGATTTGCCGTTTTAG

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-101)


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

54.706

100

0.628
  ssbA Bacillus subtilis subsp. subtilis str. 168

48.837

100

0.568
  ssbB Bacillus subtilis subsp. subtilis str. 168

55.455

74.324

0.412
  ssbB Streptococcus sobrinus strain NIDR 6715-7

38.514

100

0.385
  ssbB/cilA Streptococcus pneumoniae TIGR4

37.838

100

0.378
  ssbB/cilA Streptococcus mitis NCTC 12261

37.838

100

0.378
  ssb Vibrio cholerae strain A1552

31.977

100

0.372
  ssbB/cilA Streptococcus pneumoniae Rx1

37.162

100

0.372
  ssbB/cilA Streptococcus pneumoniae D39

37.162

100

0.372
  ssbB/cilA Streptococcus pneumoniae R6

37.162

100

0.372
  ssbB/cilA Streptococcus mitis SK321

37.162

100

0.372

Multiple sequence alignment