Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   VO226_RS05570 Genome accession   NZ_CP142770
Coordinates   1167630..1168139 (+) Length   169 a.a.
NCBI ID   WP_328717291.1    Uniprot ID   -
Organism   Halomonas elongata strain SEK2     
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 1148370..1172173 1167630..1168139 within 0


Gene organization within MGE regions


Location: 1148370..1172173
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VO226_RS05450 (VO226_05450) - 1148370..1150457 (-) 2088 WP_328717268.1 S9 family peptidase -
  VO226_RS05455 (VO226_05455) - 1150540..1150989 (+) 450 WP_013331821.1 hypothetical protein -
  VO226_RS05460 (VO226_05460) - 1150999..1152837 (+) 1839 WP_328717269.1 vWA domain-containing protein -
  VO226_RS05465 (VO226_05465) - 1152949..1154646 (-) 1698 WP_328717270.1 phage tail length tape measure family protein -
  VO226_RS05470 (VO226_05470) - 1154735..1154977 (-) 243 WP_328717271.1 hypothetical protein -
  VO226_RS05475 (VO226_05475) - 1155041..1155370 (-) 330 WP_328717272.1 hypothetical protein -
  VO226_RS05480 (VO226_05480) - 1155316..1156389 (-) 1074 WP_328717273.1 phage tail tube protein -
  VO226_RS05485 (VO226_05485) - 1156438..1156626 (-) 189 WP_414736196.1 hypothetical protein -
  VO226_RS05490 (VO226_05490) - 1156704..1156997 (-) 294 WP_328717275.1 hypothetical protein -
  VO226_RS05495 (VO226_05495) - 1156999..1157379 (-) 381 WP_328717276.1 hypothetical protein -
  VO226_RS05500 (VO226_05500) - 1157366..1157683 (-) 318 WP_328717277.1 hypothetical protein -
  VO226_RS05505 (VO226_05505) - 1157766..1157999 (-) 234 WP_328717278.1 hypothetical protein -
  VO226_RS05510 (VO226_05510) - 1158002..1158967 (-) 966 WP_328717279.1 DUF2184 domain-containing protein -
  VO226_RS05515 (VO226_05515) - 1158980..1159405 (-) 426 WP_328717280.1 hypothetical protein -
  VO226_RS05520 (VO226_05520) - 1159402..1160508 (-) 1107 WP_328717281.1 DUF2213 domain-containing protein -
  VO226_RS05525 (VO226_05525) - 1160505..1161341 (-) 837 WP_328717282.1 phage minor head protein -
  VO226_RS05530 (VO226_05530) - 1161334..1162578 (-) 1245 WP_328717283.1 DUF1073 domain-containing protein -
  VO226_RS05535 (VO226_05535) - 1162972..1163547 (-) 576 WP_328717284.1 glycoside hydrolase family 108 protein -
  VO226_RS05540 (VO226_05540) - 1164169..1164339 (-) 171 WP_328717285.1 hypothetical protein -
  VO226_RS05545 (VO226_05545) - 1164380..1164532 (+) 153 WP_328717286.1 hypothetical protein -
  VO226_RS05550 (VO226_05550) - 1164745..1164954 (+) 210 WP_328717287.1 hypothetical protein -
  VO226_RS05555 (VO226_05555) - 1165053..1165838 (+) 786 WP_328717288.1 Rad52/Rad22 family DNA repair protein -
  VO226_RS05560 (VO226_05560) - 1165831..1166643 (+) 813 WP_328717289.1 hypothetical protein -
  VO226_RS05565 (VO226_05565) - 1166683..1167621 (+) 939 WP_328717290.1 recombination-associated protein RdgC -
  VO226_RS05570 (VO226_05570) ssb 1167630..1168139 (+) 510 WP_328717291.1 single-stranded DNA-binding protein Machinery gene
  VO226_RS05575 (VO226_05575) - 1168491..1168766 (+) 276 WP_328717292.1 hypothetical protein -
  VO226_RS05580 (VO226_05580) - 1168791..1168922 (+) 132 WP_328717293.1 hypothetical protein -
  VO226_RS05585 (VO226_05585) - 1168919..1169464 (+) 546 WP_328717294.1 HD domain-containing protein -
  VO226_RS05590 (VO226_05590) - 1169529..1170071 (+) 543 WP_328717295.1 HNH endonuclease -
  VO226_RS17505 - 1170088..1170312 (+) 225 WP_041601960.1 DUF4224 domain-containing protein -
  VO226_RS05595 (VO226_05595) - 1170442..1171305 (+) 864 WP_328717296.1 tyrosine-type recombinase/integrase -
  VO226_RS05600 (VO226_05600) - 1171391..1172173 (+) 783 WP_112051006.1 class II glutamine amidotransferase -

Sequence

Protein


Download         Length: 169 a.a.        Molecular weight: 19180.27 Da        Isoelectric Point: 7.2017

>NTDB_id=926701 VO226_RS05570 WP_328717291.1 1167630..1168139(+) (ssb) [Halomonas elongata strain SEK2]
MARGINKVILIGNVGQDPEIRFTQSGTPVGNINLATSDTWTDKQSGQKQERTEWHRLIVFRRLAEVAQQYVRKGSKIYVE
GRLQTRKWQDQSGQDRYVTEIIVNDLQMLDSRQGQPQGNAQPQQQPSQNGYFDQQRQYQQQQAAPPNPPGGDDFDDAIPF
SPMHPLMGG

Nucleotide


Download         Length: 510 bp        

>NTDB_id=926701 VO226_RS05570 WP_328717291.1 1167630..1168139(+) (ssb) [Halomonas elongata strain SEK2]
ATGGCCCGAGGCATCAACAAGGTCATCCTGATCGGCAATGTCGGCCAGGATCCCGAGATCCGCTTTACCCAGTCCGGCAC
GCCAGTCGGCAACATCAACCTCGCCACCAGTGACACCTGGACCGACAAGCAGAGTGGTCAGAAGCAGGAGCGCACCGAGT
GGCACCGCCTGATCGTCTTCCGCCGCCTCGCCGAGGTCGCGCAGCAGTACGTGCGCAAGGGCTCGAAAATCTACGTCGAG
GGGCGACTGCAGACACGGAAGTGGCAAGACCAGAGCGGTCAGGATCGCTACGTCACGGAGATCATCGTCAACGATCTGCA
GATGCTCGACTCCCGGCAAGGGCAGCCACAGGGCAACGCCCAGCCTCAGCAGCAGCCTTCACAAAACGGCTACTTCGATC
AGCAGCGGCAGTACCAGCAACAACAGGCCGCGCCGCCGAATCCTCCTGGTGGGGACGACTTTGACGACGCGATCCCATTC
AGCCCCATGCACCCGCTGATGGGCGGCTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(5-109)


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

50.847

100

0.533
  ssb Glaesserella parasuis strain SC1401

48.876

100

0.515
  ssb Neisseria meningitidis MC58

41.618

100

0.426
  ssb Neisseria gonorrhoeae MS11

41.618

100

0.426