Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   HV561_RS10375 Genome accession   NZ_CP055302
Coordinates   2032221..2032742 (+) Length   173 a.a.
NCBI ID   WP_176808828.1    Uniprot ID   -
Organism   Mannheimia pernigra strain 16CN0041     
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 2020930..2041675 2032221..2032742 within 0


Gene organization within MGE regions


Location: 2020930..2041675
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HV561_RS10335 (HV561_10330) - 2020930..2021880 (-) 951 WP_159630893.1 ribose-phosphate pyrophosphokinase -
  HV561_RS10340 (HV561_10335) ispE 2021896..2022759 (-) 864 WP_176808821.1 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase -
  HV561_RS10345 (HV561_10340) lolB 2022747..2023379 (-) 633 WP_176808822.1 lipoprotein insertase outer membrane protein LolB -
  HV561_RS10350 (HV561_10345) msbA 2023433..2025181 (-) 1749 WP_176808823.1 lipid A ABC transporter ATP-binding protein/permease MsbA -
  HV561_RS10355 (HV561_10350) - 2025371..2027293 (-) 1923 WP_176808824.1 ATP-dependent DNA helicase -
  HV561_RS10360 (HV561_10355) - 2027297..2028094 (-) 798 WP_176808825.1 ABC transporter ATP-binding protein -
  HV561_RS10365 (HV561_10360) - 2028096..2029028 (-) 933 WP_176808826.1 ABC transporter permease -
  HV561_RS10370 (HV561_10365) uvrA 2029236..2032064 (-) 2829 WP_176808827.1 excinuclease ABC subunit UvrA -
  HV561_RS10375 (HV561_10370) ssb 2032221..2032742 (+) 522 WP_176808828.1 single-stranded DNA-binding protein Machinery gene
  HV561_RS11495 - 2033355..2034161 (+) 807 WP_238336857.1 site-specific integrase -
  HV561_RS10385 (HV561_10380) - 2034154..2035575 (+) 1422 WP_238336858.1 site-specific integrase -
  HV561_RS11500 - 2035677..2035943 (+) 267 WP_238336859.1 hypothetical protein -
  HV561_RS10390 (HV561_10385) - 2035976..2037703 (+) 1728 WP_238336860.1 integrase -
  HV561_RS10395 (HV561_10390) - 2037705..2038109 (+) 405 WP_176808829.1 hypothetical protein -
  HV561_RS10400 (HV561_10395) - 2038142..2038585 (-) 444 WP_176669973.1 hypothetical protein -
  HV561_RS10405 (HV561_10400) - 2038618..2039247 (-) 630 WP_111313031.1 hypothetical protein -
  HV561_RS10410 (HV561_10405) - 2039335..2039979 (-) 645 WP_176808830.1 hypothetical protein -
  HV561_RS10415 (HV561_10410) - 2040134..2040550 (+) 417 WP_111313030.1 helix-turn-helix domain-containing protein -
  HV561_RS10420 (HV561_10415) - 2040594..2041675 (+) 1082 Protein_2014 IS481 family transposase -

Sequence

Protein


Download         Length: 173 a.a.        Molecular weight: 19340.10 Da        Isoelectric Point: 5.2533

>NTDB_id=457487 HV561_RS10375 WP_176808828.1 2032221..2032742(+) (ssb) [Mannheimia pernigra strain 16CN0041]
MAGINKVIIVGNLGNDPEMRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVCGQYLRKGSQVYVEG
RLRTRKWQDQNGQDRYTTEIQGDVLQMLGSRQGNDMSNQPQSGWGNSAPAGNSYNQGNSNYSYSQTSNSAQPQSKPAPQA
EPAMNNFDDDIPF

Nucleotide


Download         Length: 522 bp        

>NTDB_id=457487 HV561_RS10375 WP_176808828.1 2032221..2032742(+) (ssb) [Mannheimia pernigra strain 16CN0041]
ATGGCTGGTATCAATAAAGTAATTATCGTAGGTAATTTAGGTAACGACCCAGAAATGCGTACAATGCCAAATGGCGAAGC
GGTAGCAAATATTAGTGTAGCGACATCTGAAAGCTGGACGGATAAAAATACAGGCGAACGTCGAGAGGTTACTGAATGGC
ATCGTATTGTATTTTATCGTCGCCAAGCAGAAGTATGTGGGCAATATCTACGTAAAGGTTCACAAGTTTATGTGGAAGGT
CGTTTAAGAACCCGTAAATGGCAAGACCAAAACGGACAAGATCGTTACACCACTGAAATTCAAGGTGATGTATTACAAAT
GCTCGGTAGCCGCCAAGGTAATGATATGAGCAACCAACCACAAAGCGGTTGGGGTAATTCAGCACCTGCAGGAAATAGTT
ATAATCAAGGTAATAGCAATTATAGCTATAGCCAAACTTCAAATTCAGCACAACCACAATCTAAACCTGCTCCACAAGCT
GAACCTGCAATGAACAATTTTGATGATGATATTCCTTTCTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(4-108)


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 Glaesserella parasuis strain SC1401

72.928

100

0.763
  ssb Vibrio cholerae strain A1552

53.977

100

0.549
  ssb Neisseria meningitidis MC58

46.857

100

0.474
  ssb Neisseria gonorrhoeae MS11

46.857

100

0.474
  ssb Latilactobacillus sakei subsp. sakei 23K

35.165

100

0.37