Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   HO398_RS18000 Genome accession   NZ_CP053600
Coordinates   3714763..3715248 (+) Length   161 a.a.
NCBI ID   WP_000157061.1    Uniprot ID   A0AAU7IP99
Organism   Escherichia coli strain Nico21(DE3)     
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)
Genomic island 3706050..3724600 3714763..3715248 within 0


Gene organization within MGE regions


Location: 3706050..3724600
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HO398_RS17975 (HO398_17980) - 3706050..3707234 (+) 1185 WP_001218910.1 tyrosine-type recombinase/integrase -
  HO398_RS17980 (HO398_17985) - 3707645..3708688 (+) 1044 WP_000999851.1 tetratricopeptide repeat protein -
  HO398_RS22535 - 3708831..3709061 (+) 231 WP_001703923.1 hypothetical protein -
  HO398_RS17985 (HO398_17990) - 3709086..3710156 (-) 1071 WP_000412404.1 LacI family DNA-binding transcriptional regulator -
  HO398_RS17990 (HO398_17995) - 3710418..3711719 (+) 1302 WP_001329026.1 MFS transporter -
  HO398_RS17995 (HO398_18000) - 3711734..3714115 (+) 2382 WP_001313395.1 glycoside hydrolase family 31 protein -
  HO398_RS22540 ykgR 3714296..3714397 (+) 102 WP_001313396.1 small membrane protein YkgR -
  HO398_RS18000 (HO398_18005) ssb 3714763..3715248 (+) 486 WP_000157061.1 single-stranded DNA-binding protein Machinery gene
  HO398_RS18010 (HO398_18015) - 3716313..3716659 (-) 347 Protein_3559 transposase -
  HO398_RS18015 (HO398_18020) - 3716695..3717150 (-) 456 Protein_3560 hypothetical protein -
  HO398_RS18020 (HO398_18025) - 3717199..3717354 (-) 156 WP_000074142.1 hypothetical protein -
  HO398_RS18025 (HO398_18030) - 3717974..3718354 (+) 381 Protein_3562 integrase core domain-containing protein -
  HO398_RS18030 (HO398_18035) - 3718633..3722130 (+) 3498 WP_001038839.1 autotransporter outer membrane beta-barrel domain-containing protein -
  HO398_RS18035 (HO398_18040) - 3722305..3722510 (-) 206 Protein_3564 hypothetical protein -
  HO398_RS22295 (HO398_18045) - 3722509..3722649 (+) 141 Protein_3565 alkaline phosphatase -
  HO398_RS22545 - 3722990..3723097 (-) 108 Protein_3566 type II toxin-antitoxin system RelE family toxin -
  HO398_RS18045 (HO398_18050) - 3723163..3723408 (+) 246 Protein_3567 transposase -
  HO398_RS18050 (HO398_18055) - 3723476..3724522 (+) 1047 Protein_3568 IS30-like element IS30 family transposase -

Sequence

Protein


Download         Length: 161 a.a.        Molecular weight: 17685.62 Da        Isoelectric Point: 7.2017

>NTDB_id=445399 HO398_RS18000 WP_000157061.1 3714763..3715248(+) (ssb) [Escherichia coli strain Nico21(DE3)]
MASKGINKVILIGYLGQDPDIRYMPNGGAVASIALATSETWRDKQTGEMREQTEWHRVVLFGKLAEVASEYLRKGAQVYI
DGQLRTRKWTDQTGQERYTTEVVVHTGGTMQMLGSRQNSAQGGRGQPQQPQQGRQFSGNSPSPGNTAMSGSFSDDDDSIP
F

Nucleotide


Download         Length: 486 bp        

>NTDB_id=445399 HO398_RS18000 WP_000157061.1 3714763..3715248(+) (ssb) [Escherichia coli strain Nico21(DE3)]
ATGGCCTCTAAAGGTATTAACAAAGTTATTCTGATAGGGTATCTGGGTCAGGACCCGGATATTCGCTATATGCCAAACGG
CGGCGCTGTGGCCAGCATTGCGCTGGCCACCTCCGAAACCTGGCGGGACAAACAGACAGGGGAGATGCGGGAACAAACCG
AATGGCACCGCGTGGTGCTGTTCGGCAAACTGGCGGAAGTAGCCAGTGAATACCTGCGCAAAGGAGCTCAGGTGTACATC
GATGGTCAGCTGCGTACCCGAAAATGGACCGACCAGACCGGCCAGGAACGCTACACGACTGAAGTGGTGGTGCATACCGG
CGGTACCATGCAGATGCTGGGCTCCCGGCAGAATAGTGCACAGGGTGGCCGGGGACAGCCTCAACAACCACAACAGGGCA
GACAGTTTTCAGGTAATTCGCCATCTCCGGGCAATACCGCCATGTCCGGCAGTTTCAGCGACGATGACGACAGTATCCCG
TTCTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(6-112)


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

58.757

100

0.646
  ssb Glaesserella parasuis strain SC1401

52.632

94.41

0.497
  ssb Neisseria meningitidis MC58

41.477

100

0.453
  ssb Neisseria gonorrhoeae MS11

41.477

100

0.453
  ssb Latilactobacillus sakei subsp. sakei 23K

32.402

100

0.36