Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   AB1X98_RS18335 Genome accession   NZ_CP160647
Coordinates   3537075..3537611 (+) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella flexneri strain 401192     
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 3516811..3542180 3537075..3537611 within 0
IScluster/Tn 3537731..3542694 3537075..3537611 flank 120


Gene organization within MGE regions


Location: 3516811..3542694
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB1X98_RS18225 (AB1X98_18250) - 3516811..3517419 (-) 609 Protein_3549 DUF2713 family protein -
  AB1X98_RS18235 - 3518175..3518572 (-) 398 Protein_3551 DUF2713 family protein -
  AB1X98_RS18240 (AB1X98_18270) zur 3518890..3519405 (+) 516 WP_004988057.1 zinc uptake transcriptional repressor Zur -
  AB1X98_RS18245 (AB1X98_18275) - 3519447..3519587 (-) 141 Protein_3553 CsbD family protein -
  AB1X98_RS18255 (AB1X98_18285) - 3520329..3520433 (-) 105 WP_375155608.1 CsbD family protein -
  AB1X98_RS18260 (AB1X98_18290) dinF 3520549..3521874 (-) 1326 WP_001308275.1 MATE family efflux transporter DinF -
  AB1X98_RS18265 (AB1X98_18295) lexA 3521947..3522555 (-) 609 WP_000646078.1 transcriptional repressor LexA -
  AB1X98_RS18270 (AB1X98_18300) dgkA 3522665..3523033 (-) 369 WP_000002907.1 diacylglycerol kinase -
  AB1X98_RS18275 (AB1X98_18305) plsB 3523204..3525627 (+) 2424 WP_004988121.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  AB1X98_RS18280 (AB1X98_18310) ubiA 3525782..3526654 (-) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  AB1X98_RS18285 (AB1X98_18315) ubiC 3526667..3527164 (-) 498 WP_001295693.1 chorismate lyase -
  AB1X98_RS18290 (AB1X98_18320) - 3527387..3527593 (-) 207 Protein_3562 hypothetical protein -
  AB1X98_RS18295 (AB1X98_18325) - 3527708..3528835 (+) 1128 WP_001063816.1 IS110-like element ISSso6 family transposase -
  AB1X98_RS18300 (AB1X98_18330) - 3529102..3530486 (-) 1385 Protein_3564 SopA family protein -
  AB1X98_RS18305 (AB1X98_18335) - 3530686..3531383 (+) 698 WP_226342159.1 IS1 family transposase -
  AB1X98_RS18310 (AB1X98_18340) - 3531740..3531962 (-) 223 Protein_3566 hypothetical protein -
  AB1X98_RS18315 (AB1X98_18345) aphA 3532364..3533077 (+) 714 WP_001226928.1 acid phosphatase AphA -
  AB1X98_RS18320 (AB1X98_18350) - 3533188..3533604 (+) 417 WP_000270377.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  AB1X98_RS18325 (AB1X98_18355) - 3533608..3533964 (+) 357 WP_000155650.1 MmcQ/YjbR family DNA-binding protein -
  AB1X98_RS18330 (AB1X98_18360) uvrA 3533999..3536821 (-) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  AB1X98_RS18335 (AB1X98_18365) ssb 3537075..3537611 (+) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  AB1X98_RS18340 (AB1X98_18370) - 3537731..3539038 (-) 1308 WP_375155609.1 IS4-like element IS4 family transposase -
  AB1X98_RS18350 - 3540330..3540404 (-) 75 Protein_3574 hypothetical protein -
  AB1X98_RS18355 (AB1X98_18380) - 3540495..3540776 (-) 282 WP_001295689.1 YjcB family protein -
  AB1X98_RS18360 (AB1X98_18385) - 3541206..3541946 (+) 741 WP_000019560.1 CSS-motif domain-containing protein -
  AB1X98_RS18365 (AB1X98_18390) - 3541997..3542694 (+) 698 WP_226342160.1 IS1 family transposase -

Sequence

Protein


Download         Length: 178 a.a.        Molecular weight: 18975.00 Da        Isoelectric Point: 5.2358

>NTDB_id=1021939 AB1X98_RS18335 WP_000168305.1 3537075..3537611(+) (ssb) [Shigella flexneri strain 401192]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=1021939 AB1X98_RS18335 WP_000168305.1 3537075..3537611(+) (ssb) [Shigella flexneri strain 401192]
ATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGG
TGGCGCAGTTGCCAACATTACGCTGGCTACTTCCGAATCCTGGCGTGATAAAGCGACCGGCGAGATGAAAGAACAGACTG
AATGGCACCGCGTTGTGCTGTTCGGCAAACTGGCAGAAGTGGCCAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATC
GAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGG
CGGCACCATGCAGATGCTGGGTGGTCGTCAGGGTGGTGGCGCTCCGGCAGGTGGTAATATCGGTGGTGGTCAGCCGCAGG
GCGGTTGGGGTCAGCCTCAGCAGCCGCAGGGTGGCAATCAGTTCAGCGGCGGCGCGCAGTCTCGCCCGCAGCAGTCCGCT
CCGGCAGCGCCGTCTAACGAGCCGCCGATGGACTTTGATGATGACATTCCGTTCTGA

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

74.444

100

0.753
  ssb Glaesserella parasuis strain SC1401

57.923

100

0.596
  ssb Neisseria meningitidis MC58

48.066

100

0.489
  ssb Neisseria gonorrhoeae MS11

48.066

100

0.489

Multiple sequence alignment