Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   AB1Y00_RS15745 Genome accession   NZ_CP160646
Coordinates   2752920..2753456 (-) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella flexneri strain 403127     
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 2748585..2772943 2752920..2753456 within 0
IScluster/Tn 2747837..2752800 2752920..2753456 flank 120


Gene organization within MGE regions


Location: 2747837..2772943
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB1Y00_RS15720 (AB1Y00_15755) - 2748585..2749325 (-) 741 WP_000019560.1 CSS-motif domain-containing protein -
  AB1Y00_RS15725 (AB1Y00_15760) - 2749755..2750036 (+) 282 WP_001295689.1 YjcB family protein -
  AB1Y00_RS15730 - 2750127..2750201 (+) 75 Protein_2839 hypothetical protein -
  AB1Y00_RS15735 (AB1Y00_15765) - 2750280..2751508 (+) 1229 WP_088895425.1 IS3-like element IS2 family transposase -
  AB1Y00_RS15740 (AB1Y00_15770) - 2751493..2752800 (+) 1308 WP_375155609.1 IS4-like element IS4 family transposase -
  AB1Y00_RS15745 (AB1Y00_15775) ssb 2752920..2753456 (-) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  AB1Y00_RS15750 (AB1Y00_15780) uvrA 2753710..2756532 (+) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  AB1Y00_RS15755 (AB1Y00_15785) - 2756567..2756923 (-) 357 WP_000155650.1 MmcQ/YjbR family DNA-binding protein -
  AB1Y00_RS15760 (AB1Y00_15790) - 2756927..2757343 (-) 417 WP_000270377.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  AB1Y00_RS15765 (AB1Y00_15795) aphA 2757454..2758167 (-) 714 WP_001226928.1 acid phosphatase AphA -
  AB1Y00_RS15770 (AB1Y00_15800) - 2758569..2758791 (+) 223 Protein_2847 hypothetical protein -
  AB1Y00_RS15780 (AB1Y00_15810) - 2760045..2761429 (+) 1385 Protein_2849 SopA family protein -
  AB1Y00_RS15785 (AB1Y00_15815) - 2761696..2762823 (-) 1128 WP_001063816.1 IS110-like element ISSso6 family transposase -
  AB1Y00_RS15790 (AB1Y00_15820) - 2762938..2763144 (+) 207 Protein_2851 hypothetical protein -
  AB1Y00_RS15795 (AB1Y00_15825) ubiC 2763367..2763864 (+) 498 WP_001295693.1 chorismate lyase -
  AB1Y00_RS15800 (AB1Y00_15830) ubiA 2763877..2764749 (+) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  AB1Y00_RS15805 (AB1Y00_15835) plsB 2764904..2767327 (-) 2424 WP_004988121.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  AB1Y00_RS15810 (AB1Y00_15840) dgkA 2767498..2767866 (+) 369 WP_000002907.1 diacylglycerol kinase -
  AB1Y00_RS15815 (AB1Y00_15845) lexA 2767976..2768584 (+) 609 WP_000646078.1 transcriptional repressor LexA -
  AB1Y00_RS15820 (AB1Y00_15850) dinF 2768657..2769982 (+) 1326 WP_001308275.1 MATE family efflux transporter DinF -
  AB1Y00_RS15825 (AB1Y00_15855) - 2770098..2770307 (+) 210 WP_001030593.1 CsbD family protein -
  AB1Y00_RS15830 (AB1Y00_15860) zur 2770349..2770864 (-) 516 WP_004988057.1 zinc uptake transcriptional repressor Zur -
  AB1Y00_RS15835 - 2771182..2771579 (+) 398 Protein_2860 DUF2713 family protein -
  AB1Y00_RS15840 (AB1Y00_15875) - 2771636..2772333 (+) 698 WP_226342157.1 IS1 family transposase -
  AB1Y00_RS15845 (AB1Y00_15880) - 2772335..2772943 (+) 609 Protein_2862 DUF2713 family protein -

Sequence

Protein


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

>NTDB_id=1021906 AB1Y00_RS15745 WP_000168305.1 2752920..2753456(-) (ssb) [Shigella flexneri strain 403127]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=1021906 AB1Y00_RS15745 WP_000168305.1 2752920..2753456(-) (ssb) [Shigella flexneri strain 403127]
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