Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   AB1X93_RS10545 Genome accession   NZ_CP162053
Coordinates   2014032..2014568 (-) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella flexneri strain 600006     
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 2009707..2034054 2014032..2014568 within 0
IScluster/Tn 2008959..2013931 2014032..2014568 flank 101


Gene organization within MGE regions


Location: 2008959..2034054
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB1X93_RS10520 (AB1X93_10545) - 2009707..2010447 (-) 741 WP_000019560.1 CSS-motif domain-containing protein -
  AB1X93_RS10525 (AB1X93_10550) - 2010877..2011158 (+) 282 WP_001295689.1 YjcB family protein -
  AB1X93_RS10530 - 2011249..2011323 (+) 75 Protein_2058 hypothetical protein -
  AB1X93_RS10535 (AB1X93_10555) - 2011402..2012630 (+) 1229 WP_088895425.1 IS3-like element IS2 family transposase -
  AB1X93_RS10540 (AB1X93_10560) - 2012615..2013931 (+) 1317 WP_005009600.1 IS4-like element IS4 family transposase -
  AB1X93_RS10545 (AB1X93_10565) ssb 2014032..2014568 (-) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  AB1X93_RS10550 (AB1X93_10570) uvrA 2014822..2017644 (+) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  AB1X93_RS10555 (AB1X93_10575) - 2017679..2018035 (-) 357 WP_000155650.1 MmcQ/YjbR family DNA-binding protein -
  AB1X93_RS10560 (AB1X93_10580) - 2018039..2018455 (-) 417 WP_073953114.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  AB1X93_RS10565 (AB1X93_10585) aphA 2018566..2019279 (-) 714 WP_001226928.1 acid phosphatase AphA -
  AB1X93_RS10570 (AB1X93_10590) - 2019681..2019903 (+) 223 Protein_2066 hypothetical protein -
  AB1X93_RS10580 (AB1X93_10600) - 2021157..2022541 (+) 1385 Protein_2068 SopA family protein -
  AB1X93_RS10585 (AB1X93_10605) - 2022808..2023934 (-) 1127 Protein_2069 IS110-like element ISSso6 family transposase -
  AB1X93_RS10590 (AB1X93_10610) - 2024049..2024255 (+) 207 Protein_2070 hypothetical protein -
  AB1X93_RS10595 (AB1X93_10615) ubiC 2024478..2024975 (+) 498 WP_001295693.1 chorismate lyase -
  AB1X93_RS10600 (AB1X93_10620) ubiA 2024988..2025860 (+) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  AB1X93_RS10605 (AB1X93_10625) plsB 2026015..2028438 (-) 2424 WP_004988121.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  AB1X93_RS10610 (AB1X93_10630) dgkA 2028609..2028977 (+) 369 WP_000002907.1 diacylglycerol kinase -
  AB1X93_RS10615 (AB1X93_10635) lexA 2029087..2029695 (+) 609 WP_000646078.1 transcriptional repressor LexA -
  AB1X93_RS10620 (AB1X93_10640) dinF 2029768..2031093 (+) 1326 WP_001308275.1 MATE family efflux transporter DinF -
  AB1X93_RS10625 (AB1X93_10645) - 2031209..2031418 (+) 210 WP_001030593.1 CsbD family protein -
  AB1X93_RS10630 (AB1X93_10650) zur 2031460..2031975 (-) 516 WP_004988057.1 zinc uptake transcriptional repressor Zur -
  AB1X93_RS10635 - 2032293..2032693 (+) 401 Protein_2079 DUF2713 family protein -
  AB1X93_RS10640 (AB1X93_10665) - 2032747..2033444 (+) 698 WP_226342157.1 IS1 family transposase -
  AB1X93_RS10645 (AB1X93_10670) - 2033461..2034054 (+) 594 Protein_2081 DUF2713 family protein -

Sequence

Protein


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

>NTDB_id=1023817 AB1X93_RS10545 WP_000168305.1 2014032..2014568(-) (ssb) [Shigella flexneri strain 600006]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=1023817 AB1X93_RS10545 WP_000168305.1 2014032..2014568(-) (ssb) [Shigella flexneri strain 600006]
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