Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   AB1X96_RS02180 Genome accession   NZ_CP162042
Coordinates   438106..438642 (+) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella flexneri strain 603020     
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 418620..443201 438106..438642 within 0
IScluster/Tn 438743..443715 438106..438642 flank 101


Gene organization within MGE regions


Location: 418620..443715
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB1X96_RS02075 (AB1X96_02070) - 418620..419213 (-) 594 Protein_386 DUF2713 family protein -
  AB1X96_RS02085 - 419984..420381 (-) 398 Protein_388 DUF2713 family protein -
  AB1X96_RS02090 (AB1X96_02095) zur 420699..421214 (+) 516 WP_004988057.1 zinc uptake transcriptional repressor Zur -
  AB1X96_RS02095 (AB1X96_02100) - 421256..421465 (-) 210 WP_001030593.1 CsbD family protein -
  AB1X96_RS02100 (AB1X96_02105) dinF 421581..422906 (-) 1326 WP_001308275.1 MATE family efflux transporter DinF -
  AB1X96_RS02105 (AB1X96_02110) lexA 422979..423587 (-) 609 WP_000646078.1 transcriptional repressor LexA -
  AB1X96_RS02110 (AB1X96_02115) dgkA 423697..424065 (-) 369 WP_000002907.1 diacylglycerol kinase -
  AB1X96_RS02115 (AB1X96_02120) plsB 424236..426659 (+) 2424 WP_004988121.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  AB1X96_RS02120 (AB1X96_02125) ubiA 426814..427686 (-) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  AB1X96_RS02125 (AB1X96_02130) ubiC 427699..428196 (-) 498 WP_001295693.1 chorismate lyase -
  AB1X96_RS02130 (AB1X96_02135) - 428419..428625 (-) 207 Protein_397 hypothetical protein -
  AB1X96_RS02135 (AB1X96_02140) - 428740..429866 (+) 1127 Protein_398 IS110-like element ISSso6 family transposase -
  AB1X96_RS02140 (AB1X96_02145) - 430133..431517 (-) 1385 Protein_399 SopA family protein -
  AB1X96_RS02145 (AB1X96_02150) - 431651..431818 (-) 168 WP_005114265.1 hypothetical protein -
  AB1X96_RS02150 (AB1X96_02155) - 431765..432414 (+) 650 WP_152065544.1 IS1 family transposase -
  AB1X96_RS02155 (AB1X96_02160) - 432771..432993 (-) 223 Protein_402 hypothetical protein -
  AB1X96_RS02160 (AB1X96_02165) aphA 433395..434108 (+) 714 WP_001226928.1 acid phosphatase AphA -
  AB1X96_RS02165 (AB1X96_02170) - 434219..434635 (+) 417 WP_073953114.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  AB1X96_RS02170 (AB1X96_02175) - 434639..434995 (+) 357 WP_000155650.1 MmcQ/YjbR family DNA-binding protein -
  AB1X96_RS02175 (AB1X96_02180) uvrA 435030..437852 (-) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  AB1X96_RS02180 (AB1X96_02185) ssb 438106..438642 (+) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  AB1X96_RS02185 (AB1X96_02190) - 438743..440059 (-) 1317 WP_005009600.1 IS4-like element IS4 family transposase -
  AB1X96_RS02195 - 441351..441425 (-) 75 Protein_410 hypothetical protein -
  AB1X96_RS02200 (AB1X96_02200) - 441516..441797 (-) 282 WP_001295689.1 YjcB family protein -
  AB1X96_RS02205 (AB1X96_02205) - 442227..442967 (+) 741 WP_000019560.1 CSS-motif domain-containing protein -
  AB1X96_RS02210 - 442949..443119 (-) 171 WP_005114280.1 hypothetical protein -
  AB1X96_RS02215 (AB1X96_02210) - 443066..443715 (+) 650 WP_152065544.1 IS1 family transposase -

Sequence

Protein


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

>NTDB_id=1023776 AB1X96_RS02180 WP_000168305.1 438106..438642(+) (ssb) [Shigella flexneri strain 603020]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=1023776 AB1X96_RS02180 WP_000168305.1 438106..438642(+) (ssb) [Shigella flexneri strain 603020]
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