Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   C1P58_RS14540 Genome accession   NZ_CP026766
Coordinates   2824963..2825499 (+) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella boydii strain 59-248     
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 2806983..2835313 2824963..2825499 within 0
IScluster/Tn 2825600..2829236 2824963..2825499 flank 101


Gene organization within MGE regions


Location: 2806983..2835313
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C1P58_RS27125 yjbL 2806983..2807237 (-) 255 WP_000912571.1 protein YjbL -
  C1P58_RS14445 zur 2807555..2808070 (+) 516 WP_004988057.1 zinc uptake transcriptional repressor Zur -
  C1P58_RS14450 - 2808112..2808321 (-) 210 WP_001030593.1 CsbD family protein -
  C1P58_RS14455 dinF 2808437..2809762 (-) 1326 WP_001308275.1 MATE family efflux transporter DinF -
  C1P58_RS14460 lexA 2809835..2810443 (-) 609 WP_000646078.1 transcriptional repressor LexA -
  C1P58_RS14465 dgkA 2810553..2810921 (-) 369 WP_073691844.1 diacylglycerol kinase -
  C1P58_RS14470 plsB 2811092..2813515 (+) 2424 WP_004988121.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  C1P58_RS14475 ubiA 2813670..2814542 (-) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  C1P58_RS14480 ubiC 2814555..2815052 (-) 498 WP_001295693.1 chorismate lyase -
  C1P58_RS14485 - 2815275..2815469 (-) 195 Protein_2793 hypothetical protein -
  C1P58_RS14490 - 2815596..2816723 (+) 1128 WP_001063816.1 IS110-like element ISSso6 family transposase -
  C1P58_RS14500 - 2816990..2818374 (-) 1385 Protein_2795 SopA family protein -
  C1P58_RS14510 - 2818574..2819271 (+) 698 WP_094106546.1 IS1 family transposase -
  C1P58_RS14515 - 2819628..2819850 (-) 223 Protein_2797 hypothetical protein -
  C1P58_RS14520 aphA 2820252..2820965 (+) 714 WP_001226928.1 acid phosphatase AphA -
  C1P58_RS14525 - 2821076..2821492 (+) 417 WP_000270377.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  C1P58_RS14530 - 2821496..2821852 (+) 357 WP_000155649.1 MmcQ/YjbR family DNA-binding protein -
  C1P58_RS14535 uvrA 2821887..2824709 (-) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  C1P58_RS14540 ssb 2824963..2825499 (+) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  C1P58_RS14545 - 2825600..2826946 (-) 1347 WP_000483770.1 IS4-like element IS4 family transposase -
  C1P58_RS14550 - 2827037..2827318 (-) 282 WP_001295689.1 YjcB family protein -
  C1P58_RS14555 pdeC 2827748..2828482 (+) 735 Protein_2805 c-di-GMP phosphodiesterase PdeC -
  C1P58_RS14560 - 2828539..2829236 (+) 698 WP_242490311.1 IS1 family transposase -
  C1P58_RS14565 pdeC 2829245..2830111 (+) 867 Protein_2807 c-di-GMP phosphodiesterase PdeC -
  C1P58_RS14570 soxS 2830114..2830437 (-) 324 WP_000019358.1 superoxide response transcriptional regulator SoxS -
  C1P58_RS14575 soxR 2830523..2830987 (+) 465 WP_000412434.1 redox-sensitive transcriptional activator SoxR -
  C1P58_RS14580 ghxP 2831533..2832882 (+) 1350 WP_000106889.1 guanine/hypoxanthine transporter GhxP -
  C1P58_RS14585 - 2833034..2834683 (+) 1650 WP_000402207.1 Na+/H+ antiporter -
  C1P58_RS14590 - 2834837..2835070 (-) 234 Protein_2812 pentapeptide repeat-containing protein -

Sequence

Protein


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

>NTDB_id=272360 C1P58_RS14540 WP_000168305.1 2824963..2825499(+) (ssb) [Shigella boydii strain 59-248]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=272360 C1P58_RS14540 WP_000168305.1 2824963..2825499(+) (ssb) [Shigella boydii strain 59-248]
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