Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   BZ172_RS12840 Genome accession   NZ_CP019689
Coordinates   2375267..2375803 (+) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella sonnei strain 75/02     
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 2349060..2380761 2375267..2375803 within 0


Gene organization within MGE regions


Location: 2349060..2380761
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BZ172_RS12700 (BZ172_13500) - 2349721..2350740 (-) 1020 WP_000878026.1 IS110-like element ISEc11 family transposase -
  BZ172_RS12705 (BZ172_13505) - 2350886..2351689 (+) 804 Protein_2269 SopA family protein -
  BZ172_RS12715 (BZ172_13515) - 2351956..2353083 (-) 1128 WP_001063816.1 IS110-like element ISSso6 family transposase -
  BZ172_RS12720 (BZ172_13520) - 2353210..2353404 (+) 195 Protein_2271 hypothetical protein -
  BZ172_RS12730 (BZ172_13530) ubiC 2353627..2354124 (+) 498 WP_005140732.1 chorismate lyase -
  BZ172_RS12735 (BZ172_13535) ubiA 2354137..2355009 (+) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  BZ172_RS12740 (BZ172_13540) plsB 2355164..2357587 (-) 2424 WP_005144184.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  BZ172_RS12745 (BZ172_13545) dgkA 2357758..2358126 (+) 369 WP_000002907.1 diacylglycerol kinase -
  BZ172_RS12750 (BZ172_13550) lexA 2358236..2358844 (+) 609 WP_000646078.1 transcriptional repressor LexA -
  BZ172_RS12755 (BZ172_13555) dinF 2358917..2360242 (+) 1326 WP_005144191.1 MATE family efflux transporter DinF -
  BZ172_RS12760 (BZ172_13560) - 2360358..2360567 (+) 210 WP_001030593.1 CsbD family protein -
  BZ172_RS12765 (BZ172_13565) zur 2360609..2361124 (-) 516 WP_001295691.1 zinc uptake transcriptional repressor Zur -
  BZ172_RS30360 (BZ172_13570) yjbL 2361442..2361696 (+) 255 WP_000912571.1 protein YjbL -
  BZ172_RS12775 (BZ172_13575) - 2361687..2362427 (+) 741 WP_001300042.1 DUF2713 family protein -
  BZ172_RS12780 (BZ172_13580) dusA 2362790..2363827 (+) 1038 WP_001298868.1 tRNA dihydrouridine(20/20a) synthase DusA -
  BZ172_RS12785 (BZ172_13585) pspG 2363961..2364203 (+) 243 WP_000891404.1 envelope stress response protein PspG -
  BZ172_RS12790 (BZ172_13590) - 2364369..2365352 (-) 984 WP_000235516.1 quinone oxidoreductase -
  BZ172_RS12795 (BZ172_13595) dnaB 2365435..2366850 (+) 1416 WP_000918363.1 replicative DNA helicase -
  BZ172_RS12800 (BZ172_13600) alr 2366903..2367982 (+) 1080 WP_001147324.1 alanine racemase -
  BZ172_RS12805 (BZ172_13605) tyrB 2368235..2369428 (+) 1194 WP_000486974.1 aromatic amino acid transaminase -
  BZ172_RS29225 - 2369932..2370154 (-) 223 Protein_2288 hypothetical protein -
  BZ172_RS12815 (BZ172_13615) aphA 2370556..2371269 (+) 714 WP_001226928.1 acid phosphatase AphA -
  BZ172_RS12820 (BZ172_13620) - 2371380..2371796 (+) 417 WP_000270372.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  BZ172_RS12825 (BZ172_13625) - 2371800..2372156 (+) 357 WP_000155657.1 MmcQ/YjbR family DNA-binding protein -
  BZ172_RS12830 (BZ172_13630) uvrA 2372191..2375013 (-) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  BZ172_RS12840 (BZ172_13640) ssb 2375267..2375803 (+) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  BZ172_RS12845 (BZ172_13645) - 2375902..2376182 (-) 281 Protein_2294 YjcB family protein -
  BZ172_RS12855 (BZ172_13655) pdeC 2376612..2378198 (+) 1587 WP_000019531.1 c-di-GMP phosphodiesterase PdeC -
  BZ172_RS12860 (BZ172_13660) soxS 2378201..2378524 (-) 324 WP_000019358.1 superoxide response transcriptional regulator SoxS -
  BZ172_RS12870 (BZ172_13675) - 2378706..2379403 (+) 698 WP_094096600.1 IS1-like element IS1A family transposase -
  BZ172_RS12875 (BZ172_13680) - 2379470..2380761 (+) 1292 Protein_2298 pentapeptide repeat-containing protein -

Sequence

Protein


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

>NTDB_id=217880 BZ172_RS12840 WP_000168305.1 2375267..2375803(+) (ssb) [Shigella sonnei strain 75/02]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=217880 BZ172_RS12840 WP_000168305.1 2375267..2375803(+) (ssb) [Shigella sonnei strain 75/02]
ATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGG
TGGCGCAGTTGCCAACATTACGCTGGCTACTTCCGAATCCTGGCGTGATAAAGCGACCGGCGAGATGAAAGAACAGACTG
AATGGCACCGCGTTGTGCTGTTCGGCAAACTGGCAGAAGTGGCCAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATC
GAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGG
CGGCACCATGCAGATGCTGGGTGGTCGTCAGGGTGGTGGCGCTCCGGCAGGTGGTAATATCGGTGGTGGTCAGCCGCAGG
GCGGTTGGGGGCAGCCTCAGCAGCCGCAGGGTGGCAATCAGTTCAGCGGCGGCGCGCAGTCTCGCCCGCAGCAGTCCGCT
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