Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   V8Z64_RS03775 Genome accession   NZ_CP146298
Coordinates   640857..641393 (+) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella sonnei strain R16.0823     
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 614650..646351 640857..641393 within 0


Gene organization within MGE regions


Location: 614650..646351
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  V8Z64_RS03655 (V8Z64_03685) - 615311..616330 (-) 1020 WP_000878026.1 IS110-like element ISEc11 family transposase -
  V8Z64_RS03660 (V8Z64_03690) - 616476..617279 (+) 804 Protein_562 SopA family protein -
  V8Z64_RS03665 (V8Z64_03695) - 617546..618673 (-) 1128 WP_001063816.1 IS110-like element ISSso6 family transposase -
  V8Z64_RS03670 (V8Z64_03700) - 618788..618994 (+) 207 Protein_564 hypothetical protein -
  V8Z64_RS03675 (V8Z64_03705) ubiC 619217..619714 (+) 498 WP_005140732.1 chorismate lyase -
  V8Z64_RS03680 (V8Z64_03710) ubiA 619727..620599 (+) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  V8Z64_RS03685 (V8Z64_03715) plsB 620754..623177 (-) 2424 WP_005144184.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  V8Z64_RS03690 (V8Z64_03720) dgkA 623348..623716 (+) 369 WP_000002907.1 diacylglycerol kinase -
  V8Z64_RS03695 (V8Z64_03725) lexA 623826..624434 (+) 609 WP_000646078.1 transcriptional repressor LexA -
  V8Z64_RS03700 (V8Z64_03730) dinF 624507..625832 (+) 1326 WP_005144191.1 MATE family efflux transporter DinF -
  V8Z64_RS03705 (V8Z64_03735) - 625948..626157 (+) 210 WP_001030593.1 CsbD family protein -
  V8Z64_RS03710 (V8Z64_03740) zur 626199..626714 (-) 516 WP_001295691.1 zinc uptake transcriptional repressor Zur -
  V8Z64_RS03715 (V8Z64_03750) - 627032..628017 (+) 986 Protein_573 DUF2713 domain-containing protein -
  V8Z64_RS03720 (V8Z64_03755) dusA 628380..629417 (+) 1038 WP_001298868.1 tRNA dihydrouridine(20/20a) synthase DusA -
  V8Z64_RS03725 (V8Z64_03760) pspG 629551..629793 (+) 243 WP_000891404.1 envelope stress response protein PspG -
  V8Z64_RS03730 (V8Z64_03765) - 629959..630942 (-) 984 WP_000235516.1 quinone oxidoreductase -
  V8Z64_RS03735 (V8Z64_03770) dnaB 631025..632440 (+) 1416 WP_000918363.1 replicative DNA helicase -
  V8Z64_RS03740 (V8Z64_03775) alr 632493..633572 (+) 1080 WP_001147324.1 alanine racemase -
  V8Z64_RS03745 (V8Z64_03780) tyrB 633825..635018 (+) 1194 WP_000486974.1 aromatic amino acid transaminase -
  V8Z64_RS03750 (V8Z64_03785) - 635522..635744 (-) 223 Protein_580 hypothetical protein -
  V8Z64_RS03755 (V8Z64_03790) aphA 636146..636859 (+) 714 WP_001226928.1 acid phosphatase AphA -
  V8Z64_RS03760 (V8Z64_03795) - 636970..637386 (+) 417 WP_000270372.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  V8Z64_RS03765 (V8Z64_03800) - 637390..637746 (+) 357 WP_000155657.1 MmcQ/YjbR family DNA-binding protein -
  V8Z64_RS03770 (V8Z64_03805) uvrA 637781..640603 (-) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  V8Z64_RS03775 (V8Z64_03810) ssb 640857..641393 (+) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  V8Z64_RS03780 (V8Z64_03815) - 641492..641772 (-) 281 Protein_586 YjcB family protein -
  V8Z64_RS03785 (V8Z64_03820) pdeC 642202..643788 (+) 1587 WP_000019531.1 c-di-GMP phosphodiesterase PdeC -
  V8Z64_RS03790 (V8Z64_03825) soxS 643791..644114 (-) 324 WP_000019358.1 superoxide response transcriptional regulator SoxS -
  V8Z64_RS03795 (V8Z64_03830) - 644296..644993 (+) 698 WP_094096600.1 IS1-like element IS1A family transposase -
  V8Z64_RS03800 (V8Z64_03835) - 645060..646351 (+) 1292 Protein_590 pentapeptide repeat-containing protein -

Sequence

Protein


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

>NTDB_id=942594 V8Z64_RS03775 WP_000168305.1 640857..641393(+) (ssb) [Shigella sonnei strain R16.0823]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=942594 V8Z64_RS03775 WP_000168305.1 640857..641393(+) (ssb) [Shigella sonnei strain R16.0823]
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