Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   IUJ51_RS17600 Genome accession   NZ_CP064376
Coordinates   3454436..3454972 (-) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella sonnei strain PartP-Ssonnei-RM8376     
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 3450074..3481648 3454436..3454972 within 0


Gene organization within MGE regions


Location: 3450074..3481648
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IUJ51_RS17585 (IUJ51_17465) soxS 3451715..3452038 (+) 324 WP_000019358.1 superoxide response transcriptional regulator SoxS -
  IUJ51_RS17590 (IUJ51_17470) pdeC 3452041..3453627 (-) 1587 WP_000019531.1 c-di-GMP phosphodiesterase PdeC -
  IUJ51_RS17595 (IUJ51_17475) - 3454057..3454337 (+) 281 Protein_3443 YjcB family protein -
  IUJ51_RS17600 (IUJ51_17480) ssb 3454436..3454972 (-) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  IUJ51_RS17605 (IUJ51_17485) uvrA 3455226..3458048 (+) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  IUJ51_RS17610 (IUJ51_17490) - 3458083..3458439 (-) 357 WP_000155657.1 MmcQ/YjbR family DNA-binding protein -
  IUJ51_RS17615 (IUJ51_17495) - 3458443..3458859 (-) 417 WP_000270372.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  IUJ51_RS17620 (IUJ51_17500) aphA 3458970..3459683 (-) 714 WP_001226928.1 acid phosphatase AphA -
  IUJ51_RS17625 (IUJ51_17505) - 3460085..3460325 (+) 241 Protein_3449 hypothetical protein -
  IUJ51_RS17630 (IUJ51_17510) tyrB 3460829..3462022 (-) 1194 WP_000486974.1 aromatic amino acid transaminase -
  IUJ51_RS17635 (IUJ51_17515) alr 3462275..3463354 (-) 1080 WP_001147324.1 alanine racemase -
  IUJ51_RS17640 (IUJ51_17520) dnaB 3463407..3464822 (-) 1416 WP_000918363.1 replicative DNA helicase -
  IUJ51_RS17645 (IUJ51_17525) - 3464905..3465888 (+) 984 WP_000235516.1 quinone oxidoreductase -
  IUJ51_RS17650 (IUJ51_17530) pspG 3466054..3466296 (-) 243 WP_000891404.1 envelope stress response protein PspG -
  IUJ51_RS17655 (IUJ51_17535) dusA 3466430..3467467 (-) 1038 WP_001298868.1 tRNA dihydrouridine(20/20a) synthase DusA -
  IUJ51_RS17660 (IUJ51_17540) - 3467830..3468570 (-) 741 WP_001300042.1 DUF2713 family protein -
  IUJ51_RS24805 yjbL 3468561..3468815 (-) 255 WP_000912571.1 protein YjbL -
  IUJ51_RS17665 (IUJ51_17545) zur 3469133..3469648 (+) 516 WP_001295691.1 zinc uptake transcriptional repressor Zur -
  IUJ51_RS17670 (IUJ51_17550) - 3469690..3469899 (-) 210 WP_001030593.1 CsbD family protein -
  IUJ51_RS17675 (IUJ51_17555) dinF 3470015..3471340 (-) 1326 WP_005144191.1 MATE family efflux transporter DinF -
  IUJ51_RS17680 (IUJ51_17560) lexA 3471413..3472021 (-) 609 WP_000646078.1 transcriptional repressor LexA -
  IUJ51_RS17685 (IUJ51_17565) dgkA 3472131..3472499 (-) 369 WP_000002907.1 diacylglycerol kinase -
  IUJ51_RS17690 (IUJ51_17570) plsB 3472670..3475093 (+) 2424 WP_005144184.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  IUJ51_RS17695 (IUJ51_17575) ubiA 3475248..3476120 (-) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  IUJ51_RS17700 (IUJ51_17580) ubiC 3476133..3476630 (-) 498 WP_005140732.1 chorismate lyase -
  IUJ51_RS17705 (IUJ51_17585) - 3476853..3477047 (-) 195 Protein_3466 hypothetical protein -
  IUJ51_RS17710 (IUJ51_17590) - 3477174..3478301 (+) 1128 WP_001063800.1 IS110-like element ISSso6 family transposase -
  IUJ51_RS17715 (IUJ51_17595) - 3478568..3479371 (-) 804 Protein_3468 SopA family protein -
  IUJ51_RS17720 (IUJ51_17600) - 3479517..3480536 (+) 1020 WP_000878026.1 IS110-like element ISEc11 family transposase -
  IUJ51_RS17725 (IUJ51_17605) - 3480811..3481394 (-) 584 Protein_3470 SopA family protein -

Sequence

Protein


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

>NTDB_id=501355 IUJ51_RS17600 WP_000168305.1 3454436..3454972(-) (ssb) [Shigella sonnei strain PartP-Ssonnei-RM8376]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=501355 IUJ51_RS17600 WP_000168305.1 3454436..3454972(-) (ssb) [Shigella sonnei strain PartP-Ssonnei-RM8376]
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