Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   SBBS512_RS25300 Genome accession   NC_010658
Coordinates   4272497..4273012 (+) Length   171 a.a.
NCBI ID   WP_000168307.1    Uniprot ID   -
Organism   Shigella boydii CDC 3083-94     
Function   ssDNA binding (predicted from homology)   
DNA processing

Genomic Context

Location: 4267497..4278012
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SBBS512_RS25280 (SbBS512_E4569) aphA 4267786..4268499 (+) 714 WP_001317548.1 acid phosphatase AphA -
  SBBS512_RS25285 (SbBS512_E4570) - 4268610..4269026 (+) 417 WP_000270377.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  SBBS512_RS25290 (SbBS512_E4571) - 4269030..4269386 (+) 357 WP_000155657.1 MmcQ/YjbR family DNA-binding protein -
  SBBS512_RS25295 (SbBS512_E4572) uvrA 4269421..4272243 (-) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  SBBS512_RS25300 (SbBS512_E4573) ssb 4272497..4273012 (+) 516 WP_000168307.1 single-stranded DNA-binding protein SSB1 Machinery gene
  SBBS512_RS25305 (SbBS512_E4574) - 4273111..4273392 (-) 282 WP_001295689.1 YjcB family protein -
  SBBS512_RS25310 (SbBS512_E4576) pdeC 4273822..4274556 (+) 735 Protein_4348 c-di-GMP phosphodiesterase PdeC -
  SBBS512_RS25320 - 4274613..4275311 (+) 699 Protein_4349 IS1 family transposase -
  SBBS512_RS25325 (SbBS512_E4579) pdeC 4275320..4276186 (+) 867 Protein_4350 c-di-GMP phosphodiesterase PdeC -
  SBBS512_RS25330 (SbBS512_E4580) soxS 4276189..4276512 (-) 324 WP_000019358.1 superoxide response transcriptional regulator SoxS -
  SBBS512_RS25335 (SbBS512_E4581) soxR 4276598..4277062 (+) 465 WP_000412428.1 redox-sensitive transcriptional activator SoxR -

Sequence

Protein


Download         Length: 171 a.a.        Molecular weight: 18264.25 Da        Isoelectric Point: 5.2358

>NTDB_id=30852 SBBS512_RS25300 WP_000168307.1 4272497..4273012(+) (ssb) [Shigella boydii CDC 3083-94]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQQPQGGNQFSGGAQSRPQQSAPAAPSNE
PPMDFDDDIPF

Nucleotide


Download         Length: 516 bp        

>NTDB_id=30852 SBBS512_RS25300 WP_000168307.1 4272497..4273012(+) (ssb) [Shigella boydii CDC 3083-94]
ATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGG
TGGCGCAGTTGCCAACATTACGCTGGCTACTTCCGAATCCTGGCGTGATAAAGCGACCGGCGAGATGAAAGAACAGACTG
AATGGCACCGCGTTGTGCTGTTCGGCAAACTGGCAGAAGTGGCCAGCGAGTATCTGCGTAAAGGTTCTCAGGTTTATATC
GAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGG
CGGCACCATGCAGATGCTGGGTGGTCGTCAGGGTGGTGGCGCTCCGGCAGGTGGTAATATCGGTGGTGGTCAGCCTCAGC
AGCCGCAGGGTGGCAATCAGTTCAGCGGCGGCGCGCAGTCTCGCCCGCAGCAGTCCGCTCCGGCAGCGCCGTCTAACGAG
CCGCCGATGGACTTTGATGATGACATTCCGTTCTGA

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

73.481

100

0.778
  ssb Glaesserella parasuis strain SC1401

58.242

100

0.62
  ssb Neisseria meningitidis MC58

48.588

100

0.503
  ssb Neisseria gonorrhoeae MS11

48.588

100

0.503
  ssbA Bacillus subtilis subsp. subtilis str. 168

35.556

100

0.374

Multiple sequence alignment