Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   SBO_RS22585 Genome accession   NC_007613
Coordinates   4131064..4131600 (+) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella boydii Sb227     
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 4112353..4135925 4131064..4131600 within 0
IScluster/Tn 4131701..4139519 4131064..4131600 flank 101


Gene organization within MGE regions


Location: 4112353..4139519
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SBO_RS22485 (SBO_4069) - 4112353..4113060 (-) 708 WP_011379331.1 DUF2713 family protein -
  SBO_RS31455 (SBO_4070) yjbL 4113084..4113338 (-) 255 WP_000912571.1 protein YjbL -
  SBO_RS22495 (SBO_4071) zur 4113656..4114171 (+) 516 WP_004988057.1 zinc uptake transcriptional repressor Zur -
  SBO_RS22500 (SBO_4072) - 4114213..4114422 (-) 210 WP_001030593.1 CsbD family protein -
  SBO_RS22505 (SBO_4073) dinF 4114538..4115863 (-) 1326 WP_001308275.1 MATE family efflux transporter DinF -
  SBO_RS22510 (SBO_4074) lexA 4115936..4116544 (-) 609 WP_000646078.1 transcriptional repressor LexA -
  SBO_RS22515 (SBO_4075) dgkA 4116654..4117022 (-) 369 WP_000002907.1 diacylglycerol kinase -
  SBO_RS22520 (SBO_4076) plsB 4117193..4119616 (+) 2424 WP_004988121.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  SBO_RS22525 (SBO_4077) ubiA 4119771..4120643 (-) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  SBO_RS22530 (SBO_4078) ubiC 4120656..4121153 (-) 498 WP_001295693.1 chorismate lyase -
  SBO_RS28460 - 4121376..4121570 (-) 195 Protein_4115 hypothetical protein -
  SBO_RS22535 (SBO_4079) - 4121697..4122824 (+) 1128 WP_001063816.1 IS110-like element ISSso6 family transposase -
  SBO_RS22540 (SBO_4080) - 4123091..4124475 (-) 1385 Protein_4117 SopA family protein -
  SBO_RS28470 (SBO_4082) - 4124675..4125372 (+) 698 WP_094106546.1 IS1 family transposase -
  SBO_RS30475 - 4125729..4125951 (-) 223 Protein_4119 hypothetical protein -
  SBO_RS22565 (SBO_4084) aphA 4126353..4127066 (+) 714 WP_001226928.1 acid phosphatase AphA -
  SBO_RS22570 (SBO_4085) - 4127177..4127593 (+) 417 WP_000270377.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  SBO_RS22575 (SBO_4086) - 4127597..4127953 (+) 357 WP_000155649.1 MmcQ/YjbR family DNA-binding protein -
  SBO_RS22580 (SBO_4087) uvrA 4127988..4130810 (-) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  SBO_RS22585 (SBO_4088) ssb 4131064..4131600 (+) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  SBO_RS22590 (SBO_4089) - 4131701..4133017 (-) 1317 WP_011379333.1 IS4-like element IS4 family transposase -
  SBO_RS22605 (SBO_4092) - 4134474..4134755 (-) 282 WP_001295689.1 YjcB family protein -
  SBO_RS22610 (SBO_4093) pdeC 4135185..4135919 (+) 735 Protein_4128 c-di-GMP phosphodiesterase PdeC -
  SBO_RS28485 (SBO_4095) - 4135976..4136673 (+) 698 WP_094106546.1 IS1 family transposase -
  SBO_RS22625 (SBO_4096) - 4136726..4138375 (+) 1650 WP_000402207.1 Na+/H+ antiporter -
  SBO_RS22630 - 4138529..4138762 (-) 234 Protein_4131 pentapeptide repeat-containing protein -
  SBO_RS22635 (SBO_4097) - 4138822..4139519 (+) 698 WP_226342171.1 IS1 family transposase -

Sequence

Protein


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

>NTDB_id=25106 SBO_RS22585 WP_000168305.1 4131064..4131600(+) (ssb) [Shigella boydii Sb227]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=25106 SBO_RS22585 WP_000168305.1 4131064..4131600(+) (ssb) [Shigella boydii Sb227]
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