Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   OBG40_RS17260 Genome accession   NZ_CP106857
Coordinates   3435913..3436449 (-) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella flexneri strain 2aT32     
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 3424323..3459873 3435913..3436449 within 0


Gene organization within MGE regions


Location: 3424323..3459873
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OBG40_RS17230 (OBG40_17230) - 3424323..3425144 (+) 822 WP_001272931.1 abortive infection system antitoxin AbiGi family protein -
  OBG40_RS17235 (OBG40_17235) avs4 3425682..3430445 (-) 4764 WP_054540921.1 AVAST type 4 anti-phage nuclease Avs4 -
  OBG40_RS17240 (OBG40_17240) - 3430520..3430939 (-) 420 WP_001062124.1 hypothetical protein -
  OBG40_RS17245 (OBG40_17245) - 3430932..3432965 (-) 2034 WP_000807724.1 hypothetical protein -
  OBG40_RS17250 (OBG40_17250) - 3432958..3434520 (-) 1563 WP_000989035.1 site-specific integrase -
  OBG40_RS17255 (OBG40_17255) - 3434507..3435754 (-) 1248 WP_000654660.1 site-specific integrase -
  OBG40_RS17260 (OBG40_17260) ssb 3435913..3436449 (-) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  OBG40_RS17265 (OBG40_17265) uvrA 3436703..3439525 (+) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  OBG40_RS17270 (OBG40_17270) - 3439560..3439916 (-) 357 WP_000155673.1 MmcQ/YjbR family DNA-binding protein -
  OBG40_RS17275 (OBG40_17275) - 3439920..3440336 (-) 417 WP_000270367.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  OBG40_RS17280 (OBG40_17280) aphA 3440447..3441160 (-) 714 WP_304533027.1 acid phosphatase AphA -
  OBG40_RS17285 (OBG40_17285) - 3441562..3441766 (+) 205 Protein_3371 hypothetical protein -
  OBG40_RS17290 (OBG40_17290) tyrB 3442269..3443462 (-) 1194 WP_000486978.1 aromatic amino acid transaminase -
  OBG40_RS17295 (OBG40_17295) alr 3443715..3444794 (-) 1080 WP_001147328.1 alanine racemase -
  OBG40_RS17300 (OBG40_17300) dnaB 3444847..3446262 (-) 1416 WP_000918363.1 replicative DNA helicase -
  OBG40_RS17305 (OBG40_17305) - 3446345..3447328 (+) 984 WP_000235501.1 quinone oxidoreductase -
  OBG40_RS17310 (OBG40_17310) pspG 3447494..3447736 (-) 243 WP_000891402.1 envelope stress response protein PspG -
  OBG40_RS17315 (OBG40_17315) dusA 3447870..3448907 (-) 1038 WP_005050598.1 tRNA dihydrouridine(20/20a) synthase DusA -
  OBG40_RS17320 (OBG40_17320) - 3449270..3450255 (-) 986 Protein_3378 DUF2713 domain-containing protein -
  OBG40_RS17330 (OBG40_17325) zur 3450573..3451088 (+) 516 WP_001295691.1 zinc uptake transcriptional repressor Zur -
  OBG40_RS17335 (OBG40_17330) - 3451130..3451339 (-) 210 WP_001030593.1 CsbD family protein -
  OBG40_RS17340 (OBG40_17335) dinF 3451455..3452780 (-) 1326 WP_001301116.1 MATE family efflux transporter DinF -
  OBG40_RS17345 (OBG40_17340) lexA 3452853..3453461 (-) 609 WP_000646078.1 transcriptional repressor LexA -
  OBG40_RS17350 (OBG40_17345) dgkA 3453571..3453939 (-) 369 WP_000002907.1 diacylglycerol kinase -
  OBG40_RS17355 (OBG40_17350) plsB 3454110..3456533 (+) 2424 WP_005050606.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  OBG40_RS17360 (OBG40_17355) ubiA 3456688..3457560 (-) 873 WP_000455241.1 4-hydroxybenzoate octaprenyltransferase -
  OBG40_RS17365 (OBG40_17360) ubiC 3457573..3458070 (-) 498 WP_001295693.1 chorismate lyase -
  OBG40_RS17370 (OBG40_17365) - 3458293..3459873 (-) 1581 Protein_3387 SopA family protein -

Sequence

Protein


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

>NTDB_id=736120 OBG40_RS17260 WP_000168305.1 3435913..3436449(-) (ssb) [Shigella flexneri strain 2aT32]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=736120 OBG40_RS17260 WP_000168305.1 3435913..3436449(-) (ssb) [Shigella flexneri strain 2aT32]
ATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGG
TGGCGCAGTTGCCAACATTACGCTGGCTACTTCCGAATCCTGGCGTGATAAAGCGACCGGCGAGATGAAAGAACAGACTG
AATGGCACCGCGTTGTGCTGTTCGGCAAACTGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATC
GAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGG
CGGCACCATGCAGATGCTGGGTGGTCGTCAGGGTGGTGGCGCTCCGGCAGGTGGCAATATCGGTGGTGGTCAGCCGCAGG
GCGGTTGGGGTCAGCCTCAGCAGCCGCAGGGTGGCAATCAGTTCAGCGGCGGCGCGCAGTCTCGCCCGCAGCAGTCCGCT
CCGGCAGCGCCGTCTAACGAGCCGCCGATGGACTTTGATGATGACATTCCGTTCTAG

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