Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   SPM55_RS16260 Genome accession   NZ_CP139429
Coordinates   3504905..3505405 (+) Length   166 a.a.
NCBI ID   WP_342135170.1    Uniprot ID   -
Organism   Providencia rettgeri strain P50213     
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)
Prophage 3500062..3514570 3504905..3505405 within 0
IScluster/Tn 3502877..3504045 3504905..3505405 flank 860


Gene organization within MGE regions


Location: 3500062..3514570
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SPM55_RS16240 (SPM55_16240) queF 3500062..3500907 (+) 846 WP_117162520.1 NADPH-dependent 7-cyano-7-deazaguanine reductase QueF -
  SPM55_RS16245 (SPM55_16245) - 3501248..3502762 (-) 1515 WP_342135169.1 hypothetical protein -
  SPM55_RS16255 (SPM55_16255) - 3504293..3504904 (+) 612 WP_166686742.1 ERF family protein -
  SPM55_RS16260 (SPM55_16260) ssb 3504905..3505405 (+) 501 WP_342135170.1 single-stranded DNA-binding protein Machinery gene
  SPM55_RS16265 (SPM55_16265) - 3506072..3506353 (+) 282 WP_217008184.1 hypothetical protein -
  SPM55_RS16270 (SPM55_16270) - 3506353..3506553 (+) 201 WP_096864895.1 hypothetical protein -
  SPM55_RS16275 (SPM55_16275) - 3506553..3506900 (+) 348 WP_272688514.1 hypothetical protein -
  SPM55_RS16280 (SPM55_16280) - 3507051..3507458 (+) 408 WP_272578882.1 hypothetical protein -
  SPM55_RS16285 (SPM55_16285) - 3507611..3507937 (+) 327 WP_272578883.1 phage protein NinX family protein -
  SPM55_RS16290 (SPM55_16290) - 3507927..3508472 (+) 546 WP_342135171.1 phage N-6-adenine-methyltransferase -
  SPM55_RS16295 (SPM55_16295) - 3508570..3508827 (+) 258 WP_342135172.1 excisionase -
  SPM55_RS16300 (SPM55_16300) - 3508784..3509848 (+) 1065 WP_342135173.1 tyrosine-type recombinase/integrase -
  SPM55_RS16305 (SPM55_16305) ppnN 3509914..3511281 (+) 1368 WP_123382299.1 nucleotide 5'-monophosphate nucleosidase PpnN -
  SPM55_RS16310 (SPM55_16310) xni 3511300..3512055 (+) 756 WP_109911795.1 flap endonuclease Xni -
  SPM55_RS16315 (SPM55_16315) rlmM 3512110..3513213 (-) 1104 WP_004908722.1 23S rRNA (cytidine(2498)-2'-O)-methyltransferase RlmM -
  SPM55_RS16320 (SPM55_16320) - 3513206..3513601 (-) 396 WP_004908716.1 DUF423 domain-containing protein -
  SPM55_RS16325 (SPM55_16325) - 3513629..3514570 (-) 942 WP_004908711.1 transcriptional regulator GcvA -

Sequence

Protein


Download         Length: 166 a.a.        Molecular weight: 18288.54 Da        Isoelectric Point: 6.7207

>NTDB_id=909680 SPM55_RS16260 WP_342135170.1 3504905..3505405(+) (ssb) [Providencia rettgeri strain P50213]
MASKGVNKVILIGHLGQDPEIRYMPAGGAVANLTLATSESWRDKQSGEMREKTEWHRVCIFGKLAEVAGEYLRKGSQVYI
EGSLQTRKWQDQSGQDRYTTEVVVNIGGSMQMLGGNGGNNQAGSQQPTRQPQQSQAPQNEPPMDFSDDIPFAPIGLPYPR
HAIYVI

Nucleotide


Download         Length: 501 bp        

>NTDB_id=909680 SPM55_RS16260 WP_342135170.1 3504905..3505405(+) (ssb) [Providencia rettgeri strain P50213]
ATGGCTAGTAAAGGCGTAAACAAGGTAATTCTCATTGGTCACTTAGGGCAAGACCCTGAAATTCGATACATGCCAGCAGG
TGGCGCAGTAGCAAATCTCACACTAGCCACATCGGAATCGTGGCGTGATAAGCAATCAGGAGAAATGCGCGAGAAAACAG
AGTGGCATCGAGTGTGCATCTTCGGCAAGTTAGCTGAAGTTGCAGGTGAATACCTGAGGAAAGGCTCACAAGTCTATATC
GAAGGTTCCTTGCAAACGCGTAAATGGCAAGACCAAAGCGGTCAAGACCGATACACAACAGAAGTAGTGGTAAATATCGG
CGGCTCTATGCAAATGCTAGGCGGTAACGGTGGCAATAATCAGGCAGGAAGCCAGCAACCAACGCGACAACCTCAGCAGT
CACAAGCGCCGCAGAATGAGCCGCCTATGGACTTCTCGGATGATATCCCATTCGCTCCTATCGGGCTCCCCTACCCACGC
CACGCTATTTATGTGATTTAA

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

68.927

100

0.735
  ssb Glaesserella parasuis strain SC1401

52.486

100

0.572
  ssb Neisseria meningitidis MC58

41.477

100

0.44
  ssb Neisseria gonorrhoeae MS11

41.477

100

0.44