Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   PC1_RS17495 Genome accession   NC_012917
Coordinates   3957411..3957941 (+) Length   176 a.a.
NCBI ID   WP_015841649.1    Uniprot ID   -
Organism   Pectobacterium carotovorum subsp. carotovorum PC1     
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 3951806..3960688 3957411..3957941 within 0


Gene organization within MGE regions


Location: 3951806..3960688
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PC1_RS17475 (PC1_3507) - 3951806..3952210 (-) 405 WP_015841644.1 DUF1240 domain-containing protein -
  PC1_RS22040 (PC1_3508) - 3952257..3952661 (-) 405 WP_015841645.1 DUF1240 domain-containing protein -
  PC1_RS22045 (PC1_3509) - 3952654..3953514 (-) 861 WP_015841646.1 hypothetical protein -
  PC1_RS17485 (PC1_3510) - 3953896..3954315 (-) 420 WP_015841647.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  PC1_RS17490 (PC1_3511) uvrA 3954332..3957166 (-) 2835 WP_015841648.1 excinuclease ABC subunit UvrA -
  PC1_RS17495 (PC1_3512) ssb 3957411..3957941 (+) 531 WP_015841649.1 single-stranded DNA-binding protein SSB1 Machinery gene
  PC1_RS17500 (PC1_3513) - 3958191..3960017 (+) 1827 WP_015841650.1 amidohydrolase -
  PC1_RS17505 (PC1_3514) - 3960230..3960688 (+) 459 WP_015841651.1 GNAT family N-acetyltransferase -

Sequence

Protein


Download         Length: 176 a.a.        Molecular weight: 18780.75 Da        Isoelectric Point: 5.2252

>NTDB_id=34531 PC1_RS17495 WP_015841649.1 3957411..3957941(+) (ssb) [Pectobacterium carotovorum subsp. carotovorum PC1]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEQKEKTEWHRVVLFGKLAEVAGEYLHKGSQVYI
EGALQTRKWADQAGVERYTTEVVVNVGGTMQMLGGRQGGGAPAGGGQQQGGWGQPQQPQGGNQFSGGAQAQQRPAQNSAP
AQSNEPPMDFDDDIPF

Nucleotide


Download         Length: 531 bp        

>NTDB_id=34531 PC1_RS17495 WP_015841649.1 3957411..3957941(+) (ssb) [Pectobacterium carotovorum subsp. carotovorum PC1]
ATGGCCAGCAGAGGCGTTAATAAAGTGATTCTTGTCGGGAATCTGGGTCAAGACCCGGAAGTCCGCTATATGCCGAATGG
TGGTGCAGTTGCCAACATCACACTGGCAACTTCCGAATCCTGGCGTGATAAACAGACCGGCGAACAGAAAGAGAAGACCG
AGTGGCACCGCGTGGTGCTGTTCGGCAAACTGGCTGAAGTCGCGGGCGAATATCTGCACAAAGGCTCTCAGGTTTACATC
GAAGGCGCACTGCAAACCCGTAAATGGGCCGATCAGGCTGGCGTAGAGCGCTACACCACCGAAGTCGTCGTTAACGTCGG
CGGCACCATGCAGATGTTAGGCGGACGTCAGGGCGGCGGCGCACCAGCAGGTGGCGGCCAGCAGCAAGGCGGTTGGGGAC
AACCTCAGCAGCCACAGGGCGGCAACCAGTTCAGCGGCGGCGCACAAGCTCAGCAGCGCCCAGCCCAGAATAGCGCTCCA
GCGCAAAGCAACGAACCGCCAATGGATTTCGACGACGATATCCCGTTCTAA

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

72.193

100

0.767
  ssb Glaesserella parasuis strain SC1401

57.297

100

0.602
  ssb Neisseria meningitidis MC58

46.893

100

0.472
  ssb Neisseria gonorrhoeae MS11

46.893

100

0.472
  ssbA Bacillus subtilis subsp. subtilis str. 168

36.723

100

0.369

Multiple sequence alignment