Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   IQ281_RS01980 Genome accession   NZ_CP063773
Coordinates   418929..419459 (+) Length   176 a.a.
NCBI ID   WP_180778595.1    Uniprot ID   -
Organism   Pectobacterium carotovorum subsp. carotovorum PCCS1     
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 412411..420573 418929..419459 within 0


Gene organization within MGE regions


Location: 412411..420573
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IQ281_RS01945 - 412411..412812 (-) 402 WP_194431049.1 DUF1240 domain-containing protein -
  IQ281_RS01950 - 412871..413275 (-) 405 WP_194431050.1 DUF1240 domain-containing protein -
  IQ281_RS01955 - 413322..413726 (-) 405 WP_194431051.1 DUF1240 domain-containing protein -
  IQ281_RS01960 - 413770..414174 (-) 405 WP_181847154.1 DUF1240 domain-containing protein -
  IQ281_RS01965 - 414167..415024 (-) 858 WP_194431052.1 hypothetical protein -
  IQ281_RS01970 - 415406..415825 (-) 420 WP_194431053.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  IQ281_RS01975 uvrA 415842..418676 (-) 2835 WP_194431054.1 excinuclease ABC subunit UvrA -
  IQ281_RS01980 ssb 418929..419459 (+) 531 WP_180778595.1 single-stranded DNA-binding protein SSB1 Machinery gene
  IQ281_RS01985 - 419708..419926 (+) 219 WP_228483946.1 hypothetical protein -
  IQ281_RS01990 - 420115..420573 (+) 459 WP_015841651.1 GNAT family N-acetyltransferase -

Sequence

Protein


Download         Length: 176 a.a.        Molecular weight: 18799.79 Da        Isoelectric Point: 5.2456

>NTDB_id=496714 IQ281_RS01980 WP_180778595.1 418929..419459(+) (ssb) [Pectobacterium carotovorum subsp. carotovorum PCCS1]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEQKEKTEWHRVVLFGKLAEVAGEYLRKGSQVYI
EGALQTRKWADQAGVERYTTEVVVNVGGTMQMLGGRQGGGAPAGGGQQQGGWGQPQQPQGGNQFSGGAQAQQRPAQNSAP
AQSNEPPMDFDDDIPF

Nucleotide


Download         Length: 531 bp        

>NTDB_id=496714 IQ281_RS01980 WP_180778595.1 418929..419459(+) (ssb) [Pectobacterium carotovorum subsp. carotovorum PCCS1]
ATGGCCAGCAGAGGCGTTAATAAAGTGATTCTTGTCGGGAATCTGGGTCAAGACCCGGAAGTCCGCTATATGCCGAATGG
TGGTGCAGTTGCCAACATCACACTGGCAACTTCCGAATCCTGGCGTGATAAACAGACCGGCGAACAGAAAGAGAAGACCG
AGTGGCACCGTGTGGTACTGTTCGGCAAACTGGCTGAAGTCGCGGGCGAATATCTGCGCAAAGGCTCTCAGGTTTACATC
GAAGGCGCACTGCAAACCCGTAAATGGGCCGATCAGGCTGGCGTAGAGCGCTACACCACCGAAGTCGTCGTTAACGTCGG
CGGCACCATGCAGATGTTAGGTGGACGTCAGGGCGGCGGCGCACCAGCAGGTGGCGGCCAGCAGCAAGGCGGTTGGGGAC
AACCTCAGCAGCCACAGGGCGGCAACCAGTTCAGCGGCGGCGCACAAGCTCAGCAGCGCCCGGCACAGAACAGTGCTCCA
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

72.727

100

0.773
  ssb Glaesserella parasuis strain SC1401

57.838

100

0.608
  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