Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   HAT89_RS17380 Genome accession   NZ_CP051458
Coordinates   3968415..3968966 (+) Length   183 a.a.
NCBI ID   WP_022634792.1    Uniprot ID   -
Organism   Dickeya solani strain IFB0231     
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 3968415..3992178 3968415..3968966 within 0


Gene organization within MGE regions


Location: 3968415..3992178
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HAT89_RS17380 (HAT89_03493) ssb 3968415..3968966 (+) 552 WP_022634792.1 single-stranded DNA-binding protein Machinery gene
  HAT89_RS17385 (HAT89_03495) - 3969251..3969436 (-) 186 WP_022634794.1 hypothetical protein -
  HAT89_RS17390 (HAT89_03496) - 3969615..3970103 (+) 489 WP_022634795.1 hypothetical protein -
  HAT89_RS17395 (HAT89_03497) - 3970366..3970938 (+) 573 WP_022634796.1 DUF4255 domain-containing protein -
  HAT89_RS17400 (HAT89_03498) - 3970944..3971741 (+) 798 WP_022634797.1 hypothetical protein -
  HAT89_RS17405 (HAT89_03499) - 3971886..3973439 (+) 1554 WP_022634798.1 phage tail sheath C-terminal domain-containing protein -
  HAT89_RS17410 (HAT89_03500) - 3973491..3973961 (+) 471 WP_022634799.1 phage tail protein -
  HAT89_RS17415 (HAT89_03501) - 3974048..3974506 (+) 459 WP_023637986.1 phage tail protein -
  HAT89_RS17420 (HAT89_03502) - 3974527..3974709 (+) 183 WP_022634801.1 hypothetical protein -
  HAT89_RS17425 (HAT89_03503) - 3974725..3975372 (+) 648 WP_022634802.1 hypothetical protein -
  HAT89_RS17430 (HAT89_03504) vgrG 3975384..3977174 (+) 1791 WP_022634803.1 type VI secretion system tip protein VgrG -
  HAT89_RS17435 (HAT89_03505) - 3977633..3977932 (+) 300 WP_022634804.1 PAAR domain-containing protein -
  HAT89_RS17440 (HAT89_03506) - 3977935..3978354 (+) 420 WP_022634805.1 GPW/gp25 family protein -
  HAT89_RS17445 (HAT89_03507) - 3978351..3982475 (+) 4125 WP_022634806.1 baseplate J/gp47 family protein -
  HAT89_RS17450 (HAT89_03508) - 3982594..3983421 (+) 828 WP_022634807.1 hypothetical protein -
  HAT89_RS17455 (HAT89_03509) - 3983424..3985898 (+) 2475 WP_022634808.1 transcriptional regulator -
  HAT89_RS17460 (HAT89_03510) - 3985895..3989644 (+) 3750 WP_022634809.1 contractile injection system tape measure protein -
  HAT89_RS17465 (HAT89_03511) - 3989704..3992178 (+) 2475 WP_023637987.1 hypothetical protein -

Sequence

Protein


Download         Length: 183 a.a.        Molecular weight: 19717.72 Da        Isoelectric Point: 4.9658

>NTDB_id=438329 HAT89_RS17380 WP_022634792.1 3968415..3968966(+) (ssb) [Dickeya solani strain IFB0231]
MASRGVNKVILIGNLGQDPEVRYMPNGGAVANLTLATSDSWRDKQTGEQKERTEWHRVALYGKLAEIAGEYLRKGSQVYI
EGQLRTRKWQDQGGQDRYTTEVVVDISGSMQMLGGRTGGGAPAGGGMGNNAGGNPQQGGWGQPQQPQQENQFSGGGQPQS
RPQQSAPMPGNEPPMDFDDDIPF

Nucleotide


Download         Length: 552 bp        

>NTDB_id=438329 HAT89_RS17380 WP_022634792.1 3968415..3968966(+) (ssb) [Dickeya solani strain IFB0231]
ATGGCCAGCAGAGGCGTTAATAAAGTGATTCTTATCGGGAATCTGGGTCAGGACCCGGAAGTCCGTTACATGCCGAACGG
CGGCGCAGTCGCTAACCTGACTCTGGCCACGTCGGACAGCTGGCGCGACAAGCAGACCGGCGAGCAGAAAGAACGCACCG
AGTGGCACCGCGTCGCGCTGTACGGCAAGCTGGCGGAAATCGCCGGTGAATACCTGCGCAAAGGCTCTCAGGTATATATC
GAAGGCCAGCTGCGCACCCGCAAATGGCAGGACCAGGGCGGCCAGGACCGCTACACCACCGAAGTGGTAGTCGATATCTC
CGGCAGCATGCAGATGCTGGGCGGCCGCACAGGCGGCGGCGCTCCGGCCGGTGGCGGCATGGGCAACAATGCGGGCGGCA
ATCCGCAGCAAGGCGGTTGGGGTCAGCCGCAACAGCCGCAGCAAGAGAACCAGTTCAGCGGCGGCGGTCAGCCCCAGTCC
CGTCCGCAGCAAAGCGCGCCGATGCCGGGCAACGAGCCGCCGATGGATTTTGATGACGATATTCCGTTCTGA

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

74.054

100

0.749
  ssb Glaesserella parasuis strain SC1401

54.645

100

0.546
  ssb Neisseria meningitidis MC58

45.503

100

0.47
  ssb Neisseria gonorrhoeae MS11

45.503

100

0.47