Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   QRP18_RS13975 Genome accession   NZ_CP160382
Coordinates   3010930..3011460 (-) Length   176 a.a.
NCBI ID   WP_005466625.1    Uniprot ID   Q87LA3
Organism   Vibrio parahaemolyticus strain ST110-8     
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)
ICE 2997628..3010755 3010930..3011460 flank 175


Gene organization within MGE regions


Location: 2997628..3011460
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QRP18_RS13925 (QRP18_13925) - 2997628..2997837 (+) 210 WP_123015251.1 helix-turn-helix domain-containing protein -
  QRP18_RS13930 (QRP18_13930) - 2998174..2998518 (+) 345 WP_078558794.1 hypothetical protein -
  QRP18_RS13935 (QRP18_13935) - 2998520..3001018 (+) 2499 WP_078558793.1 Hsp70 family protein -
  QRP18_RS13940 (QRP18_13940) - 3001021..3002385 (+) 1365 WP_123017284.1 ATP-binding protein -
  QRP18_RS13945 (QRP18_13945) - 3002387..3004006 (+) 1620 WP_242534314.1 hypothetical protein -
  QRP18_RS13950 (QRP18_13950) - 3004017..3004880 (+) 864 WP_206926099.1 peptidoglycan-binding protein -
  QRP18_RS13955 (QRP18_13955) - 3005121..3005615 (-) 495 WP_206926100.1 hypothetical protein -
  QRP18_RS13960 (QRP18_13960) - 3005615..3007840 (-) 2226 WP_258469233.1 hypothetical protein -
  QRP18_RS13965 (QRP18_13965) - 3007833..3009440 (-) 1608 WP_206926102.1 site-specific integrase -
  QRP18_RS13970 (QRP18_13970) - 3009430..3010779 (-) 1350 WP_206926103.1 site-specific integrase -
  QRP18_RS13975 (QRP18_13975) ssb 3010930..3011460 (-) 531 WP_005466625.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 176 a.a.        Molecular weight: 19563.62 Da        Isoelectric Point: 4.9269

>NTDB_id=1020558 QRP18_RS13975 WP_005466625.1 3010930..3011460(-) (ssb) [Vibrio parahaemolyticus strain ST110-8]
MASRGINKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVVLFGKLAEVAGEYLRKGSQVYV
EGQLQTRKWQDQSGQDRYSTEVVVQGFNGVMQMLGGRAQGGAPAMGGQQQQQGGWGQPQQPAQQQYNAPQQQQQAPQQPQ
QQYNEPPMDFDDDIPF

Nucleotide


Download         Length: 531 bp        

>NTDB_id=1020558 QRP18_RS13975 WP_005466625.1 3010930..3011460(-) (ssb) [Vibrio parahaemolyticus strain ST110-8]
ATGGCCAGCCGTGGAATTAACAAAGTTATTTTGGTGGGGAATCTAGGTAACGACCCTGAAATTCGTTACATGCCTAATGG
CGGTGCGGTAGCAAACATCACGATTGCTACTTCTGAGTCATGGCGTGACAAAGCGACTGGCGAACAGCGCGAAAAAACAG
AATGGCACCGTGTTGTGTTGTTCGGTAAGTTGGCAGAAGTGGCTGGTGAGTACCTGCGTAAAGGTTCACAAGTTTACGTT
GAAGGCCAACTTCAAACTCGTAAATGGCAAGACCAAAGTGGCCAAGATCGCTACTCAACAGAAGTTGTGGTTCAAGGTTT
CAATGGCGTAATGCAAATGCTTGGTGGCCGTGCTCAAGGTGGCGCTCCTGCAATGGGCGGTCAACAACAGCAGCAAGGCG
GTTGGGGTCAACCTCAACAACCTGCTCAGCAGCAATACAATGCACCTCAACAGCAGCAACAGGCTCCGCAGCAACCACAA
CAGCAATACAACGAGCCACCAATGGATTTTGATGACGATATTCCGTTCTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(6-105)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q87LA3

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

81.006

100

0.824
  ssb Glaesserella parasuis strain SC1401

57.143

100

0.614
  ssb Neisseria meningitidis MC58

48.023

100

0.483
  ssb Neisseria gonorrhoeae MS11

48.023

100

0.483

Multiple sequence alignment