Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   BA893_RS16165 Genome accession   NZ_CP016350
Coordinates   10600..11121 (+) Length   173 a.a.
NCBI ID   WP_065300504.1    Uniprot ID   -
Organism   Vibrio natriegens strain CCUG 16373     
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 1870..13498 10600..11121 within 0


Gene organization within MGE regions


Location: 1870..13498
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BA893_RS16085 (BA893_16085) - 1870..2844 (-) 975 WP_065300489.1 DUF968 domain-containing protein -
  BA893_RS16090 (BA893_16090) - 2837..3148 (-) 312 WP_065300490.1 hypothetical protein -
  BA893_RS16095 (BA893_16095) - 3145..3804 (-) 660 WP_231113090.1 phage antirepressor KilAC domain-containing protein -
  BA893_RS25400 - 3831..4043 (-) 213 WP_081280109.1 hypothetical protein -
  BA893_RS16100 (BA893_16100) - 4054..5010 (-) 957 WP_065300492.1 helix-turn-helix domain-containing protein -
  BA893_RS16105 (BA893_16105) - 5010..5264 (-) 255 WP_155760033.1 hypothetical protein -
  BA893_RS16110 (BA893_16110) - 5254..5454 (-) 201 WP_065300494.1 hypothetical protein -
  BA893_RS16115 (BA893_16115) - 5615..5884 (-) 270 WP_065300495.1 hypothetical protein -
  BA893_RS16120 (BA893_16120) - 5881..6333 (-) 453 WP_065300496.1 YmfL family putative regulatory protein -
  BA893_RS16125 (BA893_16125) - 6323..6589 (-) 267 WP_065300497.1 helix-turn-helix transcriptional regulator -
  BA893_RS16130 (BA893_16130) - 6698..7363 (+) 666 WP_065301586.1 LexA family protein -
  BA893_RS16135 (BA893_16135) - 7376..7999 (+) 624 WP_155760034.1 hypothetical protein -
  BA893_RS16140 (BA893_16140) - 8146..8541 (+) 396 WP_065300499.1 hypothetical protein -
  BA893_RS16145 (BA893_16145) - 8581..9399 (+) 819 WP_065300500.1 DUF2303 family protein -
  BA893_RS16150 (BA893_16150) - 9449..9661 (+) 213 WP_065300501.1 hypothetical protein -
  BA893_RS16155 (BA893_16155) - 9671..10255 (+) 585 WP_065300502.1 3'-5' exonuclease -
  BA893_RS16160 (BA893_16160) - 10337..10600 (+) 264 WP_065300503.1 hypothetical protein -
  BA893_RS16165 (BA893_16165) ssb 10600..11121 (+) 522 WP_065300504.1 single-stranded DNA-binding protein Machinery gene
  BA893_RS16170 (BA893_16170) - 11195..11380 (+) 186 WP_065300505.1 hypothetical protein -
  BA893_RS16175 (BA893_16175) - 11359..12576 (+) 1218 WP_065300506.1 tyrosine-type recombinase/integrase -
  BA893_RS16180 (BA893_16180) - 12626..13498 (-) 873 WP_065300507.1 hypothetical protein -

Sequence

Protein


Download         Length: 173 a.a.        Molecular weight: 19451.74 Da        Isoelectric Point: 5.7498

>NTDB_id=187235 BA893_RS16165 WP_065300504.1 10600..11121(+) (ssb) [Vibrio natriegens strain CCUG 16373]
MASRGINKVILVGNLGNDPDVRYMPNGTAVANITLATSDSWRDKATGQQREKTEWHRVVLFGKLAEVAGEYLQKGSQVYI
EGQLQTRKWQNQNGQDQYTTEVVVQGFNGVMQMLGGKRDQSWGQPKQPQQQAPKYPTNNEPNNSQYNEPPMDFDDDIPFA
PIGLQYPALLHCI

Nucleotide


Download         Length: 522 bp        

>NTDB_id=187235 BA893_RS16165 WP_065300504.1 10600..11121(+) (ssb) [Vibrio natriegens strain CCUG 16373]
ATGGCTAGCCGTGGAATTAACAAAGTTATCCTGGTTGGAAACTTAGGCAACGATCCTGACGTTCGCTATATGCCTAACGG
TACTGCAGTCGCGAACATCACTTTGGCCACCAGCGATTCTTGGCGTGATAAAGCGACAGGCCAACAACGCGAGAAGACCG
AATGGCACAGAGTCGTTTTGTTTGGAAAGTTAGCTGAAGTAGCCGGTGAATATCTACAGAAAGGTTCTCAAGTTTATATT
GAGGGCCAACTGCAAACGCGCAAATGGCAAAACCAAAATGGTCAGGATCAATATACAACGGAAGTTGTCGTCCAAGGCTT
TAATGGTGTGATGCAAATGCTAGGAGGTAAGCGCGATCAAAGTTGGGGACAACCTAAGCAGCCTCAACAACAAGCACCTA
AGTACCCAACCAATAATGAGCCAAACAACAGCCAATATAATGAGCCACCAATGGATTTTGACGACGATATACCGTTCGCG
CCCATTGGCTTGCAGTATCCGGCGTTGCTTCACTGTATCTAG

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

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

68.362

100

0.699
  ssb Glaesserella parasuis strain SC1401

53.552

100

0.566
  ssb Neisseria meningitidis MC58

41.573

100

0.428
  ssb Neisseria gonorrhoeae MS11

41.243

100

0.422

Multiple sequence alignment