Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   C1N51_RS08950 Genome accession   NZ_CP026315
Coordinates   1864125..1864661 (+) Length   178 a.a.
NCBI ID   WP_005432828.1    Uniprot ID   A0A812GP34
Organism   Vibrio campbellii strain BoB-90     
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 1864836..1898048 1864125..1864661 flank 175


Gene organization within MGE regions


Location: 1864125..1898048
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C1N51_RS08950 (C1N51_08950) ssb 1864125..1864661 (+) 537 WP_005432828.1 single-stranded DNA-binding protein Machinery gene
  C1N51_RS08955 (C1N51_08955) - 1864836..1866161 (+) 1326 WP_103410488.1 tyrosine-type recombinase/integrase -
  C1N51_RS08960 (C1N51_08960) - 1866173..1867726 (+) 1554 WP_103410489.1 site-specific integrase -
  C1N51_RS08965 (C1N51_08965) - 1867719..1870100 (+) 2382 WP_103410490.1 integrase -
  C1N51_RS08970 (C1N51_08970) - 1870106..1870522 (+) 417 WP_103410491.1 hypothetical protein -
  C1N51_RS08975 (C1N51_08975) - 1870528..1871013 (+) 486 WP_103410492.1 VPA1267 family protein -
  C1N51_RS08980 (C1N51_08980) - 1871052..1873196 (+) 2145 WP_158652667.1 ATP-dependent DNA helicase -
  C1N51_RS08990 (C1N51_08990) - 1873751..1874005 (-) 255 WP_050917706.1 helix-turn-helix domain-containing protein -
  C1N51_RS08995 (C1N51_08995) - 1874140..1874394 (-) 255 WP_050917705.1 helix-turn-helix domain-containing protein -
  C1N51_RS09000 (C1N51_09000) - 1874563..1874844 (+) 282 WP_103410495.1 hypothetical protein -
  C1N51_RS09005 (C1N51_09005) - 1875125..1875454 (+) 330 WP_158652668.1 hypothetical protein -
  C1N51_RS09010 (C1N51_09010) - 1875416..1875628 (-) 213 WP_103410497.1 DUF3892 domain-containing protein -
  C1N51_RS09015 (C1N51_09015) - 1875760..1876881 (-) 1122 WP_102350401.1 hypothetical protein -
  C1N51_RS09020 (C1N51_09020) - 1876874..1877500 (-) 627 WP_233902750.1 hypothetical protein -
  C1N51_RS09025 (C1N51_09025) - 1878424..1879176 (+) 753 WP_103410499.1 hypothetical protein -
  C1N51_RS09030 (C1N51_09030) - 1879290..1880354 (+) 1065 WP_103410500.1 pentapeptide repeat-containing protein -
  C1N51_RS09035 (C1N51_09035) - 1880540..1881778 (-) 1239 WP_103410501.1 IS256-like element ISVa19 family transposase -
  C1N51_RS09040 (C1N51_09040) - 1881947..1882330 (+) 384 WP_103410502.1 TIR domain-containing protein -
  C1N51_RS09045 (C1N51_09045) - 1882331..1882849 (+) 519 WP_103410503.1 hypothetical protein -
  C1N51_RS09050 (C1N51_09050) - 1883391..1886045 (+) 2655 WP_233902751.1 phospholipase effector Tle1 domain-containing protein -
  C1N51_RS09055 (C1N51_09055) - 1886035..1886685 (+) 651 WP_103410504.1 hypothetical protein -
  C1N51_RS09060 (C1N51_09060) - 1886933..1887574 (+) 642 WP_103410505.1 hypothetical protein -
  C1N51_RS09065 (C1N51_09065) csrD 1888264..1890273 (+) 2010 WP_005432793.1 RNase E specificity factor CsrD -
  C1N51_RS09070 (C1N51_09070) - 1890285..1891733 (+) 1449 WP_050905606.1 MSHA biogenesis protein MshI -
  C1N51_RS09075 (C1N51_09075) gspM 1891730..1892380 (+) 651 WP_038891137.1 type II secretion system protein GspM -
  C1N51_RS09080 (C1N51_09080) - 1892373..1892702 (+) 330 WP_103410506.1 MSHA biogenesis protein MshK -
  C1N51_RS09085 (C1N51_09085) mshL 1892723..1894357 (+) 1635 WP_005432819.1 pilus (MSHA type) biogenesis protein MshL -
  C1N51_RS09090 (C1N51_09090) - 1894400..1895245 (+) 846 WP_103410507.1 ExeA family protein -
  C1N51_RS09095 (C1N51_09095) - 1895230..1896327 (+) 1098 WP_103410508.1 tetratricopeptide repeat protein -
  C1N51_RS09100 (C1N51_09100) - 1896324..1898048 (+) 1725 WP_103410509.1 GspE/PulE family protein -

Sequence

Protein


Download         Length: 178 a.a.        Molecular weight: 19774.84 Da        Isoelectric Point: 4.9269

>NTDB_id=268084 C1N51_RS08950 WP_005432828.1 1864125..1864661(+) (ssb) [Vibrio campbellii strain BoB-90]
MASRGINKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVVLFGKLAEVAGEYLRKGSQVYV
EGQLQTRKWQDQSGQDRYSTEVVVQGFNGVMQMLGGRAQGGAPMGGGQPQQQQQGGWGQPQQPAQQQYNAPQQQQQAPQQ
PQQQYNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=268084 C1N51_RS08950 WP_005432828.1 1864125..1864661(+) (ssb) [Vibrio campbellii strain BoB-90]
ATGGCCAGCCGTGGAATTAACAAAGTTATTTTGGTGGGGAATCTAGGTAACGACCCTGAAATTCGTTACATGCCTAATGG
CGGTGCAGTAGCAAACATCACGATTGCAACTTCTGAGTCATGGCGTGATAAAGCGACTGGCGAACAGCGCGAAAAAACAG
AATGGCACCGTGTTGTGCTGTTTGGCAAACTTGCTGAAGTAGCAGGCGAGTACCTACGTAAAGGTTCTCAAGTTTACGTT
GAAGGTCAACTTCAAACTCGTAAATGGCAAGACCAAAGTGGCCAAGACCGCTACTCAACAGAAGTGGTTGTTCAAGGCTT
CAATGGCGTAATGCAAATGCTTGGTGGCCGTGCTCAAGGTGGCGCACCAATGGGTGGTGGTCAGCCTCAACAGCAGCAAC
AAGGTGGTTGGGGTCAACCTCAACAACCAGCTCAGCAGCAATACAATGCTCCTCAGCAACAGCAACAGGCTCCGCAGCAA
CCTCAGCAGCAATACAACGAGCCACCAATGGATTTCGACGACGATATTCCGTTCTGA

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 A0A812GP34

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

80.447

100

0.809
  ssb Glaesserella parasuis strain SC1401

56.545

100

0.607
  ssb Neisseria meningitidis MC58

48.333

100

0.489
  ssb Neisseria gonorrhoeae MS11

48.333

100

0.489

Multiple sequence alignment