Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   ITG12_RS12985 Genome accession   NZ_CP080238
Coordinates   2798994..2799536 (+) Length   180 a.a.
NCBI ID   WP_038864580.1    Uniprot ID   A0A2N7N1Z9
Organism   Vibrio sp. ED002     
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 2800364..2810869 2798994..2799536 flank 828
IScluster/Tn 2799649..2800852 2798994..2799536 flank 113


Gene organization within MGE regions


Location: 2798994..2810869
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ITG12_RS12985 (ITG12_12905) ssb 2798994..2799536 (+) 543 WP_038864580.1 single-stranded DNA-binding protein Machinery gene
  ITG12_RS12990 (ITG12_12910) - 2799649..2800852 (+) 1204 WP_248873087.1 IS3 family transposase -
  ITG12_RS12995 (ITG12_12915) csrD 2801079..2803088 (+) 2010 WP_248873126.1 RNase E specificity factor CsrD -
  ITG12_RS13000 (ITG12_12920) - 2803100..2804548 (+) 1449 WP_104029708.1 MSHA biogenesis protein MshI -
  ITG12_RS13005 (ITG12_12925) gspM 2804545..2805195 (+) 651 WP_038864576.1 type II secretion system protein GspM -
  ITG12_RS13010 (ITG12_12930) - 2805188..2805520 (+) 333 WP_038864575.1 hypothetical protein -
  ITG12_RS13015 (ITG12_12935) mshL 2805541..2807175 (+) 1635 WP_038879737.1 pilus (MSHA type) biogenesis protein MshL -
  ITG12_RS13020 (ITG12_12940) - 2807221..2808060 (+) 840 WP_248873127.1 AAA family ATPase -
  ITG12_RS13025 (ITG12_12945) - 2808051..2809148 (+) 1098 WP_248873128.1 tetratricopeptide repeat protein -
  ITG12_RS13030 (ITG12_12950) - 2809145..2810869 (+) 1725 WP_039975676.1 GspE/PulE family protein -

Sequence

Protein


Download         Length: 180 a.a.        Molecular weight: 20088.15 Da        Isoelectric Point: 4.9269

>NTDB_id=591577 ITG12_RS12985 WP_038864580.1 2798994..2799536(+) (ssb) [Vibrio sp. ED002]
MASRGINKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYV
EGQLQTRKWQDQSGQDRYTTEVVVQGFNGVMQMLGGRAQGGAPMGGQQQQQQGGWGQPQQPAQQQYNAPQQQQQPQQQAP
QQPQQQYNEPPMDFDDDIPF

Nucleotide


Download         Length: 543 bp        

>NTDB_id=591577 ITG12_RS12985 WP_038864580.1 2798994..2799536(+) (ssb) [Vibrio sp. ED002]
ATGGCCAGCCGTGGAATTAACAAAGTTATTTTGGTGGGGAATCTAGGTAACGACCCTGAAATTCGTTACATGCCTAATGG
CGGTGCAGTTGCAAACATTACGATTGCGACTTCTGAGTCATGGCGTGATAAAGCGACTGGCGAACAGCGCGAAAAAACAG
AGTGGCACCGTGTTGCACTATTCGGCAAGTTGGCGGAAGTAGCAGGTGAGTACCTACGTAAAGGTTCTCAAGTTTACGTT
GAAGGCCAACTTCAAACTCGTAAATGGCAAGATCAAAGTGGTCAAGACCGTTACACTACTGAAGTGGTTGTTCAGGGCTT
CAACGGTGTAATGCAAATGCTAGGCGGTCGTGCTCAAGGTGGCGCTCCTATGGGTGGTCAACAGCAGCAACAGCAAGGCG
GTTGGGGTCAGCCTCAACAACCAGCTCAGCAGCAGTACAACGCTCCACAGCAACAGCAGCAACCTCAACAACAGGCTCCG
CAGCAACCACAGCAGCAATACAACGAGCCACCAATGGACTTCGACGACGACATTCCGTTCTAA

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 A0A2N7N1Z9

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

78.689

100

0.8
  ssb Glaesserella parasuis strain SC1401

55.838

100

0.611
  ssb Neisseria meningitidis MC58

45.745

100

0.478
  ssb Neisseria gonorrhoeae MS11

46.667

100

0.467