Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   BVG12_RS18760 Genome accession   NZ_CP019038
Coordinates   3731955..3732455 (-) Length   166 a.a.
NCBI ID   WP_036233516.1    Uniprot ID   -
Organism   Massilia putida strain 6NM-7     
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)
Genomic island 3712938..3730995 3731955..3732455 flank 960


Gene organization within MGE regions


Location: 3712938..3732455
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BVG12_RS18700 - 3712938..3716093 (+) 3156 WP_075793711.1 SIR2 family protein -
  BVG12_RS33540 - 3716175..3716987 (+) 813 WP_083685208.1 DUF4145 domain-containing protein -
  BVG12_RS18710 - 3717139..3717606 (-) 468 WP_075793713.1 hypothetical protein -
  BVG12_RS18715 - 3717603..3719648 (-) 2046 WP_229503653.1 integrase -
  BVG12_RS18720 - 3719641..3721194 (-) 1554 WP_075793714.1 site-specific integrase -
  BVG12_RS18725 - 3721181..3722452 (-) 1272 WP_075793715.1 site-specific integrase -
  BVG12_RS18730 - 3722579..3722860 (-) 282 WP_075793716.1 helix-turn-helix domain-containing protein -
  BVG12_RS34110 - 3723564..3724022 (+) 459 WP_156895669.1 hypothetical protein -
  BVG12_RS35205 - 3724028..3724219 (-) 192 WP_156895670.1 hypothetical protein -
  BVG12_RS35850 - 3724124..3724606 (+) 483 WP_370662847.1 HAD domain-containing protein -
  BVG12_RS18740 - 3725050..3726603 (+) 1554 WP_075793718.1 class I SAM-dependent DNA methyltransferase -
  BVG12_RS18745 - 3726593..3727900 (+) 1308 WP_075793719.1 restriction endonuclease subunit S -
  BVG12_RS18750 - 3727909..3730995 (+) 3087 WP_075793720.1 type I restriction endonuclease subunit R -
  BVG12_RS18755 - 3731048..3731608 (+) 561 WP_075793721.1 DUF3320 domain-containing protein -
  BVG12_RS18760 ssb 3731955..3732455 (-) 501 WP_036233516.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 166 a.a.        Molecular weight: 18069.26 Da        Isoelectric Point: 5.9416

>NTDB_id=212703 BVG12_RS18760 WP_036233516.1 3731955..3732455(-) (ssb) [Massilia putida strain 6NM-7]
MASVNKVIIVGNLGRDPEIRYMPSGDAIANIAVATSYKSKDRNTGEQKELTEWHRISFFGRLAEIVGQYLKKGSSVYVEG
RLQTRKYTDKDGIERYATDIIAENMQMLGGRQGMGGGDSYGGGDDMGGYDAPPSRPAPRQAPPAPAARPQPKPAPNFSDM
DDDIPF

Nucleotide


Download         Length: 501 bp        

>NTDB_id=212703 BVG12_RS18760 WP_036233516.1 3731955..3732455(-) (ssb) [Massilia putida strain 6NM-7]
ATGGCATCAGTTAACAAGGTCATCATCGTGGGCAACCTCGGCCGCGATCCGGAAATCCGCTACATGCCGAGCGGCGACGC
CATCGCGAACATCGCCGTGGCCACGTCCTACAAATCGAAGGACCGCAACACCGGCGAGCAGAAAGAGCTGACCGAGTGGC
ACCGCATTTCGTTCTTCGGCCGCCTGGCCGAAATCGTCGGCCAGTACCTGAAAAAAGGTTCGTCGGTCTACGTGGAAGGC
CGCCTGCAGACCCGCAAATATACCGACAAGGACGGCATCGAGCGCTACGCCACCGACATCATCGCTGAAAACATGCAGAT
GCTGGGCGGACGCCAGGGCATGGGCGGCGGCGACAGCTACGGTGGCGGCGACGACATGGGCGGCTACGACGCCCCGCCGA
GCCGCCCGGCCCCGCGCCAGGCCCCGCCGGCACCGGCCGCACGTCCGCAGCCGAAACCGGCACCGAACTTCTCGGACATG
GATGACGATATCCCGTTCTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(4-108)


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 Neisseria gonorrhoeae MS11

53.714

100

0.566
  ssb Neisseria meningitidis MC58

53.714

100

0.566
  ssb Vibrio cholerae strain A1552

51.124

100

0.548
  ssb Glaesserella parasuis strain SC1401

47.283

100

0.524

Multiple sequence alignment