Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   N4J17_RS06790 Genome accession   NZ_CP104311
Coordinates   1381483..1382004 (+) Length   173 a.a.
NCBI ID   WP_198324276.1    Uniprot ID   -
Organism   Methylococcus capsulatus strain VKPM-B-12549 (GBS-15)     
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 1381483..1411466 1381483..1382004 within 0


Gene organization within MGE regions


Location: 1381483..1411466
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  N4J17_RS06790 (N4J17_06795) ssb 1381483..1382004 (+) 522 WP_198324276.1 single-stranded DNA-binding protein Machinery gene
  N4J17_RS06795 (N4J17_06800) zwf 1382384..1383865 (+) 1482 WP_198324275.1 glucose-6-phosphate dehydrogenase -
  N4J17_RS06800 (N4J17_06805) - 1384369..1384572 (+) 204 WP_198324274.1 helix-turn-helix domain-containing protein -
  N4J17_RS06805 (N4J17_06810) - 1384569..1387463 (+) 2895 WP_198324273.1 SNF2-related protein -
  N4J17_RS06810 (N4J17_06815) - 1387476..1389191 (+) 1716 WP_198324272.1 DUF262 domain-containing protein -
  N4J17_RS06815 (N4J17_06820) - 1389199..1390914 (+) 1716 WP_198324271.1 site-specific DNA-methyltransferase -
  N4J17_RS06820 (N4J17_06825) - 1390914..1393652 (+) 2739 WP_198324270.1 DEAD/DEAH box helicase family protein -
  N4J17_RS06825 (N4J17_06830) - 1393674..1394132 (-) 459 WP_198324269.1 lysozyme -
  N4J17_RS06830 (N4J17_06835) - 1394129..1394605 (-) 477 WP_198324268.1 hypothetical protein -
  N4J17_RS06835 (N4J17_06840) - 1394602..1394904 (-) 303 WP_198324267.1 DUF6127 family protein -
  N4J17_RS06840 (N4J17_06845) - 1394988..1395209 (-) 222 WP_198324266.1 hypothetical protein -
  N4J17_RS06845 (N4J17_06850) - 1395202..1397208 (-) 2007 WP_277458570.1 hypothetical protein -
  N4J17_RS06850 (N4J17_06855) - 1397233..1397403 (-) 171 WP_232470760.1 hypothetical protein -
  N4J17_RS06855 (N4J17_06860) - 1397427..1397690 (+) 264 WP_277458572.1 hypothetical protein -
  N4J17_RS06860 (N4J17_06865) - 1397690..1398061 (+) 372 WP_198324265.1 site-specific recombinase resolvase -
  N4J17_RS06865 (N4J17_06870) - 1398058..1398531 (+) 474 WP_198324264.1 hypothetical protein -
  N4J17_RS06875 (N4J17_06880) - 1399315..1399785 (-) 471 WP_198324263.1 hypothetical protein -
  N4J17_RS06880 (N4J17_06885) cysD 1400024..1400932 (+) 909 WP_338457672.1 sulfate adenylyltransferase subunit CysD -
  N4J17_RS06885 (N4J17_06890) cysN 1401120..1402769 (+) 1650 WP_338457673.1 sulfate adenylyltransferase subunit CysN -
  N4J17_RS06890 (N4J17_06895) - 1402888..1403850 (-) 963 Protein_1347 transposase -
  N4J17_RS06895 (N4J17_06900) - 1403883..1406228 (-) 2346 WP_232470577.1 DNA internalization-related competence protein ComEC/Rec2 -
  N4J17_RS06900 (N4J17_06905) - 1406293..1406889 (+) 597 WP_198323497.1 DUF2062 domain-containing protein -
  N4J17_RS06905 (N4J17_06910) lolD 1406896..1407576 (-) 681 WP_198323496.1 lipoprotein-releasing ABC transporter ATP-binding protein LolD -
  N4J17_RS06910 (N4J17_06915) - 1407569..1408816 (-) 1248 WP_198323495.1 lipoprotein-releasing ABC transporter permease subunit -
  N4J17_RS06915 (N4J17_06920) fur 1408845..1409276 (-) 432 WP_198323494.1 ferric iron uptake transcriptional regulator -
  N4J17_RS06920 (N4J17_06925) - 1409366..1409806 (+) 441 WP_232470576.1 outer membrane protein assembly factor BamE -
  N4J17_RS06925 (N4J17_06930) - 1409803..1410087 (-) 285 WP_277458171.1 RnfH family protein -
  N4J17_RS06930 (N4J17_06935) - 1410108..1411466 (-) 1359 WP_198323491.1 sodium-dependent transporter -

Sequence

Protein


Download         Length: 173 a.a.        Molecular weight: 18236.99 Da        Isoelectric Point: 5.0100

>NTDB_id=728574 N4J17_RS06790 WP_198324276.1 1381483..1382004(+) (ssb) [Methylococcus capsulatus strain VKPM-B-12549 (GBS-15)]
MASRGVNKVILIGNLGADPEVRYMPSGGAVANLRIATSESWKDQQTGQTQERTEWHSVVLYRRLAEIAGEYLKKGSKVYI
EGSLRTRKWQDKNTGQDRYTTEIIGNEMQMLDRAGGGMGGGGTGAGEPDWDAPPAGGGSRPRSSGGGYGGGSTAGSGAGS
SQFDEGFDDDVPF

Nucleotide


Download         Length: 522 bp        

>NTDB_id=728574 N4J17_RS06790 WP_198324276.1 1381483..1382004(+) (ssb) [Methylococcus capsulatus strain VKPM-B-12549 (GBS-15)]
ATGGCCAGTCGAGGCGTCAACAAAGTCATACTCATCGGCAACCTGGGCGCAGACCCGGAAGTGCGCTACATGCCGAGCGG
CGGCGCGGTCGCCAATCTGCGCATCGCCACCAGCGAATCCTGGAAAGATCAGCAGACCGGCCAGACTCAGGAGCGTACCG
AATGGCATAGCGTGGTGTTGTACCGCCGCTTGGCGGAAATCGCCGGCGAATATCTCAAGAAAGGCAGCAAGGTTTACATC
GAGGGCAGCCTTCGGACCCGCAAATGGCAGGACAAGAACACCGGCCAAGACCGCTATACCACCGAAATCATCGGCAATGA
AATGCAGATGCTCGACCGTGCCGGTGGAGGGATGGGCGGCGGCGGAACGGGGGCGGGCGAACCCGACTGGGATGCGCCGC
CGGCGGGCGGCGGCTCCCGGCCGCGCAGTTCGGGGGGCGGTTATGGCGGAGGCAGTACCGCCGGGAGCGGCGCCGGAAGC
AGCCAGTTCGACGAAGGATTCGACGACGACGTGCCGTTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(6-111)


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

54.545

100

0.59
  ssb Glaesserella parasuis strain SC1401

52.198

100

0.549
  ssb Neisseria meningitidis MC58

45.143

100

0.457
  ssb Neisseria gonorrhoeae MS11

44.571

100

0.451