Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   JHX88_RS13395 Genome accession   NZ_CP067140
Coordinates   2786347..2786832 (+) Length   161 a.a.
NCBI ID   WP_076523410.1    Uniprot ID   -
Organism   Paracoccus saliphilus strain DSM 18447     
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 2785508..2802809 2786347..2786832 within 0


Gene organization within MGE regions


Location: 2785508..2802809
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JHX88_RS13390 (JHX88_13350) - 2785508..2786131 (-) 624 WP_076523408.1 lytic transglycosylase domain-containing protein -
  JHX88_RS13395 (JHX88_13355) ssb 2786347..2786832 (+) 486 WP_076523410.1 single-stranded DNA-binding protein Machinery gene
  JHX88_RS13400 (JHX88_13360) - 2787074..2788120 (+) 1047 WP_076523412.1 Leu/Phe/Val dehydrogenase -
  JHX88_RS13405 (JHX88_13365) aroB 2788176..2789288 (-) 1113 WP_076523414.1 3-dehydroquinate synthase -
  JHX88_RS13410 (JHX88_13370) - 2789285..2789821 (-) 537 WP_272848030.1 shikimate kinase -
  JHX88_RS13415 (JHX88_13375) - 2789967..2790104 (+) 138 WP_176011394.1 hypothetical protein -
  JHX88_RS13420 (JHX88_13380) - 2790097..2791581 (+) 1485 WP_141225748.1 hypothetical protein -
  JHX88_RS13425 (JHX88_13385) - 2791578..2792552 (+) 975 WP_076523417.1 site-specific tyrosine recombinase XerD -
  JHX88_RS13430 (JHX88_13390) - 2792561..2793889 (+) 1329 WP_076523419.1 HlyC/CorC family transporter -
  JHX88_RS13440 (JHX88_13400) - 2794468..2794761 (-) 294 WP_076523421.1 hypothetical protein -
  JHX88_RS13445 (JHX88_13405) - 2794758..2794988 (-) 231 WP_076523423.1 hypothetical protein -
  JHX88_RS13450 (JHX88_13410) - 2794982..2795212 (-) 231 WP_076523424.1 hypothetical protein -
  JHX88_RS13455 (JHX88_13415) - 2795209..2795397 (-) 189 WP_076523426.1 hypothetical protein -
  JHX88_RS13460 (JHX88_13420) - 2795524..2795679 (+) 156 WP_084202850.1 Arc family DNA-binding protein -
  JHX88_RS13465 (JHX88_13425) - 2795657..2795875 (+) 219 WP_272848031.1 hypothetical protein -
  JHX88_RS13470 (JHX88_13430) - 2796260..2796421 (+) 162 WP_176011395.1 hypothetical protein -
  JHX88_RS13475 (JHX88_13435) - 2797030..2797521 (-) 492 WP_076523429.1 hypothetical protein -
  JHX88_RS13480 (JHX88_13440) - 2797521..2797874 (-) 354 WP_076523431.1 phage tail assembly chaperone -
  JHX88_RS13485 (JHX88_13445) - 2797874..2800096 (-) 2223 WP_076523434.1 tape measure protein -
  JHX88_RS13490 (JHX88_13450) - 2800106..2801764 (-) 1659 WP_076523436.1 terminase large subunit -
  JHX88_RS13495 (JHX88_13455) - 2801764..2802153 (-) 390 WP_076523438.1 phage terminase small subunit P27 family -
  JHX88_RS13500 (JHX88_13460) - 2802150..2802398 (-) 249 WP_076523441.1 head-tail adaptor protein -
  JHX88_RS13505 (JHX88_13465) - 2802498..2802809 (-) 312 WP_076523444.1 head-tail connector protein -

Sequence

Protein


Download         Length: 161 a.a.        Molecular weight: 17396.01 Da        Isoelectric Point: 6.4859

>NTDB_id=525153 JHX88_RS13395 WP_076523410.1 2786347..2786832(+) (ssb) [Paracoccus saliphilus strain DSM 18447]
MAGSVNKVIILGNLGQDPEVRTFQNGGKVVNLRIATSERWKDRNTGEAQERTQWHSVAIFSEPLARVAEQYLRKGSKVYI
EGQLETRKWQDQNGQDRYSTEVVLRPYRSELHMLDGRGEGGGSRDSGSFGGGGGGYGSPSSGGGAPSGGGGRSDYDDEIP
F

Nucleotide


Download         Length: 486 bp        

>NTDB_id=525153 JHX88_RS13395 WP_076523410.1 2786347..2786832(+) (ssb) [Paracoccus saliphilus strain DSM 18447]
ATGGCAGGCAGCGTCAACAAGGTCATCATTCTTGGCAATCTGGGCCAGGACCCCGAGGTGCGGACATTCCAGAATGGCGG
CAAGGTGGTCAATCTGCGGATCGCAACATCAGAACGATGGAAAGACCGCAACACGGGCGAAGCGCAGGAGCGCACCCAAT
GGCATTCCGTCGCGATCTTCTCGGAACCTCTAGCCCGCGTTGCCGAGCAATATCTGCGCAAGGGCTCCAAGGTCTATATC
GAAGGCCAGTTGGAGACCCGCAAATGGCAGGATCAGAACGGACAGGACCGCTATTCCACCGAGGTCGTCCTGCGGCCCTA
TCGTAGCGAGTTGCACATGCTGGACGGGCGCGGCGAAGGCGGCGGCAGCCGCGATTCGGGCAGCTTTGGCGGTGGCGGAG
GCGGATATGGCAGCCCGTCGAGCGGAGGCGGCGCCCCGTCAGGCGGTGGCGGGCGCAGCGATTACGACGACGAGATCCCG
TTCTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(5-105)


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

49.711

100

0.534
  ssb Glaesserella parasuis strain SC1401

45.989

100

0.534
  ssb Neisseria gonorrhoeae MS11

38.333

100

0.429
  ssb Neisseria meningitidis MC58

38.547

100

0.429