Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   U0O11_RS16675 Genome accession   NZ_CP142020
Coordinates   4025458..4026114 (-) Length   218 a.a.
NCBI ID   WP_278421209.1    Uniprot ID   -
Organism   Cobetia sp. D5 isolate Qingdao     
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 4013790..4025315 4025458..4026114 flank 143


Gene organization within MGE regions


Location: 4013790..4026114
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U0O11_RS16630 (U0O11_16630) - 4014492..4014785 (-) 294 WP_284893589.1 hypothetical protein -
  U0O11_RS16635 (U0O11_16635) - 4016265..4016855 (+) 591 WP_284893592.1 hypothetical protein -
  U0O11_RS16640 (U0O11_16640) - 4016945..4017511 (+) 567 WP_284893594.1 hypothetical protein -
  U0O11_RS16645 (U0O11_16645) - 4017646..4018593 (+) 948 WP_284893597.1 DUF4365 domain-containing protein -
  U0O11_RS16650 (U0O11_16650) - 4018674..4019801 (+) 1128 WP_284893600.1 DUF3800 domain-containing protein -
  U0O11_RS16655 (U0O11_16655) - 4019969..4020376 (-) 408 WP_284893603.1 hypothetical protein -
  U0O11_RS16660 (U0O11_16660) - 4020376..4022433 (-) 2058 WP_324690804.1 hypothetical protein -
  U0O11_RS16665 (U0O11_16665) - 4022426..4023967 (-) 1542 WP_284893609.1 site-specific integrase -
  U0O11_RS16670 (U0O11_16670) - 4023996..4025315 (-) 1320 WP_324690807.1 site-specific integrase -
  U0O11_RS16675 (U0O11_16675) ssb 4025458..4026114 (-) 657 WP_278421209.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 218 a.a.        Molecular weight: 23530.51 Da        Isoelectric Point: 5.2339

>NTDB_id=921110 U0O11_RS16675 WP_278421209.1 4025458..4026114(-) (ssb) [Cobetia sp. D5 isolate Qingdao]
MARGVNKVILIGNLGQDPEVRFTPSGSAVCNLNLATTDTWNDRQSGQRQERTEWHRVVMFNKLAEVAQQYVKKGSRLYIE
GRLQTRKWQDQNGNDRYSTEIVANDMQMLDTRGEGGGGNFAGGRPQQAPQQGGQQPAAAPQQGGQFGGQQPAPQQGGQFG
GQQAAPQQGGQFGGQQPAPQQGNNFGGQQPAQQNNSQNNNFGAPPAGSFDDFDDEIPF

Nucleotide


Download         Length: 657 bp        

>NTDB_id=921110 U0O11_RS16675 WP_278421209.1 4025458..4026114(-) (ssb) [Cobetia sp. D5 isolate Qingdao]
ATGGCTCGTGGCGTAAACAAGGTCATTCTGATCGGTAATCTCGGTCAAGACCCGGAAGTTCGCTTCACCCCGTCCGGTAG
TGCGGTGTGCAACCTGAACCTCGCGACGACGGATACCTGGAATGATCGCCAGAGCGGTCAGCGTCAGGAACGTACCGAAT
GGCACCGTGTGGTGATGTTCAACAAGCTGGCTGAAGTGGCCCAGCAATACGTCAAGAAAGGCTCACGCCTGTATATCGAA
GGCCGCCTGCAGACGCGCAAGTGGCAGGATCAGAACGGCAATGACCGTTACAGCACCGAAATCGTGGCCAACGATATGCA
GATGCTGGATACGCGTGGTGAAGGTGGCGGCGGCAACTTCGCTGGTGGTCGCCCGCAGCAGGCGCCTCAGCAGGGTGGCC
AGCAACCGGCCGCAGCCCCCCAGCAGGGTGGCCAGTTTGGTGGTCAGCAGCCGGCCCCGCAGCAAGGTGGCCAGTTCGGT
GGTCAGCAGGCGGCCCCTCAGCAAGGCGGTCAGTTCGGTGGTCAGCAGCCGGCCCCTCAGCAGGGCAACAACTTCGGTGG
CCAGCAGCCTGCCCAGCAGAACAACTCCCAGAACAACAATTTCGGTGCGCCGCCCGCGGGCAGCTTCGATGATTTCGATG
ATGAAATCCCGTTCTAG

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(5-109)


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

48.636

100

0.491
  ssb Glaesserella parasuis strain SC1401

44.091

100

0.445
  ssb Neisseria gonorrhoeae MS11

42.202

100

0.422
  ssb Neisseria meningitidis MC58

42.396

99.541

0.422