Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   K6978_RS13265 Genome accession   NZ_CP082214
Coordinates   2996575..2997114 (-) Length   179 a.a.
NCBI ID   WP_104605359.1    Uniprot ID   -
Organism   Xanthomonas cucurbitae strain OH_261     
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 2984681..2996391 2996575..2997114 flank 184


Gene organization within MGE regions


Location: 2984681..2997114
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K6978_RS13210 (K6978_13165) - 2984681..2984872 (+) 192 WP_104605685.1 type II toxin-antitoxin system RelB/DinJ family antitoxin -
  K6978_RS13215 (K6978_13170) - 2984921..2985841 (+) 921 WP_104605683.1 ABC-three component system protein -
  K6978_RS13220 (K6978_13175) - 2985838..2986086 (+) 249 WP_104605681.1 ABC-three component system middle component 6 -
  K6978_RS13225 (K6978_13180) - 2986083..2987804 (+) 1722 WP_104605679.1 ABC-three component system protein -
  K6978_RS13230 (K6978_13185) - 2987885..2989147 (+) 1263 WP_274396365.1 hypothetical protein -
  K6978_RS13235 (K6978_13190) - 2989144..2990202 (+) 1059 WP_211293034.1 hypothetical protein -
  K6978_RS13240 (K6978_13195) - 2990291..2992042 (+) 1752 WP_104605638.1 AAA family ATPase -
  K6978_RS13245 (K6978_13200) - 2992039..2993814 (+) 1776 WP_104605640.1 ATP-dependent helicase -
  K6978_RS13250 (K6978_13205) - 2993917..2994237 (-) 321 Protein_2594 PDDEXK nuclease domain-containing protein -
  K6978_RS13255 (K6978_13210) - 2994236..2994445 (+) 210 Protein_2595 IS3 family transposase -
  K6978_RS13260 (K6978_13215) - 2994593..2996142 (-) 1550 Protein_2596 IS3 family transposase -
  K6978_RS13265 (K6978_13220) ssb 2996575..2997114 (-) 540 WP_104605359.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 179 a.a.        Molecular weight: 19109.97 Da        Isoelectric Point: 5.3095

>NTDB_id=600230 K6978_RS13265 WP_104605359.1 2996575..2997114(-) (ssb) [Xanthomonas cucurbitae strain OH_261]
MARGINKVILVGNLGNDPDTKYTQAGMAITRVSLATTSMRKDRDGNNQERTEWHRVVFFGKLGEIAGEYLRKGSQVYVEG
ELRYDKYTGQDGVEKYSTDIVANEMQMLGGRGEGGGGGMGGDRPQRSQAPRQQGGGGGGQGGGYGGGGGGQDYAPRRQQP
AQQQSAPPMDDFADDDIPF

Nucleotide


Download         Length: 540 bp        

>NTDB_id=600230 K6978_RS13265 WP_104605359.1 2996575..2997114(-) (ssb) [Xanthomonas cucurbitae strain OH_261]
ATGGCCCGCGGCATCAACAAAGTCATCCTCGTCGGCAACCTCGGCAACGATCCCGACACCAAGTACACCCAGGCCGGCAT
GGCGATCACCCGCGTGAGCCTGGCCACCACCAGCATGCGCAAGGACCGCGACGGCAACAACCAGGAGCGCACCGAATGGC
ACCGCGTGGTGTTCTTCGGCAAGTTGGGCGAGATCGCCGGCGAATACCTGCGCAAGGGCTCGCAGGTCTACGTCGAAGGG
GAACTGCGCTACGACAAGTACACCGGTCAGGATGGCGTGGAGAAGTACAGCACCGATATCGTCGCCAACGAAATGCAGAT
GCTCGGCGGCCGTGGTGAAGGCGGCGGTGGCGGCATGGGCGGCGACCGTCCGCAGCGCTCGCAGGCTCCGCGCCAGCAGG
GCGGTGGCGGTGGCGGCCAGGGCGGCGGCTACGGTGGTGGCGGCGGTGGTCAGGACTATGCCCCGCGTCGTCAGCAGCCG
GCGCAGCAGCAGTCGGCTCCGCCGATGGACGACTTTGCCGATGACGATATTCCGTTCTAG

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(5-108)


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 Vibrio cholerae strain A1552

45.026

100

0.48
  ssb Glaesserella parasuis strain SC1401

46.111

100

0.464
  ssb Neisseria meningitidis MC58

44.751

100

0.453
  ssb Neisseria gonorrhoeae MS11

44.751

100

0.453