Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   LRK53_RS04845 Genome accession   NZ_CP088923
Coordinates   1128601..1129119 (+) Length   172 a.a.
NCBI ID   WP_008434513.1    Uniprot ID   -
Organism   Rhodanobacter thiooxydans strain FW510-R12     
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 1118561..1130616 1128601..1129119 within 0


Gene organization within MGE regions


Location: 1118561..1130616
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LRK53_RS04800 (LRK53_04800) - 1118561..1119910 (+) 1350 WP_235642535.1 cytochrome C -
  LRK53_RS04805 (LRK53_04805) - 1120400..1121494 (+) 1095 WP_185754560.1 hypothetical protein -
  LRK53_RS04810 (LRK53_04810) - 1121695..1122117 (+) 423 WP_081666533.1 c-type cytochrome domain-containing protein -
  LRK53_RS04815 (LRK53_04815) - 1122186..1123254 (+) 1069 Protein_959 IS5 family transposase -
  LRK53_RS04820 (LRK53_04820) - 1123594..1123926 (+) 333 WP_185754669.1 cytochrome c -
  LRK53_RS04825 (LRK53_04825) - 1124222..1125166 (+) 945 WP_027493294.1 IS1595 family transposase -
  LRK53_RS04830 (LRK53_04830) - 1125196..1125642 (+) 447 WP_037090060.1 CopD family protein -
  LRK53_RS04835 (LRK53_04835) - 1126004..1127329 (-) 1326 Protein_963 IS1182 family transposase -
  LRK53_RS04840 (LRK53_04840) - 1127471..1128451 (+) 981 WP_027493296.1 DedA family protein/thiosulfate sulfurtransferase GlpE -
  LRK53_RS04845 (LRK53_04845) ssb 1128601..1129119 (+) 519 WP_008434513.1 single-stranded DNA-binding protein Machinery gene
  LRK53_RS04850 (LRK53_04850) - 1129242..1129349 (+) 108 Protein_966 integrase core domain-containing protein -
  LRK53_RS04855 (LRK53_04855) - 1129437..1129838 (-) 402 WP_235642536.1 hypothetical protein -
  LRK53_RS04860 (LRK53_04860) - 1130149..1130616 (-) 468 WP_081666641.1 transposase -

Sequence

Protein


Download         Length: 172 a.a.        Molecular weight: 18260.03 Da        Isoelectric Point: 5.8023

>NTDB_id=634008 LRK53_RS04845 WP_008434513.1 1128601..1129119(+) (ssb) [Rhodanobacter thiooxydans strain FW510-R12]
MARGVNKVILVGNLGADPEMRHTGGGTAICSFNLATTESWTDKQSGEKQERTEWHRVKIFGRLAEIAGEYLKKGRQVYIE
GSLRTDKYTDKQGIERYSTDIIASDMQMLGGPGGEGGAGGGYQRERPQGGQRQGGGSYGGGQSRGGDYGNAPSQSPAPAP
ADNGFADDDIPF

Nucleotide


Download         Length: 519 bp        

>NTDB_id=634008 LRK53_RS04845 WP_008434513.1 1128601..1129119(+) (ssb) [Rhodanobacter thiooxydans strain FW510-R12]
ATGGCACGTGGCGTCAACAAAGTCATCCTGGTCGGCAACCTTGGCGCGGACCCCGAAATGCGCCACACCGGCGGCGGTAC
CGCCATCTGCAGCTTCAACCTGGCCACCACCGAGTCGTGGACCGACAAGCAGAGCGGCGAGAAGCAGGAGCGTACCGAAT
GGCATCGGGTGAAGATCTTCGGCCGGCTGGCCGAGATCGCCGGCGAATACCTGAAGAAGGGCCGCCAGGTCTATATCGAA
GGTTCGCTGCGCACCGACAAGTACACCGACAAGCAAGGCATCGAGCGCTACTCCACCGACATCATCGCCAGCGACATGCA
GATGCTCGGTGGCCCCGGCGGTGAAGGCGGCGCCGGCGGCGGCTACCAGCGCGAGCGCCCGCAGGGTGGCCAGCGCCAGG
GCGGCGGCAGCTACGGTGGTGGCCAGTCGCGCGGCGGCGACTATGGCAACGCGCCGAGCCAGTCCCCGGCGCCGGCTCCG
GCCGACAACGGCTTCGCGGACGACGATATTCCGTTCTAG

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

47.027

100

0.506
  ssb Glaesserella parasuis strain SC1401

47.222

100

0.494
  ssb Neisseria gonorrhoeae MS11

44.068

100

0.453
  ssb Neisseria meningitidis MC58

43.82

100

0.453