Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   RDV63_RS01165 Genome accession   NZ_CP135084
Coordinates   194186..194815 (-) Length   209 a.a.
NCBI ID   WP_313907710.1    Uniprot ID   -
Organism   Rheinheimera sp. MMS21-TC3     
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)
IS/Tn 193259..193999 194186..194815 flank 187


Gene organization within MGE regions


Location: 193259..194815
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RDV63_RS01160 (RDV63_01160) - 193259..193999 (+) 741 WP_313907709.1 IS5-like element ISSpu10 family transposase -
  RDV63_RS01165 (RDV63_01165) ssb 194186..194815 (-) 630 WP_313907710.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 209 a.a.        Molecular weight: 23551.92 Da        Isoelectric Point: 5.9611

>NTDB_id=884811 RDV63_RS01165 WP_313907710.1 194186..194815(-) (ssb) [Rheinheimera sp. MMS21-TC3]
MARGINKVILIGNLGQDPEVRYMPQGGAVANLTVATSESWTDKATNEKKEQTEWHRIVIYNRLAEIAGEYLRKGSKIYIE
GKLKTRKWQDKDGIERYTTEVIANELQMLDGRGDNQQQGGMGGQQGGYQRPQQAPQQQQSSYQKPSQPQQQQGGYQQQQG
GYQQPAQQVAPQQSYQKPAQQQGGYQQPAQQPSQQPVEPNIDFDDDIPF

Nucleotide


Download         Length: 630 bp        

>NTDB_id=884811 RDV63_RS01165 WP_313907710.1 194186..194815(-) (ssb) [Rheinheimera sp. MMS21-TC3]
ATGGCACGTGGAATAAATAAAGTTATTTTAATTGGTAACTTAGGCCAAGATCCCGAAGTGCGATATATGCCGCAAGGTGG
TGCTGTAGCAAATTTAACGGTTGCCACATCAGAAAGCTGGACAGACAAAGCGACTAATGAGAAAAAAGAGCAAACAGAAT
GGCATCGTATTGTTATCTACAATCGTTTAGCTGAAATTGCTGGTGAATACTTACGCAAAGGTAGCAAGATTTATATTGAG
GGCAAATTAAAAACCCGCAAATGGCAAGATAAAGACGGCATTGAGCGTTACACCACAGAAGTTATTGCTAACGAACTGCA
AATGTTAGACGGCCGTGGTGATAACCAGCAGCAAGGCGGTATGGGCGGACAACAAGGTGGCTACCAAAGGCCACAACAAG
CCCCTCAGCAGCAACAAAGCAGCTACCAAAAGCCAAGCCAACCACAGCAGCAACAAGGTGGTTATCAGCAACAGCAAGGC
GGTTACCAGCAGCCAGCGCAACAAGTTGCACCACAGCAAAGTTATCAAAAACCAGCACAGCAACAGGGTGGCTATCAGCA
ACCTGCGCAACAACCAAGCCAACAGCCAGTAGAGCCAAATATCGACTTTGATGATGATATTCCGTTTTGA

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

55.66

100

0.565
  ssb Glaesserella parasuis strain SC1401

49.524

100

0.498
  ssb Neisseria meningitidis MC58

44.498

100

0.445
  ssb Neisseria gonorrhoeae MS11

44.498

100

0.445