Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   CHR26_RS05070 Genome accession   NZ_CP022560
Coordinates   1064463..1065011 (-) Length   182 a.a.
NCBI ID   WP_016484656.1    Uniprot ID   -
Organism   Pseudomonas putida strain B1     
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 1055977..1064321 1064463..1065011 flank 142


Gene organization within MGE regions


Location: 1055977..1065011
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CHR26_RS05040 (CHR26_05005) - 1055977..1058286 (-) 2310 WP_261387224.1 AAA family ATPase -
  CHR26_RS05045 (CHR26_05010) istA 1058230..1059729 (+) 1500 WP_024012635.1 IS21-like element ISPst3 family transposase -
  CHR26_RS05050 (CHR26_05015) istB 1059722..1060525 (+) 804 WP_010454871.1 IS21-like element ISPst3 family helper ATPase IstB -
  CHR26_RS05055 (CHR26_05020) - 1060708..1061604 (-) 897 WP_261387225.1 hypothetical protein -
  CHR26_RS05060 (CHR26_05025) - 1061597..1063111 (-) 1515 WP_145913431.1 site-specific integrase -
  CHR26_RS05065 (CHR26_05030) - 1063104..1064321 (-) 1218 WP_186506730.1 tyrosine-type recombinase/integrase -
  CHR26_RS05070 (CHR26_05035) ssb 1064463..1065011 (-) 549 WP_016484656.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 182 a.a.        Molecular weight: 20213.33 Da        Isoelectric Point: 5.9286

>NTDB_id=240770 CHR26_RS05070 WP_016484656.1 1064463..1065011(-) (ssb) [Pseudomonas putida strain B1]
MARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQCYIE
GKLQTREWEKDGIKRYTTEIIVDINGTMQLLGGRPQGQQQGGDPYNQGGGNYNQGGQPQQYNQAPPRQQAQRPQQAPQRP
APQQPAPQPAADFDSFDDDIPF

Nucleotide


Download         Length: 549 bp        

>NTDB_id=240770 CHR26_RS05070 WP_016484656.1 1064463..1065011(-) (ssb) [Pseudomonas putida strain B1]
ATGGCCCGTGGGGTTAACAAAGTCATTCTGGTCGGCACCTGTGGCCAGGATCCCGAAGTCCGCTACCTGCCCAACGGTAA
CGCCGTGACCAACCTGAGCCTGGCCACCAGCGAGCAGTGGACCGACAAGCAGTCGGGCCAGAAGGTCGAGCGTACCGAAT
GGCACCGTGTGTCGCTGTTCGGCAAGGTTGCCGAAATCGCCGGCGAGTACCTGCGCAAAGGTTCGCAGTGCTACATCGAA
GGCAAGCTGCAGACCCGCGAGTGGGAAAAAGACGGCATCAAGCGCTACACCACCGAGATCATCGTCGACATCAACGGCAC
CATGCAGCTGCTTGGCGGCCGTCCACAGGGTCAGCAGCAGGGCGGCGACCCGTACAACCAGGGTGGCGGCAACTACAACC
AGGGTGGCCAGCCCCAGCAATACAACCAGGCACCGCCTCGCCAACAGGCTCAGCGCCCGCAACAGGCCCCTCAGCGCCCG
GCGCCGCAACAGCCCGCGCCTCAGCCGGCTGCGGACTTTGACAGCTTTGATGACGATATTCCGTTCTAG

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

57.219

100

0.588
  ssb Glaesserella parasuis strain SC1401

50

100

0.522
  ssb Neisseria meningitidis MC58

48.333

98.901

0.478
  ssb Neisseria gonorrhoeae MS11

48.333

98.901

0.478

Multiple sequence alignment