Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   N024_RS22190 Genome accession   NZ_CP127246
Coordinates   5170633..5171196 (-) Length   187 a.a.
NCBI ID   WP_002555458.1    Uniprot ID   -
Organism   Pseudomonas syringae CC457     
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 5161474..5170489 5170633..5171196 flank 144


Gene organization within MGE regions


Location: 5161474..5171196
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  N024_RS22140 (N024_22140) - 5161955..5162143 (+) 189 WP_024663209.1 hypothetical protein -
  N024_RS22145 (N024_22145) - 5162284..5163198 (-) 915 WP_024663208.1 DUF4868 domain-containing protein -
  N024_RS22150 (N024_22150) - 5163201..5163782 (-) 582 WP_024663207.1 hypothetical protein -
  N024_RS22155 (N024_22155) - 5164056..5164439 (-) 384 WP_024663206.1 hypothetical protein -
  N024_RS22160 (N024_22160) - 5164552..5164785 (-) 234 WP_050587576.1 hypothetical protein -
  N024_RS22165 (N024_22165) - 5164897..5165337 (-) 441 WP_024663204.1 VPA1267 family protein -
  N024_RS22170 (N024_22170) - 5165337..5165750 (-) 414 WP_024663203.1 hypothetical protein -
  N024_RS22175 (N024_22175) - 5165754..5167769 (-) 2016 WP_024663202.1 integrase -
  N024_RS22180 (N024_22180) - 5167762..5169282 (-) 1521 WP_032631574.1 site-specific integrase -
  N024_RS22185 (N024_22185) - 5169269..5170489 (-) 1221 WP_024663200.1 site-specific integrase -
  N024_RS22190 (N024_22190) ssb 5170633..5171196 (-) 564 WP_002555458.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 187 a.a.        Molecular weight: 20804.92 Da        Isoelectric Point: 5.9404

>NTDB_id=843076 N024_RS22190 WP_002555458.1 5170633..5171196(-) (ssb) [Pseudomonas syringae CC457]
MARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVEKTEWHRVSMFGKVAEIAGEYLRKGSQVYIE
GKLQTREWEKDGIKRYTTEIVVDMQGTMQLLGGRPQGDSQQGQGGGNYNQSAPRPQQSRPQQSAPQQSAPQQNYNQQPPQ
RDSRPAPQQQAPQPAADFDSFDDDIPF

Nucleotide


Download         Length: 564 bp        

>NTDB_id=843076 N024_RS22190 WP_002555458.1 5170633..5171196(-) (ssb) [Pseudomonas syringae CC457]
ATGGCCCGTGGGGTTAACAAAGTCATATTGGTCGGTACATGCGGCCAGGATCCCGAAGTTCGCTACTTGCCTAACGGTAA
CGCCGTGACCAACCTGAGTCTGGCAACCAGCGAACAGTGGACTGACAAGCAGTCCGGTCAGAAAGTCGAAAAGACCGAAT
GGCACCGTGTATCGATGTTCGGCAAAGTCGCCGAAATTGCTGGCGAATACCTGCGCAAGGGTTCGCAGGTGTACATCGAA
GGCAAGCTGCAGACCCGCGAGTGGGAAAAAGACGGCATCAAGCGCTACACCACTGAAATCGTCGTCGACATGCAGGGCAC
CATGCAACTGCTGGGCGGCCGTCCTCAGGGCGACTCCCAACAAGGTCAGGGCGGCGGCAACTACAACCAGTCCGCACCGC
GTCCACAGCAGTCGCGCCCACAACAATCGGCGCCGCAGCAGTCCGCACCTCAGCAGAACTACAACCAGCAGCCGCCACAA
CGCGACTCGCGCCCAGCGCCGCAACAACAAGCGCCGCAGCCAGCTGCTGACTTCGACAGCTTCGATGATGATATTCCGTT
CTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(5-107)


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

54.974

100

0.561
  ssb Glaesserella parasuis strain SC1401

47.09

100

0.476
  ssb Neisseria meningitidis MC58

45.161

99.465

0.449
  ssb Neisseria gonorrhoeae MS11

45.161

99.465

0.449