Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   C3F42_RS14550 Genome accession   NZ_CP026386
Coordinates   3142725..3143273 (-) Length   182 a.a.
NCBI ID   WP_023629920.1    Uniprot ID   -
Organism   Pseudomonas sp. PONIH3     
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)
IScluster/Tn 3136179..3142115 3142725..3143273 flank 610


Gene organization within MGE regions


Location: 3136179..3143273
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C3F42_RS14520 (C3F42_14520) - 3136179..3137207 (+) 1029 WP_100774681.1 IS30 family transposase -
  C3F42_RS29930 - 3137295..3137807 (-) 513 WP_256586306.1 hypothetical protein -
  C3F42_RS29935 - 3137844..3138857 (-) 1014 WP_256586307.1 hypothetical protein -
  C3F42_RS14530 (C3F42_14530) - 3138850..3139725 (-) 876 Protein_2894 tyrosine-type recombinase/integrase -
  C3F42_RS14535 (C3F42_14535) istA 3139858..3141378 (+) 1521 WP_081273177.1 IS21 family transposase -
  C3F42_RS14540 (C3F42_14540) istB 3141375..3142115 (+) 741 WP_064491510.1 IS21-like element helper ATPase IstB -
  C3F42_RS14545 (C3F42_14545) - 3142176..3142592 (-) 417 Protein_2897 site-specific integrase -
  C3F42_RS14550 (C3F42_14550) ssb 3142725..3143273 (-) 549 WP_023629920.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 182 a.a.        Molecular weight: 20221.27 Da        Isoelectric Point: 5.9286

>NTDB_id=269049 C3F42_RS14550 WP_023629920.1 3142725..3143273(-) (ssb) [Pseudomonas sp. PONIH3]
MARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQCYIE
GKLQTREWEKDGIKRYTTEIIVDINGTMQLLGGRPQGQQGGGDQYNQGGGNNYNQGGQQQQYNQAPRQQAQRPQQAPQRP
APQQPAPQPAADFDSFDDDIPF

Nucleotide


Download         Length: 549 bp        

>NTDB_id=269049 C3F42_RS14550 WP_023629920.1 3142725..3143273(-) (ssb) [Pseudomonas sp. PONIH3]
ATGGCCCGTGGGGTTAACAAAGTCATTCTGGTCGGTACCTGCGGTCAGGATCCCGAAGTCCGCTACCTGCCCAACGGTAA
CGCCGTGACCAACCTGAGCCTGGCCACCAGCGAGCAGTGGACCGACAAGCAGTCGGGCCAGAAGGTCGAGCGCACCGAGT
GGCACCGTGTCTCGCTGTTCGGCAAGGTCGCCGAAATCGCCGGCGAATACCTGCGCAAGGGTTCGCAGTGCTACATCGAG
GGCAAGCTGCAGACCCGCGAGTGGGAAAAGGACGGCATCAAGCGCTACACCACCGAGATCATCGTCGACATCAACGGCAC
CATGCAGCTGCTCGGCGGTCGTCCGCAGGGCCAGCAGGGCGGTGGCGACCAGTACAACCAGGGTGGTGGCAACAACTACA
ACCAGGGCGGTCAGCAGCAACAGTACAACCAGGCTCCGCGTCAGCAGGCCCAGCGCCCGCAACAAGCGCCGCAGCGCCCA
GCGCCGCAACAGCCGGCTCCGCAGCCTGCCGCTGACTTCGACAGCTTCGACGACGATATTCCGTTCTGA

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

55.738

100

0.56
  ssb Glaesserella parasuis strain SC1401

50.267

100

0.516
  ssb Neisseria gonorrhoeae MS11

48.108

100

0.489
  ssb Neisseria meningitidis MC58

48.108

100

0.489

Multiple sequence alignment