Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   VARPA_RS01995 Genome accession   NC_014931
Coordinates   426802..427371 (+) Length   189 a.a.
NCBI ID   WP_041942737.1    Uniprot ID   -
Organism   Variovorax paradoxus EPS     
Function   ssDNA binding (predicted from homology)   
DNA processing

Genomic Context

Location: 421802..432371
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VARPA_RS01980 (Varpa_0395) - 421829..422590 (+) 762 WP_013538863.1 GntR family transcriptional regulator -
  VARPA_RS01985 (Varpa_0396) - 422604..423497 (-) 894 WP_013538864.1 DMT family transporter -
  VARPA_RS01990 (Varpa_0397) uvrA 423513..426629 (-) 3117 WP_013538865.1 excinuclease ABC subunit UvrA -
  VARPA_RS01995 (Varpa_0398) ssb 426802..427371 (+) 570 WP_041942737.1 single-stranded DNA-binding protein Machinery gene
  VARPA_RS02000 (Varpa_0399) - 427491..429479 (+) 1989 WP_013538867.1 sensor histidine kinase -
  VARPA_RS02005 (Varpa_0400) - 429489..429917 (-) 429 WP_013538868.1 GFA family protein -
  VARPA_RS02010 (Varpa_0401) - 429945..430658 (-) 714 WP_013538869.1 YebC/PmpR family DNA-binding transcriptional regulator -
  VARPA_RS02015 (Varpa_0402) - 430787..431632 (+) 846 WP_013538870.1 isocitrate lyase/PEP mutase family protein -

Sequence

Protein


Download         Length: 189 a.a.        Molecular weight: 19713.58 Da        Isoelectric Point: 5.9554

>NTDB_id=39541 VARPA_RS01995 WP_041942737.1 426802..427371(+) (ssb) [Variovorax paradoxus EPS]
MASVNKVIVVGNLGRDPEMRTFPSGDQVANVTVATTDRWKDKQSGEMREATEWHRIVFNGRLAEIAGQYLRKGSQVYVEG
SLRTRKWTDKDGIEKYTTEIRADQMQMLGSRQGQGGPSGGPEDDGGYSQGGGGGGYSQGGNGGGGGGGGGGGYAPRAPAA
APRAPSAAPRQAPAKSSTGFDDMDDDIPF

Nucleotide


Download         Length: 570 bp        

>NTDB_id=39541 VARPA_RS01995 WP_041942737.1 426802..427371(+) (ssb) [Variovorax paradoxus EPS]
ATGGCATCGGTCAATAAAGTCATCGTCGTCGGCAATCTGGGGCGCGACCCCGAAATGCGTACCTTCCCGAGCGGCGACCA
GGTCGCAAACGTCACAGTGGCCACCACCGATCGCTGGAAAGACAAGCAAAGCGGCGAAATGCGCGAAGCCACCGAATGGC
ACCGCATCGTCTTCAACGGCCGCCTGGCCGAAATCGCCGGCCAGTACCTGCGCAAGGGCTCGCAGGTGTATGTCGAAGGC
TCGCTGCGCACGCGCAAGTGGACCGACAAGGACGGCATCGAGAAATACACCACCGAAATCCGCGCCGACCAGATGCAGAT
GCTGGGCAGCCGCCAGGGCCAGGGCGGCCCGTCGGGCGGTCCGGAAGACGACGGCGGGTATTCGCAAGGCGGCGGCGGTG
GTGGCTACTCGCAGGGTGGCAATGGCGGCGGCGGCGGCGGCGGTGGTGGTGGTGGCTACGCTCCCCGCGCTCCGGCTGCG
GCACCCCGGGCACCTTCGGCTGCTCCGCGCCAGGCACCGGCCAAGTCGTCGACGGGCTTCGACGACATGGATGACGACAT
CCCGTTCTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(4-108)


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 Glaesserella parasuis strain SC1401

52.02

100

0.545
  ssb Vibrio cholerae strain A1552

46.193

100

0.481
  ssb Neisseria meningitidis MC58

44.149

99.471

0.439
  ssb Neisseria gonorrhoeae MS11

44.385

98.942

0.439

Multiple sequence alignment