Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   CKY39_RS02155 Genome accession   NZ_CP023284
Coordinates   473909..474466 (+) Length   185 a.a.
NCBI ID   WP_062480453.1    Uniprot ID   -
Organism   Variovorax boronicumulans strain J1     
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 470126..479369 473909..474466 within 0


Gene organization within MGE regions


Location: 470126..479369
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CKY39_RS02145 (CKY39_02145) - 470126..470614 (+) 489 WP_095743282.1 type II toxin-antitoxin system VapC family toxin -
  CKY39_RS02150 (CKY39_02150) uvrA 470636..473755 (-) 3120 Protein_430 excinuclease ABC subunit UvrA -
  CKY39_RS02155 (CKY39_02155) ssb 473909..474466 (+) 558 WP_062480453.1 single-stranded DNA-binding protein Machinery gene
  CKY39_RS02160 (CKY39_02160) - 474955..476154 (+) 1200 WP_095747403.1 pyridoxal phosphate-dependent aminotransferase -
  CKY39_RS02165 (CKY39_02165) - 476162..476932 (+) 771 WP_157754901.1 2-keto-4-pentenoate hydratase -
  CKY39_RS02170 (CKY39_02170) - 476947..477726 (+) 780 WP_095743284.1 SDR family oxidoreductase -
  CKY39_RS02175 (CKY39_02175) - 477760..478548 (+) 789 WP_062480462.1 ABC transporter ATP-binding protein -
  CKY39_RS34670 - 478582..478707 (+) 126 WP_276307468.1 hypothetical protein -
  CKY39_RS02180 (CKY39_02180) - 478662..479369 (+) 708 WP_157754902.1 transporter substrate-binding domain-containing protein -

Sequence

Protein


Download         Length: 185 a.a.        Molecular weight: 19424.33 Da        Isoelectric Point: 5.9554

>NTDB_id=245723 CKY39_RS02155 WP_062480453.1 473909..474466(+) (ssb) [Variovorax boronicumulans strain J1]
MASVNKVIVVGNLGRDPEMRTFPSGDQVANVTVATTDRWKDKQSGEMREATEWHRIVFNGRLAEIAGQYLRKGSQVYVEG
SLRTRKWTDKDGIEKYTTEIRADQMQMLGSRQGQGGPSGGPEDDGGYSQGGGGGGGYSQGGGGGGGGGYAPRAPAAAPRA
PAPAPRQAPAKSSSGFDDMDDDIPF

Nucleotide


Download         Length: 558 bp        

>NTDB_id=245723 CKY39_RS02155 WP_062480453.1 473909..474466(+) (ssb) [Variovorax boronicumulans strain J1]
ATGGCATCGGTCAATAAAGTCATCGTCGTCGGCAACCTGGGGCGCGACCCCGAAATGCGGACCTTCCCGAGCGGCGATCA
GGTCGCAAACGTCACCGTGGCCACCACCGATCGCTGGAAAGACAAGCAAAGCGGTGAGATGCGCGAAGCCACCGAATGGC
ACCGCATCGTGTTCAACGGCCGCCTGGCCGAAATCGCCGGCCAGTACCTGCGCAAGGGCTCGCAGGTGTACGTCGAAGGC
TCGCTGCGCACGCGCAAGTGGACCGACAAGGACGGCATCGAAAAGTACACCACCGAAATCCGCGCCGACCAGATGCAAAT
GCTGGGCAGCCGCCAGGGCCAGGGCGGCCCGTCGGGCGGTCCGGAAGACGACGGCGGCTACTCGCAAGGCGGGGGCGGCG
GCGGTGGTTACTCGCAAGGTGGTGGTGGTGGCGGCGGTGGCGGTTACGCCCCGCGTGCTCCCGCAGCCGCACCGCGTGCC
CCGGCACCGGCGCCGCGCCAGGCGCCGGCCAAGTCGTCGTCGGGCTTCGACGACATGGATGACGACATTCCGTTCTGA

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

52.85

100

0.551
  ssb Vibrio cholerae strain A1552

46.429

100

0.492
  ssb Neisseria gonorrhoeae MS11

45.902

98.919

0.454
  ssb Neisseria meningitidis MC58

44.262

98.919

0.438

Multiple sequence alignment