Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   ACFGDV_RS06050 Genome accession   NZ_CP176528
Coordinates   1254128..1254580 (+) Length   150 a.a.
NCBI ID   WP_136418399.1    Uniprot ID   -
Organism   Noviherbaspirillum sp. ST 5-3     
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)
Prophage 1243938..1254580 1254128..1254580 within 0


Gene organization within MGE regions


Location: 1243938..1254580
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACFGDV_RS06015 trxA 1243938..1244264 (-) 327 WP_136418393.1 thioredoxin TrxA -
  ACFGDV_RS06020 - 1244578..1247280 (+) 2703 WP_136418394.1 PD-(D/E)XK nuclease family protein -
  ACFGDV_RS06025 - 1247280..1250573 (+) 3294 WP_211097358.1 UvrD-helicase domain-containing protein -
  ACFGDV_RS06030 - 1251157..1251570 (-) 414 WP_136418395.1 hypothetical protein -
  ACFGDV_RS06035 - 1251849..1252478 (+) 630 WP_136418396.1 hypothetical protein -
  ACFGDV_RS06040 - 1252682..1253602 (+) 921 WP_136418397.1 ATP-binding protein -
  ACFGDV_RS06045 - 1253599..1254105 (+) 507 WP_136418398.1 siphovirus Gp157 family protein -
  ACFGDV_RS06050 ssb 1254128..1254580 (+) 453 WP_136418399.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 150 a.a.        Molecular weight: 16948.99 Da        Isoelectric Point: 6.4962

>NTDB_id=1080718 ACFGDV_RS06050 WP_136418399.1 1254128..1254580(+) (ssb) [Noviherbaspirillum sp. ST 5-3]
MATLNKVTLIGYLGHDPEMRTTMGGDAVAHLALATTETWKDKASGEKKQATEWHRIVLYRKLAEIAGQYLKKGSHVYVEG
RLQTRKWTGKDDVDRYVTEIIADDMRMLGARPSNHESDEETHVDGKAATTSQQARPQPARYEYEDDAIPF

Nucleotide


Download         Length: 453 bp        

>NTDB_id=1080718 ACFGDV_RS06050 WP_136418399.1 1254128..1254580(+) (ssb) [Noviherbaspirillum sp. ST 5-3]
ATGGCTACACTGAACAAAGTGACTCTGATCGGATATCTCGGACACGATCCCGAAATGCGCACCACGATGGGCGGTGACGC
GGTCGCGCATCTTGCGCTCGCCACCACCGAGACATGGAAGGACAAGGCCAGCGGCGAAAAGAAACAGGCGACGGAATGGC
ATCGCATCGTGCTGTATCGGAAGCTCGCCGAAATCGCCGGCCAGTATCTGAAAAAAGGATCGCACGTCTATGTCGAAGGG
CGCTTGCAGACGCGCAAGTGGACCGGCAAGGATGATGTGGATCGTTACGTGACGGAGATCATTGCGGACGACATGCGCAT
GCTTGGCGCGCGGCCTTCCAACCATGAGTCCGACGAAGAAACGCATGTTGACGGCAAGGCGGCCACCACGTCGCAACAGG
CACGGCCGCAGCCTGCGCGCTATGAATACGAGGATGACGCGATTCCATTCTAG

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 Vibrio cholerae strain A1552

45.349

100

0.52
  ssb Glaesserella parasuis strain SC1401

42.778

100

0.513
  ssb Neisseria meningitidis MC58

43.678

100

0.507
  ssb Neisseria gonorrhoeae MS11

43.103

100

0.5

Multiple sequence alignment