Detailed information    

insolico Bioinformatically predicted

Overview

Name   comF   Type   Machinery gene
Locus tag   IF561_RS12425 Genome accession   NZ_CP062150
Coordinates   2640003..2640728 (+) Length   241 a.a.
NCBI ID   WP_025789354.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 19-VB00998     
Function   ssDNA transport into the cell (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2635003..2645728
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IF561_RS12410 (IF561_12400) - 2636106..2638427 (+) 2322 WP_264400838.1 Tex family protein -
  IF561_RS12415 (IF561_12405) - 2638563..2639027 (-) 465 WP_025789355.1 hypothetical protein -
  IF561_RS12420 (IF561_12410) bioH 2639151..2639918 (-) 768 WP_029785475.1 pimeloyl-ACP methyl ester esterase BioH -
  IF561_RS12425 (IF561_12415) comF 2640003..2640728 (+) 726 WP_025789354.1 amidophosphoribosyltransferase Machinery gene
  IF561_RS12430 (IF561_12420) nfuA 2640826..2641410 (+) 585 WP_005458964.1 Fe-S biogenesis protein NfuA -
  IF561_RS12435 (IF561_12425) nudE 2641631..2642200 (+) 570 WP_005459019.1 ADP compounds hydrolase NudE -
  IF561_RS12440 (IF561_12430) cysQ 2642241..2643068 (+) 828 WP_025789353.1 3'(2'),5'-bisphosphate nucleotidase CysQ -
  IF561_RS12445 (IF561_12435) - 2643355..2644116 (-) 762 WP_005496730.1 type II secretion system protein N -
  IF561_RS12450 (IF561_12440) - 2644118..2644609 (-) 492 WP_005458943.1 type II secretion system protein M -

Sequence

Protein


Download         Length: 241 a.a.        Molecular weight: 27671.86 Da        Isoelectric Point: 9.1800

>NTDB_id=486458 IF561_RS12425 WP_025789354.1 2640003..2640728(+) (comF) [Vibrio parahaemolyticus strain 19-VB00998]
MLSHHWQNIMHRVLSSQCGLCRFPIQATAQPNALRWCDHCYQYLTPVKRCQRCGLSLKAEEANIESICGECLSEPPPWQR
LFTLGDYDFPLSREVQRFKDHGQTWHIRALTQLLAQRISTPAPLITTVPLHWQRYLYRGFNQSNILARHLAGHLNVRFDN
HVFRRVKHAQSQRGNKKSSRELNLKGAFTLNQPPKYNHVAIVDDVVTTGSTVRQLCHLLLEVGVETVDIYCICRTPAPGA
I

Nucleotide


Download         Length: 726 bp        

>NTDB_id=486458 IF561_RS12425 WP_025789354.1 2640003..2640728(+) (comF) [Vibrio parahaemolyticus strain 19-VB00998]
ATGTTATCTCATCACTGGCAAAACATCATGCATCGTGTGCTCAGCAGTCAATGCGGTTTATGTCGCTTCCCGATTCAGGC
TACCGCTCAACCCAATGCGCTGCGTTGGTGTGATCACTGTTATCAATATCTTACGCCAGTAAAACGCTGCCAACGTTGTG
GATTGAGCTTAAAAGCAGAGGAAGCGAATATAGAGAGTATTTGCGGCGAGTGCCTCTCCGAGCCTCCACCGTGGCAACGG
CTATTTACCTTGGGAGACTACGATTTTCCGCTGTCTCGAGAAGTACAACGCTTCAAAGATCACGGACAAACATGGCATAT
TCGCGCTTTAACGCAATTGCTTGCCCAGCGCATTTCAACTCCCGCTCCGCTTATCACCACAGTGCCATTGCACTGGCAAC
GCTATTTGTATCGAGGCTTTAATCAGAGCAACATACTGGCGCGACATTTGGCTGGCCACCTTAATGTGAGGTTTGATAAT
CACGTGTTTCGCCGCGTAAAACACGCCCAGTCGCAGCGCGGGAACAAGAAATCCAGCCGAGAACTGAATTTAAAAGGCGC
TTTCACCTTAAATCAGCCACCAAAGTATAACCACGTCGCAATCGTAGATGATGTGGTCACGACGGGAAGCACGGTTCGAC
AATTATGTCATTTACTACTTGAAGTTGGCGTAGAAACCGTCGATATTTACTGCATCTGCAGAACCCCTGCTCCTGGTGCT
ATCTAG

Domains

Predicted by InterproScan.

Phosphoribosyl transferase domain (Pribosyltran)

(145-237)


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
  comF Vibrio campbellii strain DS40M4

71.784

100

0.718
  comF Vibrio cholerae strain A1552

48.739

98.755

0.481