Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   RAM23_RS02390 Genome accession   NZ_CP132374
Coordinates   566663..568342 (-) Length   559 a.a.
NCBI ID   WP_100125700.1    Uniprot ID   -
Organism   Snodgrassella alvi strain wkB339     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 561663..573342
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RAM23_RS02360 (RAM23_02355) - 561991..562911 (-) 921 WP_025329858.1 ABC transporter ATP-binding protein -
  RAM23_RS02365 (RAM23_02360) yacG 562958..563155 (-) 198 WP_078475027.1 DNA gyrase inhibitor YacG -
  RAM23_RS02370 (RAM23_02365) zapD 563155..563907 (-) 753 WP_025329860.1 cell division protein ZapD -
  RAM23_RS02375 (RAM23_02370) coaE 563913..564527 (-) 615 WP_078475026.1 dephospho-CoA kinase -
  RAM23_RS02380 (RAM23_02375) pilD 564524..565375 (-) 852 WP_078475025.1 A24 family peptidase Machinery gene
  RAM23_RS02385 (RAM23_02380) pilG 565382..566614 (-) 1233 WP_100125701.1 type II secretion system F family protein Machinery gene
  RAM23_RS02390 (RAM23_02385) pilF 566663..568342 (-) 1680 WP_100125700.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RAM23_RS02395 (RAM23_02390) recJ 568543..570240 (-) 1698 WP_100125699.1 single-stranded-DNA-specific exonuclease RecJ -
  RAM23_RS02400 (RAM23_02395) - 570237..571211 (-) 975 WP_100125698.1 hypothetical protein -
  RAM23_RS02405 (RAM23_02400) - 571317..571853 (-) 537 WP_180296336.1 tyrosine-protein phosphatase -

Sequence

Protein


Download         Length: 559 a.a.        Molecular weight: 61888.39 Da        Isoelectric Point: 5.7531

>NTDB_id=868734 RAM23_RS02390 WP_100125700.1 566663..568342(-) (pilF) [Snodgrassella alvi strain wkB339]
MSLGLIRVLYKHQIIDAEKAEKLRQELEQKHPVIPALLQSGAISADKLASFLSGVFGIPYLNLEPYNQNLVPLDLINLKI
MQQYICVPLFKRGNRLFLAVSDPTSIQHYQKIATDAGCVLNLVIVRDSQLRQLLENLGQESTTLLEDMDSIGDSSAVENN
AMSADDEDGENGPIAKFVFKILGDALNSGASDIHFEFYEEMARVRFRVDGQLREVVRMPLNIRSQIASRIKVMAKLDISE
KRIPQDGRIQIQFRKGAKPIDFRVSTLPTLFGEKIVMRILNSDAASLNIEQLGFEPFQKELLLEAIHRPYGMVLVTGPTG
SGKTVSLYTCLNILNTDSVNISTAEDPAEINLPGINQVNVNDKQGLTFAAALKSFLRQDPDIIMVGEIRDLETADIAIKA
AQTGHMVFSTLHTNNAPATLSRMLNMGVAPFNIASSVNLIMAQRLVRRLCTCKAPAERPPEFALKKAGFSDEDLAKEWTF
YRPVGCERCKGKGYKGRAGVYEVMPVSDEMQRIIMNNGNEVDISTQALKEGLVDLRHAGLLKVMEGITSLDEILASTND

Nucleotide


Download         Length: 1680 bp        

>NTDB_id=868734 RAM23_RS02390 WP_100125700.1 566663..568342(-) (pilF) [Snodgrassella alvi strain wkB339]
ATGAGTCTTGGACTGATCAGGGTTTTATATAAGCACCAGATTATTGACGCAGAAAAAGCAGAAAAGCTGCGTCAGGAACT
GGAACAGAAACATCCGGTTATACCGGCATTACTACAATCTGGAGCCATCAGTGCTGATAAACTGGCCAGCTTTCTGTCCG
GTGTATTCGGTATTCCTTACCTGAATCTGGAGCCATATAACCAAAATCTGGTACCGTTGGATCTAATTAATCTGAAAATT
ATGCAGCAATACATTTGCGTGCCGCTATTCAAGCGCGGTAATCGACTGTTTTTAGCTGTATCTGATCCTACATCAATTCA
GCATTACCAGAAAATTGCCACAGATGCCGGCTGCGTACTGAATCTGGTTATAGTCCGCGATAGTCAGTTACGCCAATTAC
TGGAAAATCTTGGTCAGGAATCCACCACCCTTCTGGAAGATATGGATTCAATTGGTGACTCCAGTGCTGTAGAAAATAAC
GCCATGTCTGCAGATGACGAAGATGGCGAAAATGGACCAATTGCAAAATTTGTTTTTAAAATACTAGGTGATGCATTAAA
TAGCGGCGCATCAGATATCCATTTTGAATTTTATGAAGAAATGGCACGAGTACGCTTTCGCGTTGACGGACAGTTGCGTG
AAGTGGTACGTATGCCACTGAATATTCGCAGCCAGATCGCTTCACGTATTAAAGTGATGGCCAAACTGGATATTTCAGAA
AAACGTATTCCTCAGGACGGACGTATTCAGATTCAGTTCCGTAAAGGTGCCAAGCCAATTGATTTCCGTGTCAGCACACT
GCCCACTCTGTTTGGGGAAAAAATCGTAATGCGTATCCTGAATTCGGATGCGGCTAGTCTGAATATTGAACAACTTGGTT
TTGAGCCATTTCAGAAAGAATTACTGCTTGAGGCCATCCACCGGCCATACGGTATGGTGCTGGTTACCGGCCCTACCGGT
TCCGGTAAAACCGTATCACTGTATACCTGCCTTAATATTCTTAATACCGACAGTGTTAACATTTCCACTGCTGAAGACCC
TGCTGAAATTAATCTGCCCGGTATTAATCAGGTAAATGTTAATGATAAACAAGGACTGACATTTGCTGCAGCGTTAAAAT
CGTTTCTGCGTCAGGATCCGGATATCATTATGGTGGGGGAAATCCGAGATCTGGAAACCGCGGATATTGCCATTAAAGCT
GCACAAACCGGCCATATGGTATTTTCAACTCTGCATACCAATAATGCCCCGGCTACATTATCCCGTATGCTGAATATGGG
CGTTGCTCCATTTAATATTGCCAGCTCAGTAAATCTGATTATGGCACAACGTCTGGTGCGGCGTTTATGTACTTGCAAGG
CACCGGCAGAGCGTCCGCCTGAATTTGCACTGAAAAAAGCAGGTTTTTCAGATGAAGATCTCGCCAAAGAATGGACATTC
TACCGGCCAGTAGGTTGTGAAAGGTGTAAGGGTAAAGGTTATAAAGGACGCGCCGGCGTATATGAAGTTATGCCGGTCAG
TGATGAAATGCAACGTATTATCATGAATAATGGTAATGAAGTTGATATCAGCACTCAGGCGCTCAAGGAAGGTCTGGTCG
ATTTACGCCATGCCGGTTTACTGAAAGTCATGGAAGGCATAACGTCTCTGGACGAGATTCTTGCTAGCACTAATGATTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(37-140)

Type II/IV secretion system protein (T2SSE)

(180-448)


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
  pilF Neisseria gonorrhoeae MS11

68.036

100

0.682
  pilB Acinetobacter baylyi ADP1

51.779

100

0.521
  pilB Legionella pneumophila strain ERS1305867

49.385

100

0.503
  pilB Acinetobacter baumannii D1279779

52.741

94.633

0.499
  pilB Vibrio campbellii strain DS40M4

44.405

100

0.447
  pilB Vibrio cholerae strain A1552

44.563

100

0.447
  pilB Vibrio parahaemolyticus RIMD 2210633

43.993

100

0.445
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.678

94.991

0.386
  pilF Thermus thermophilus HB27

40.112

95.886

0.385