Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   P7644_RS04620 Genome accession   NZ_CP126238
Coordinates   993022..994761 (-) Length   579 a.a.
NCBI ID   WP_404301876.1    Uniprot ID   -
Organism   Alicycliphilus denitrificans strain Ylb10     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 988022..999761
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  P7644_RS04590 (P7644_04575) - 988749..989186 (+) 438 WP_404301870.1 NUDIX domain-containing protein -
  P7644_RS04595 (P7644_04580) - 989250..989471 (-) 222 WP_404303116.1 DNA gyrase inhibitor YacG -
  P7644_RS04600 (P7644_04585) zapD 989480..990235 (-) 756 WP_404301871.1 cell division protein ZapD -
  P7644_RS04605 (P7644_04590) coaE 990263..990898 (-) 636 WP_404301872.1 dephospho-CoA kinase -
  P7644_RS04610 (P7644_04595) pilD 990899..991783 (-) 885 WP_404301873.1 prepilin peptidase Machinery gene
  P7644_RS04615 (P7644_04600) pilC 991783..993000 (-) 1218 WP_404301874.1 type II secretion system F family protein Machinery gene
  P7644_RS04620 (P7644_04605) pilF 993022..994761 (-) 1740 WP_404301876.1 type IV-A pilus assembly ATPase PilB Machinery gene
  P7644_RS04625 (P7644_04610) - 994907..995131 (-) 225 WP_404301877.1 twin transmembrane helix small protein -
  P7644_RS04630 (P7644_04615) - 995147..995911 (+) 765 WP_404301878.1 SURF1 family protein -
  P7644_RS04635 (P7644_04620) - 995853..996551 (+) 699 WP_404301879.1 hypothetical protein -
  P7644_RS04640 (P7644_04625) - 996548..997723 (+) 1176 WP_404301881.1 heme A synthase -
  P7644_RS04645 (P7644_04630) cyoE 997720..998664 (+) 945 WP_404301882.1 heme o synthase -
  P7644_RS04650 (P7644_04635) - 998674..999285 (+) 612 WP_404301883.1 SCO family protein -

Sequence

Protein


Download         Length: 579 a.a.        Molecular weight: 63678.00 Da        Isoelectric Point: 6.1024

>NTDB_id=837230 P7644_RS04620 WP_404301876.1 993022..994761(-) (pilF) [Alicycliphilus denitrificans strain Ylb10]
MVTADSTQKAAQPVALPGLARALMSVGKLNQKTAEEIYKKSQSARSSFIAELIGTNVVTSNDLAHTLSSIFGAPLLDVDA
LDRGRLPQGLLDQKLCQAYHVVVLSKRNNRLIVATADPTNQEAAEKIKFTTQMGVDWIIAEYDKLIHLVDATAKKNRETL
DSIVDDGDFEFGDISIEEAAEDNSESATNEVEDAPVVRFLHKMLLDAFNMRASDLHFEPYEHNYRVRFRIDGELREIVSP
PIAIKDKLASRIKVISRLDISEKRVPQDGRMKLKVGADRVIDFRVSTLPTLFGEKIVIRILDPSSAKMGIDALGYEPEEK
ERLLRAISRPYGMILVTGPTGSGKTVSLYTCLNLLNKPGVNIATAEDPSEINLPGVNQVNVNEKAGLTFATALKAFLRQD
PDIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCPQCKAPADI
PRGNLLEAGYREEEIDGSWVTYRPVGCSACNNGYKGRLGIYQVMPVSEEIQRIILRDGSALDIAEQARREGVRTLREAGL
HKAKMGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1740 bp        

>NTDB_id=837230 P7644_RS04620 WP_404301876.1 993022..994761(-) (pilF) [Alicycliphilus denitrificans strain Ylb10]
ATGGTCACCGCAGACAGCACACAGAAAGCCGCTCAACCCGTTGCCTTGCCGGGTTTGGCTCGGGCATTAATGTCTGTGGG
CAAGCTGAATCAGAAAACCGCCGAAGAAATTTACAAAAAATCACAATCCGCGCGTTCCAGTTTCATTGCCGAATTGATCG
GAACCAATGTAGTCACCTCCAACGATCTGGCCCACACGCTGTCCTCCATCTTTGGTGCGCCACTGCTGGATGTCGATGCG
CTGGATCGTGGGCGCCTGCCTCAGGGTTTGCTGGATCAGAAGCTGTGCCAGGCCTACCATGTGGTTGTTCTGAGCAAACG
CAACAATCGCCTGATCGTCGCCACGGCCGACCCCACGAACCAGGAGGCGGCGGAAAAGATCAAGTTCACAACGCAAATGG
GCGTGGACTGGATCATTGCGGAATACGACAAGCTGATTCATTTGGTGGATGCCACCGCCAAAAAAAACCGCGAAACCCTG
GACAGCATTGTCGATGATGGGGATTTTGAATTTGGCGATATTTCCATCGAGGAAGCCGCCGAAGACAACTCGGAATCCGC
AACGAATGAGGTAGAAGACGCCCCGGTCGTCAGGTTTTTGCACAAGATGCTGCTGGATGCATTCAACATGCGTGCATCCG
ACCTGCATTTTGAACCTTATGAGCATAACTACCGTGTGCGTTTTCGCATTGACGGGGAGCTGCGTGAAATCGTATCTCCG
CCGATTGCCATCAAGGACAAGCTGGCTTCGCGCATCAAGGTGATTTCCCGTCTGGATATATCGGAAAAACGCGTACCCCA
GGACGGACGCATGAAACTCAAGGTGGGGGCCGATCGCGTCATTGATTTTCGCGTCAGCACACTGCCCACGCTGTTTGGCG
AAAAAATCGTGATCCGCATCTTGGATCCAAGCAGCGCCAAAATGGGTATCGATGCCCTCGGCTACGAGCCAGAAGAAAAG
GAACGCCTGCTGCGCGCCATCAGCCGGCCCTACGGCATGATTTTGGTGACCGGCCCCACGGGCTCAGGAAAAACCGTCTC
GCTCTACACCTGCCTGAACCTGCTCAACAAGCCGGGCGTGAATATCGCCACGGCCGAAGACCCGTCGGAAATCAACCTGC
CGGGCGTGAATCAGGTGAACGTCAATGAAAAGGCGGGCTTGACATTTGCCACCGCCCTGAAAGCCTTTCTACGCCAGGAT
CCGGACATCATCATGGTGGGTGAAATCCGCGACCTGGAAACCGCCGATATTTCCATCAAGGCCGCCCAGACGGGTCACCT
GGTGCTGTCCACGCTGCACACCAATGACGCGCCCACCACTCTCACGCGCATGCGCAACATGGGCATCGCGCCCTTCAACA
TCGCCTCCAGCGTGATCTTGATCACCGCCCAGCGCTTGGCGCGCAGGCTCTGCCCGCAATGCAAGGCGCCCGCCGACATA
CCGCGTGGGAACTTGCTGGAGGCTGGCTACCGGGAGGAGGAGATCGACGGCTCCTGGGTGACCTACCGGCCCGTGGGCTG
CTCCGCCTGCAACAATGGTTACAAGGGCCGGCTTGGCATCTACCAGGTGATGCCGGTTTCCGAAGAAATCCAGCGCATCA
TCCTGCGCGACGGCAGTGCCCTGGACATTGCCGAGCAGGCACGTCGCGAAGGTGTGCGCACGCTGCGCGAGGCAGGCCTG
CACAAGGCCAAGATGGGCCTGACCTCTTTGGAAGAGGTTTTGGCCGTGACCAACGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(202-469)

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

(56-150)


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

52.743

97.582

0.515
  pilB Acinetobacter baylyi ADP1

51.742

99.136

0.513
  pilB Acinetobacter baumannii D1279779

52.482

97.409

0.511
  pilB Legionella pneumophila strain ERS1305867

49.037

98.618

0.484
  pilB Vibrio parahaemolyticus RIMD 2210633

45.503

97.927

0.446
  pilB Vibrio cholerae strain A1552

45.246

98.1

0.444
  pilB Vibrio campbellii strain DS40M4

44.737

98.446

0.44
  pilF Thermus thermophilus HB27

39.652

99.309

0.394