Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   RAM05_RS02625 Genome accession   NZ_CP132375
Coordinates   603515..605194 (-) Length   559 a.a.
NCBI ID   WP_025329864.1    Uniprot ID   -
Organism   Snodgrassella alvi strain wkB9     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 598515..610194
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RAM05_RS02595 (RAM05_02595) - 598843..599763 (-) 921 WP_025329858.1 ABC transporter ATP-binding protein -
  RAM05_RS02600 (RAM05_02600) yacG 599810..600007 (-) 198 WP_025329859.1 DNA gyrase inhibitor YacG -
  RAM05_RS02605 (RAM05_02605) zapD 600007..600759 (-) 753 WP_025329860.1 cell division protein ZapD -
  RAM05_RS02610 (RAM05_02610) coaE 600765..601379 (-) 615 WP_025329861.1 dephospho-CoA kinase -
  RAM05_RS02615 (RAM05_02615) pilD 601376..602227 (-) 852 WP_025329862.1 A24 family peptidase Machinery gene
  RAM05_RS02620 (RAM05_02620) pilG 602234..603466 (-) 1233 WP_025329863.1 type II secretion system F family protein Machinery gene
  RAM05_RS02625 (RAM05_02625) pilF 603515..605194 (-) 1680 WP_025329864.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RAM05_RS02630 (RAM05_02630) recJ 605396..607093 (-) 1698 WP_025329865.1 single-stranded-DNA-specific exonuclease RecJ -
  RAM05_RS02635 (RAM05_02635) - 607090..608064 (-) 975 WP_025329866.1 hypothetical protein -
  RAM05_RS02640 (RAM05_02640) - 608170..608703 (-) 534 WP_025329867.1 tyrosine-protein phosphatase -

Sequence

Protein


Download         Length: 559 a.a.        Molecular weight: 61890.40 Da        Isoelectric Point: 5.7840

>NTDB_id=868760 RAM05_RS02625 WP_025329864.1 603515..605194(-) (pilF) [Snodgrassella alvi strain wkB9]
MSLGLIRVLYKHQIIDAEKAEKLRQELEQKRPVIPALLQSGAINADKLASFLSGVFGIPYLNLEPYNQSLVPLDLINLKI
MQQYICVPLFKRGNRLFLAVSDPTSIQHYQKIATDAGCVLNLVIVRDSQLRQLLENLGQESTNLLEDMDSIGDSSAVENN
AMSADDEDGENGPIAKFVFKILGDALNSGASDIHFEFYEEMARVRFRVDGQLREVVRMPLNIRGQIASRIKVMAKLDISE
KRIPQDGRIQVQFRKGAKPIDFRVSTLPTLFGEKIVMRILNSDAATLNIEQLGFEPFQKELLLEAIHRPYGMVLVTGPTG
SGKTVSLYTCLNILNTDSVNISTAEDPAEINLPGINQVNVNDKQGLTFAAALKSFLRQDPDIIMVGEIRDLETADIAIKA
AQTGHMVFSTLHTNNAPATLSRMLNMGVAPFNIASSVNLIMAQRLVRRLCTCKAPAERPPEFALKKAGFSDEDLAKEWTF
YRPVGCERCKGKGYKGRAGVYEVMPVSDEMQRIIMNNGNEVDISTQALKEGLVDLRHAGLLKVMEGITSLDEILASTND

Nucleotide


Download         Length: 1680 bp        

>NTDB_id=868760 RAM05_RS02625 WP_025329864.1 603515..605194(-) (pilF) [Snodgrassella alvi strain wkB9]
ATGAGTCTTGGACTGATCAGGGTTTTATATAAGCACCAGATTATTGACGCAGAAAAAGCAGAAAAACTGCGTCAGGAACT
GGAACAAAAACGTCCGGTTATACCGGCACTACTACAATCTGGAGCCATCAATGCTGATAAACTGGCCAGCTTTCTGTCCG
GTGTATTCGGTATTCCTTACCTGAATCTGGAGCCATATAATCAAAGTCTGGTACCGCTGGATTTAATTAATCTGAAAATT
ATGCAGCAATACATTTGCGTGCCGCTATTCAAGCGCGGTAATCGACTGTTTTTGGCTGTATCTGATCCTACATCAATTCA
GCATTACCAGAAAATTGCCACAGATGCCGGCTGCGTACTGAATCTGGTTATAGTCCGCGATAGTCAGTTACGCCAATTAC
TGGAAAATCTTGGTCAGGAATCCACCAACCTTCTAGAAGATATGGATTCAATTGGTGACTCCAGTGCTGTAGAAAATAAC
GCCATGTCTGCAGATGACGAAGATGGCGAAAATGGACCAATTGCAAAATTTGTTTTTAAAATACTAGGTGATGCATTAAA
CAGCGGCGCATCAGATATCCATTTTGAATTTTATGAAGAAATGGCACGAGTACGCTTTCGCGTTGACGGACAGTTGCGTG
AAGTGGTACGTATGCCACTGAATATTCGCGGCCAGATCGCTTCACGTATTAAAGTAATGGCCAAACTGGACATTTCAGAA
AAACGTATTCCTCAGGACGGACGTATTCAGGTTCAGTTCCGTAAAGGTGCCAAGCCGATTGATTTCCGTGTCAGCACACT
GCCCACTCTGTTCGGGGAAAAAATTGTAATGCGTATCCTGAATTCGGATGCGGCTACTCTGAATATTGAACAACTTGGTT
TTGAGCCATTTCAGAAAGAATTACTGCTTGAGGCCATCCACCGGCCATATGGTATGGTGCTGGTTACTGGCCCTACCGGT
TCCGGTAAAACCGTATCACTGTATACCTGCCTTAATATTCTTAATACCGACAGTGTTAACATTTCCACTGCTGAAGACCC
TGCGGAAATTAACCTGCCTGGTATTAACCAGGTAAATGTTAATGATAAACAAGGACTGACATTTGCTGCAGCGTTAAAAT
CATTTCTGCGCCAGGATCCGGATATCATTATGGTGGGGGAAATCCGTGATTTGGAAACCGCAGATATTGCCATTAAAGCT
GCACAAACCGGCCATATGGTATTTTCAACTCTGCATACCAATAATGCCCCTGCTACATTATCCCGTATGCTGAATATGGG
CGTTGCGCCGTTTAATATTGCCAGCTCAGTAAATCTGATTATGGCACAGCGTCTGGTGCGGCGTTTATGTACCTGCAAGG
CACCGGCAGAGCGTCCGCCTGAATTTGCACTGAAAAAAGCAGGTTTTTCAGATGAAGATCTCGCCAAAGAATGGACATTC
TACCGGCCAGTAGGTTGTGAAAGGTGTAAGGGTAAAGGTTATAAAGGACGTGCCGGCGTATATGAAGTTATGCCGGTCAG
TGATGAAATGCAACGTATTATCATGAATAATGGTAATGAAGTTGATATCAGCACTCAGGCGCTCAAGGAAGGGCTAGTTG
ATTTACGCCATGCCGGTTTACTGAAAGTCATGGAAGGCATTACGTCTCTGGACGAGATTCTTGCTAGCACTAATGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(180-448)

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

(37-140)


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

67.857

100

0.68
  pilB Acinetobacter baylyi ADP1

51.601

100

0.519
  pilB Acinetobacter baumannii D1279779

52.741

94.633

0.499
  pilB Legionella pneumophila strain ERS1305867

49.033

100

0.499
  pilB Vibrio cholerae strain A1552

44.92

100

0.451
  pilB Vibrio campbellii strain DS40M4

44.405

100

0.447
  pilB Vibrio parahaemolyticus RIMD 2210633

43.816

100

0.444
  pilF Thermus thermophilus HB27

40.299

95.886

0.386
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.341

94.454

0.381