Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   RAM00_RS02340 Genome accession   NZ_CP132376
Coordinates   560835..562514 (-) Length   559 a.a.
NCBI ID   WP_037392184.1    Uniprot ID   -
Organism   Snodgrassella alvi strain K-FP26     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 555835..567514
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RAM00_RS02310 (RAM00_02305) - 556163..557083 (-) 921 WP_025329858.1 ABC transporter ATP-binding protein -
  RAM00_RS02315 (RAM00_02310) yacG 557130..557327 (-) 198 WP_078475027.1 DNA gyrase inhibitor YacG -
  RAM00_RS02320 (RAM00_02315) zapD 557327..558079 (-) 753 WP_025329860.1 cell division protein ZapD -
  RAM00_RS02325 (RAM00_02320) coaE 558085..558699 (-) 615 WP_078475026.1 dephospho-CoA kinase -
  RAM00_RS02330 (RAM00_02325) pilD 558696..559547 (-) 852 WP_078475025.1 A24 family peptidase Machinery gene
  RAM00_RS02335 (RAM00_02330) pilG 559554..560786 (-) 1233 WP_025329863.1 type II secretion system F family protein Machinery gene
  RAM00_RS02340 (RAM00_02335) pilF 560835..562514 (-) 1680 WP_037392184.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RAM00_RS02345 (RAM00_02340) recJ 562716..564413 (-) 1698 WP_306176224.1 single-stranded-DNA-specific exonuclease RecJ -
  RAM00_RS02350 (RAM00_02345) - 564410..565384 (-) 975 WP_084585189.1 hypothetical protein -
  RAM00_RS02355 (RAM00_02350) - 565488..566090 (-) 603 WP_084585188.1 tyrosine-protein phosphatase -

Sequence

Protein


Download         Length: 559 a.a.        Molecular weight: 61961.48 Da        Isoelectric Point: 5.7840

>NTDB_id=868784 RAM00_RS02340 WP_037392184.1 560835..562514(-) (pilF) [Snodgrassella alvi strain K-FP26]
MSLGLIRVLYKHQIIDAEKAEKLRQELEQKRPVIPALLQSGAINADKLASFLSGVFGIPYLNLEPYNQSLVPLDLINLKI
MQQYICVPLFKRGNRLFLAVSDPTSIQHYQKIATDAGCVLNLVIVRDSQLRQLLENLGQESTNLLEDMDSIGDSSAVENN
AMSADDEDGENGPIAKFVFKILGDALNSGASDIHFEFYEEMARVRFRVDGQLREVVRMPLNIRNQIASRIKVMAKLDISE
KRIPQDGRIQIQFRKGAKPIDFRVSTLPTLFGEKIVMRILNSDAATLNIEQLGFEPFQKELLLEAIHRPYGMVLVTGPTG
SGKTVSLYTCLNILNTDSVNISTAEDPAEINLPGINQVNVNDKQGLTFAAALKSFLRQDPDIIMVGEIRDLETADIAIKA
AQTGHMVFSTLHTNNAPATLSRMLNMGVAPFNIASSVNLIMAQRLVRRLCTCKAPAERPPEFALKKAGFSDEDLAKEWTF
YRPVGCERCKGKGYKGRAGVYEVMPVSDEMQRIIMNNGNEVDISTQALKEGLVDLRHAGLLKVMEGITSLDEILASTND

Nucleotide


Download         Length: 1680 bp        

>NTDB_id=868784 RAM00_RS02340 WP_037392184.1 560835..562514(-) (pilF) [Snodgrassella alvi strain K-FP26]
ATGAGTCTTGGACTGATCAGGGTTTTATATAAGCACCAGATTATTGACGCAGAAAAAGCAGAAAAACTGCGTCAGGAACT
GGAACAGAAACGTCCGGTTATACCGGCACTACTACAATCTGGAGCCATCAATGCTGATAAACTGGCCAGCTTTCTGTCCG
GTGTATTCGGTATTCCTTACCTGAATCTGGAACCATATAATCAAAGTCTGGTACCGCTGGATTTAATTAATCTGAAAATT
ATGCAGCAATACATTTGCGTGCCGCTATTCAAGCGCGGTAATCGACTGTTTTTGGCTGTATCTGATCCTACATCAATTCA
GCATTACCAGAAAATTGCCACAGATGCCGGCTGCGTACTGAATCTGGTTATAGTCCGCGATAGTCAGTTACGCCAATTAC
TGGAAAATCTTGGTCAGGAATCCACCAACCTTCTGGAAGATATGGATTCAATTGGTGACTCCAGTGCTGTAGAAAATAAC
GCCATGTCTGCAGATGACGAAGATGGCGAAAATGGACCAATTGCAAAATTTGTTTTTAAAATACTAGGTGATGCATTAAA
CAGCGGCGCATCAGATATCCATTTTGAATTTTATGAAGAAATGGCACGAGTACGCTTTCGCGTTGACGGACAGTTGCGTG
AAGTAGTACGTATGCCACTGAATATCCGTAATCAGATTGCTTCACGTATTAAAGTAATGGCCAAACTGGACATTTCAGAA
AAACGTATTCCTCAGGACGGACGTATTCAGATTCAGTTCCGTAAAGGTGCCAAGCCAATTGATTTCCGTGTCAGCACACT
GCCCACTCTGTTCGGGGAAAAAATTGTAATGCGTATCCTGAATTCGGATGCGGCAACTCTGAATATTGAACAACTTGGTT
TTGAGCCATTTCAGAAAGAATTACTGCTTGAGGCCATCCACCGGCCATACGGTATGGTGCTGGTTACCGGTCCTACCGGT
TCCGGTAAAACCGTATCACTGTATACCTGCCTTAATATACTTAATACCGACAGTGTTAACATTTCCACTGCTGAAGACCC
TGCTGAAATTAATCTGCCCGGTATTAATCAGGTAAATGTTAATGATAAACAAGGACTGACATTTGCTGCAGCGTTAAAAT
CGTTTCTGCGTCAGGATCCGGATATCATTATGGTGGGGGAAATCCGAGATCTGGAAACCGCGGATATTGCCATTAAAGCT
GCACAAACCGGCCATATGGTATTTTCAACTCTGCATACCAATAATGCCCCGGCTACATTATCCCGTATGCTGAATATGGG
CGTTGCTCCATTTAATATTGCCAGCTCAGTAAATCTGATTATGGCACAACGTCTGGTGCGGCGTTTATGTACCTGCAAGG
CACCGGCAGAGCGTCCGCCTGAATTTGCACTGAAAAAAGCAGGTTTTTCAGATGAAGATCTCGCCAAAGAATGGACATTT
TACCGGCCGGTCGGCTGTGAAAGGTGTAAGGGCAAAGGCTATAAAGGACGTGCCGGCGTATATGAAGTTATGCCGGTCAG
TGATGAAATGCAACGTATTATCATGAATAATGGTAATGAAGTAGATATCAGCACTCAGGCGCTCAAGGAAGGTCTGGTCG
ATTTACGCCATGCCGGTTTACTGAAAGTGATGGAAGGCATTACGTCTCTGGACGAGATTCTTGCAAGCACTAATGATTAA

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

67.679

100

0.678
  pilB Acinetobacter baylyi ADP1

51.601

100

0.519
  pilB Acinetobacter baumannii D1279779

52.93

94.633

0.501
  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

40.152

94.454

0.379