Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   ABX024_RS08540 Genome accession   NZ_CP160074
Coordinates   1957401..1959080 (-) Length   559 a.a.
NCBI ID   WP_025329864.1    Uniprot ID   -
Organism   Snodgrassella alvi strain Amel08     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1952401..1964080
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABX024_RS08510 (ABX024_12215) - 1952729..1953649 (-) 921 WP_198190459.1 ABC transporter ATP-binding protein -
  ABX024_RS08515 (ABX024_12210) yacG 1953696..1953893 (-) 198 WP_025329859.1 DNA gyrase inhibitor YacG -
  ABX024_RS08520 (ABX024_12205) zapD 1953893..1954645 (-) 753 WP_279027999.1 cell division protein ZapD -
  ABX024_RS08525 (ABX024_12200) coaE 1954651..1955265 (-) 615 WP_367416369.1 dephospho-CoA kinase -
  ABX024_RS08530 (ABX024_12195) pilD 1955262..1956113 (-) 852 WP_370579414.1 A24 family peptidase Machinery gene
  ABX024_RS08535 (ABX024_12190) pilG 1956120..1957352 (-) 1233 WP_025329863.1 type II secretion system F family protein Machinery gene
  ABX024_RS08540 (ABX024_12185) pilF 1957401..1959080 (-) 1680 WP_025329864.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABX024_RS08545 (ABX024_16735) recJ 1959282..1960979 (-) 1698 WP_370579415.1 single-stranded-DNA-specific exonuclease RecJ -
  ABX024_RS08550 (ABX024_16740) - 1960976..1961950 (-) 975 WP_370579416.1 hypothetical protein -
  ABX024_RS08555 (ABX024_12155) - 1962053..1962589 (-) 537 WP_367416363.1 tyrosine-protein phosphatase -

Sequence

Protein


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

>NTDB_id=1017646 ABX024_RS08540 WP_025329864.1 1957401..1959080(-) (pilF) [Snodgrassella alvi strain Amel08]
MSLGLIRVLYKHQIIDAEKAEKLRQELEQKRPVIPALLQSGAINADKLASFLSGVFGIPYLNLEPYNQSLVPLDLINLKI
MQQYICVPLFKRGNRLFLAVSDPTSIQHYQKIATDAGCVLNLVIVRDSQLRQLLENLGQESTNLLEDMDSIGDSSAVENN
AMSADDEDGENGPIAKFVFKILGDALNSGASDIHFEFYEEMARVRFRVDGQLREVVRMPLNIRGQIASRIKVMAKLDISE
KRIPQDGRIQVQFRKGAKPIDFRVSTLPTLFGEKIVMRILNSDAATLNIEQLGFEPFQKELLLEAIHRPYGMVLVTGPTG
SGKTVSLYTCLNILNTDSVNISTAEDPAEINLPGINQVNVNDKQGLTFAAALKSFLRQDPDIIMVGEIRDLETADIAIKA
AQTGHMVFSTLHTNNAPATLSRMLNMGVAPFNIASSVNLIMAQRLVRRLCTCKAPAERPPEFALKKAGFSDEDLAKEWTF
YRPVGCERCKGKGYKGRAGVYEVMPVSDEMQRIIMNNGNEVDISTQALKEGLVDLRHAGLLKVMEGITSLDEILASTND

Nucleotide


Download         Length: 1680 bp        

>NTDB_id=1017646 ABX024_RS08540 WP_025329864.1 1957401..1959080(-) (pilF) [Snodgrassella alvi strain Amel08]
ATGAGTCTTGGACTGATCAGGGTTTTATATAAGCACCAGATTATTGACGCAGAAAAAGCAGAAAAACTGCGTCAGGAACT
GGAACAGAAACGTCCGGTTATACCGGCACTACTACAATCTGGAGCCATCAATGCTGATAAACTGGCCAGCTTTCTGTCCG
GTGTATTCGGTATTCCTTACCTGAATCTGGAGCCATATAATCAAAGTCTGGTACCGCTGGATTTAATTAATCTGAAAATT
ATGCAGCAATACATTTGCGTGCCGCTATTCAAGCGCGGTAATCGACTGTTTTTGGCTGTATCTGATCCTACATCAATTCA
GCATTACCAGAAAATTGCCACAGATGCCGGCTGCGTACTGAATCTGGTTATAGTCCGCGATAGTCAGTTACGCCAATTAC
TGGAAAATCTTGGTCAGGAATCCACCAACCTTCTGGAAGATATGGATTCAATTGGTGACTCCAGTGCTGTAGAAAATAAC
GCCATGTCTGCAGATGACGAAGATGGCGAAAATGGACCAATTGCAAAATTTGTTTTTAAAATACTAGGTGATGCATTAAA
CAGCGGCGCATCAGATATCCATTTTGAATTTTATGAAGAAATGGCACGAGTACGCTTTCGCGTTGACGGACAGTTGCGTG
AAGTGGTACGTATGCCACTGAATATTCGCGGCCAGATCGCTTCACGTATTAAAGTAATGGCCAAACTGGACATTTCAGAA
AAACGTATTCCTCAGGACGGACGTATTCAGGTTCAGTTCCGTAAAGGTGCCAAGCCGATTGATTTCCGTGTCAGCACACT
GCCCACTCTGTTCGGGGAAAAAATTGTAATGCGTATCCTGAATTCGGATGCGGCTACTCTGAATATTGAACAACTTGGTT
TTGAGCCATTTCAGAAAGAATTACTGCTTGAGGCCATCCACCGGCCATACGGTATGGTGCTGGTTACCGGCCCTACCGGT
TCCGGTAAAACCGTATCACTGTATACCTGCCTTAATATTCTTAATACCGACAGTGTTAACATTTCCACTGCTGAAGACCC
TGCGGAAATTAACCTGCCTGGTATTAATCAGGTAAATGTTAATGATAAACAAGGACTGACATTTGCTGCTGCGTTAAAAT
CATTTCTGCGCCAGGATCCGGATATCATTATGGTGGGGGAAATCCGTGATTTGGAAACCGCAGATATTGCCATTAAAGCT
GCACAAACCGGCCATATGGTATTTTCAACTCTGCATACCAATAATGCCCCTGCTACATTATCCCGTATGCTGAATATGGG
CGTTGCTCCGTTTAATATTGCCAGCTCAGTAAATCTGATTATGGCACAGCGTCTGGTGCGGCGTTTATGTACCTGCAAGG
CACCGGCAGAGCGTCCGCCTGAATTTGCACTGAAAAAAGCAGGTTTTTCAGATGAAGATCTCGCCAAAGAATGGACATTT
TACCGGCCGGTCGGCTGTGAAAGGTGTAAGGGCAAAGGCTATAAAGGACGTGCCGGCGTATATGAAGTTATGCCGGTCAG
TGATGAAATGCAACGTATTATCATGAATAATGGTAATGAAGTAGATATCAGCACTCAGGCGCTCAAGGAAGGTCTGGTCG
ATTTACGCCATGCCGGTTTACTGAAAGTGATGGAAGGCATTACGTCTCTGGACGAGATTCTTGCAAGCACTAATGATTAA

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

Multiple sequence alignment