Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   LDZ24_RS11480 Genome accession   NZ_CP084250
Coordinates   2421879..2423078 (+) Length   399 a.a.
NCBI ID   WP_248320534.1    Uniprot ID   -
Organism   Caballeronia sp. Sq4a     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2416879..2428078
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDZ24_RS11450 cgtA 2417099..2418205 (-) 1107 WP_248320532.1 Obg family GTPase CgtA -
  LDZ24_RS11455 rpmA 2418411..2418674 (-) 264 WP_175945147.1 50S ribosomal protein L27 -
  LDZ24_RS11460 rplU 2418706..2419017 (-) 312 WP_008342953.1 50S ribosomal protein L21 -
  LDZ24_RS11465 - 2419253..2420245 (+) 993 WP_175945149.1 polyprenyl synthetase family protein -
  LDZ24_RS11475 - 2420507..2421793 (+) 1287 WP_248320533.1 HlyC/CorC family transporter -
  LDZ24_RS11480 pilF 2421879..2423078 (+) 1200 WP_248320534.1 GspE/PulE family protein Machinery gene
  LDZ24_RS11485 - 2423078..2424298 (+) 1221 WP_248320535.1 type II secretion system F family protein -
  LDZ24_RS11490 - 2424330..2425241 (+) 912 WP_248320536.1 A24 family peptidase -
  LDZ24_RS11495 coaE 2425258..2425872 (+) 615 WP_248320537.1 dephospho-CoA kinase -
  LDZ24_RS11500 zapD 2426036..2426791 (+) 756 WP_175945315.1 cell division protein ZapD -
  LDZ24_RS11505 - 2426861..2427052 (+) 192 WP_175945160.1 DNA gyrase inhibitor YacG -
  LDZ24_RS11510 - 2427059..2427508 (-) 450 WP_256465372.1 NUDIX domain-containing protein -

Sequence

Protein


Download         Length: 399 a.a.        Molecular weight: 42676.96 Da        Isoelectric Point: 7.4886

>NTDB_id=610350 LDZ24_RS11480 WP_248320534.1 2421879..2423078(+) (pilF) [Caballeronia sp. Sq4a]
MTSVPSAAFPRPADSTFETTSDGHSPAVSLLADTLREAAERGASDIHVEPSEHEWRIRLRVDGALHVLRRPPPHLRDAFV
TRIKVLARMDIAERRVPQDGRLRLALPGGQTGDYRVSSLPTLFGEKLVLRRLDALPRDLSLGALGLSDEQSGVVESAIRA
PHGLVLVTGPTGSGKTLSLYCFLQMLNAEARNICAVEDPAEIQLAGINQVSVREKAGLTFAVALRAFMRQDPDVIMVGEI
RDAETADVAVKAAQTGHLVLSTLHTNDAPAAIARLIDIGVAPYNLASALRLVTAQRLVRKLCDACRAPSALTLPDGFRPF
EPRGCPACHGIGYRGRVGVHQLMPVSDGIRELIVGRAATHAVARLAQSEGMPALRDAAFARVREGVTSVAEAADATEIA

Nucleotide


Download         Length: 1200 bp        

>NTDB_id=610350 LDZ24_RS11480 WP_248320534.1 2421879..2423078(+) (pilF) [Caballeronia sp. Sq4a]
ATGACTTCCGTTCCTTCCGCCGCGTTCCCACGCCCGGCCGACTCCACCTTCGAAACAACGTCCGACGGGCACTCGCCCGC
CGTTTCGCTGCTCGCCGACACCTTGCGCGAAGCCGCCGAGCGCGGCGCGTCGGACATCCACGTCGAGCCATCCGAGCACG
AATGGCGCATTCGGCTGCGCGTCGATGGCGCGCTGCACGTCTTGCGCCGTCCGCCGCCGCATTTGCGCGATGCCTTCGTC
ACGCGAATCAAAGTACTCGCGCGCATGGATATCGCGGAGCGTCGCGTGCCGCAGGACGGACGTCTGCGGCTCGCCTTGCC
GGGCGGCCAGACCGGCGACTATCGCGTGAGTTCACTGCCGACGCTGTTCGGCGAGAAGCTGGTCCTGCGCCGGCTCGATG
CCTTGCCGCGAGACCTGTCGCTCGGCGCGCTCGGCCTCAGCGACGAGCAAAGCGGCGTCGTCGAATCCGCCATTCGCGCG
CCACATGGCCTCGTGCTCGTCACGGGTCCGACCGGCAGCGGCAAGACGCTGTCGCTGTACTGTTTCCTTCAGATGCTCAA
CGCCGAAGCGCGCAACATCTGCGCCGTGGAAGATCCTGCCGAGATCCAGCTTGCGGGCATCAATCAGGTCAGCGTGCGCG
AAAAGGCGGGGCTTACTTTCGCCGTCGCGCTGCGTGCGTTCATGCGGCAGGACCCGGACGTCATCATGGTCGGCGAGATT
CGCGATGCCGAAACCGCCGACGTCGCCGTAAAAGCCGCGCAGACCGGCCACCTCGTTCTCTCCACGCTCCACACCAACGA
CGCGCCCGCCGCCATCGCGCGCCTGATCGACATCGGCGTCGCGCCGTACAACCTCGCGTCGGCGTTGCGGCTGGTGACGG
CGCAACGGCTGGTGCGCAAGCTCTGCGACGCGTGCCGCGCGCCGTCCGCGCTGACGCTTCCAGACGGCTTTCGTCCGTTC
GAGCCGCGCGGCTGCCCGGCGTGTCACGGCATCGGATATCGCGGGCGCGTCGGTGTGCATCAGTTGATGCCGGTGTCGGA
TGGTATCCGCGAGTTGATCGTCGGCCGCGCGGCGACGCACGCGGTTGCGCGGCTTGCGCAATCCGAAGGCATGCCCGCCC
TGCGCGACGCCGCTTTCGCACGCGTGCGCGAAGGCGTGACGAGCGTCGCGGAAGCCGCCGACGCGACGGAGATCGCGTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(34-300)


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

49.114

98.997

0.486
  pilB Vibrio cholerae strain A1552

50.259

96.742

0.486
  pilB Acinetobacter baumannii D1279779

47.68

97.243

0.464
  pilB Acinetobacter baylyi ADP1

47.927

96.742

0.464
  pilB Vibrio parahaemolyticus RIMD 2210633

47.792

96.491

0.461
  pilB Vibrio campbellii strain DS40M4

47.792

96.491

0.461
  pilB Legionella pneumophila strain ERS1305867

45.455

99.248

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

43.552

100

0.449
  pilB Haemophilus influenzae Rd KW20

40.759

98.997

0.404
  pilF Thermus thermophilus HB27

41.842

95.238

0.398
  pilB Haemophilus influenzae 86-028NP

40.253

98.997

0.398
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

41.732

95.489

0.398
  pilB Glaesserella parasuis strain SC1401

41.734

92.481

0.386