Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   HRUBRI_RS01665 Genome accession   NZ_CP013737
Coordinates   381907..383043 (-) Length   378 a.a.
NCBI ID   WP_058894015.1    Uniprot ID   -
Organism   Herbaspirillum rubrisubalbicans M1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 376907..388043
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HRUBRI_RS01635 (Hrubri_0326) - 377456..377869 (+) 414 WP_058894010.1 NUDIX domain-containing protein -
  HRUBRI_RS01640 (Hrubri_0327) yacG 377912..378097 (-) 186 WP_058894011.1 DNA gyrase inhibitor YacG -
  HRUBRI_RS01645 (Hrubri_0328) zapD 378134..378889 (-) 756 WP_017451950.1 cell division protein ZapD -
  HRUBRI_RS01650 (Hrubri_0329) coaE 379115..379735 (-) 621 WP_058894012.1 dephospho-CoA kinase -
  HRUBRI_RS01655 (Hrubri_0330) pilD 379749..380612 (-) 864 WP_058894013.1 prepilin peptidase Machinery gene
  HRUBRI_RS01660 (Hrubri_0331) - 380667..381920 (-) 1254 WP_058894014.1 type II secretion system F family protein -
  HRUBRI_RS01665 (Hrubri_0332) pilF 381907..383043 (-) 1137 WP_058894015.1 GspE/PulE family protein Machinery gene
  HRUBRI_RS01670 (Hrubri_0333) - 383173..384462 (-) 1290 WP_058894016.1 HlyC/CorC family transporter -
  HRUBRI_RS01675 (Hrubri_0334) infA 384928..385191 (+) 264 WP_006713209.1 translation initiation factor IF-1 -
  HRUBRI_RS01680 (Hrubri_0335) - 385266..385523 (+) 258 WP_058894017.1 hypothetical protein -
  HRUBRI_RS01685 (Hrubri_0336) - 385535..385870 (-) 336 WP_335338800.1 winged helix-turn-helix domain-containing protein -
  HRUBRI_RS01690 (Hrubri_0337) - 386521..387708 (+) 1188 WP_231738899.1 hypothetical protein -

Sequence

Protein


Download         Length: 378 a.a.        Molecular weight: 40781.37 Da        Isoelectric Point: 8.5060

>NTDB_id=164565 HRUBRI_RS01665 WP_058894015.1 381907..383043(-) (pilF) [Herbaspirillum rubrisubalbicans M1]
MQAPDTAVADDDVPVVRLLHKLLADAVGRGASDLHFEPFESVFRVRLRVDGVLHELAQPPLSLREKLATRLKILARLDIA
EKRLPQDGKMRLALAERSVDFRVSTLPTQFGEKIVLRILDTAQATLSIAELGYEPAQQQALLHAITKPHGLVLMTGPTGS
GKTVSLYACLQRLNQPGVNIATAEDPVEINLPGVNQVSINERTGLDFALALRAFLRQDPDVLMVGEIRDLETADIAVKAS
QTGHLVLSTLHTNDAPATLTRLLNMGVPAYNIAASVSLIVAQRLVRKLCHCRRPAGGRPATFVAQGCPACNHTGFRGRTG
IYQVMPVSPAMQSLILAQAGTLELARQAQAEGIIDLRRAGLLKVLRGETSVGEILACT

Nucleotide


Download         Length: 1137 bp        

>NTDB_id=164565 HRUBRI_RS01665 WP_058894015.1 381907..383043(-) (pilF) [Herbaspirillum rubrisubalbicans M1]
ATGCAAGCTCCCGATACGGCGGTCGCCGACGACGATGTCCCGGTGGTGCGCCTGCTGCACAAGCTGCTGGCCGATGCGGT
CGGTCGGGGCGCCTCGGATCTTCACTTCGAACCCTTTGAATCGGTATTCCGGGTACGCCTGCGCGTGGATGGCGTGCTGC
ACGAACTGGCGCAGCCGCCCTTGAGTCTGCGCGAGAAGCTGGCCACCCGGCTCAAGATCCTGGCGCGCCTGGACATCGCC
GAAAAACGCCTGCCCCAGGACGGCAAGATGCGCCTGGCGCTGGCCGAGCGCAGCGTGGATTTCCGCGTCTCCACGCTGCC
CACGCAGTTTGGCGAAAAGATCGTGCTGCGCATCCTCGATACCGCCCAGGCCACACTGTCGATTGCCGAGCTGGGTTACG
AACCGGCCCAGCAACAAGCCCTGCTGCACGCCATCACCAAACCGCACGGGCTGGTACTGATGACCGGGCCGACCGGCTCG
GGCAAGACCGTCTCGCTGTATGCCTGCCTGCAGCGGCTCAACCAGCCGGGCGTCAATATCGCCACCGCCGAGGATCCGGT
GGAAATCAACCTGCCCGGGGTGAACCAGGTCAGCATCAATGAGCGCACCGGGCTGGACTTCGCGCTGGCCCTGCGCGCCT
TCCTGCGGCAAGACCCGGATGTGCTGATGGTGGGCGAGATTCGCGACCTGGAAACCGCCGACATCGCCGTCAAGGCTTCG
CAGACCGGGCACCTGGTGCTGTCCACCCTGCATACCAACGATGCCCCGGCCACCCTGACCCGCTTGCTCAACATGGGCGT
GCCGGCCTACAACATCGCCGCTTCGGTCAGCCTGATCGTGGCCCAGCGGCTGGTGCGCAAGCTCTGTCATTGCCGCCGCC
CGGCCGGGGGCAGGCCGGCCACCTTCGTCGCGCAGGGCTGCCCGGCCTGCAACCACACCGGTTTTCGTGGGCGCACCGGG
ATCTATCAGGTCATGCCGGTCAGCCCGGCCATGCAATCGCTCATCCTGGCCCAGGCCGGCACCCTGGAGCTGGCGCGCCA
GGCCCAGGCCGAGGGCATCATCGACCTGCGCCGCGCCGGCCTGCTCAAGGTCTTGCGCGGTGAAACCAGCGTGGGAGAAA
TCCTTGCCTGCACCTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(22-287)


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

55.784

100

0.574
  pilB Acinetobacter baylyi ADP1

55.643

100

0.561
  pilB Acinetobacter baumannii D1279779

54.688

100

0.556
  pilB Vibrio parahaemolyticus RIMD 2210633

54.712

100

0.553
  pilB Vibrio campbellii strain DS40M4

54.45

100

0.55
  pilB Vibrio cholerae strain A1552

54.047

100

0.548
  pilB Legionella pneumophila strain ERS1305867

50.891

100

0.529
  pilB Haemophilus influenzae Rd KW20

47.283

97.354

0.46
  pilB Haemophilus influenzae 86-028NP

47.154

97.619

0.46
  pilB/pilB1 Synechocystis sp. PCC 6803

42.118

100

0.452
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

41.772

100

0.437
  pilF Thermus thermophilus HB27

42.078

100

0.429
  pilB Glaesserella parasuis strain SC1401

49.206

83.333

0.41
  ctsE Campylobacter jejuni subsp. jejuni 81-176

39.895

100

0.402

Multiple sequence alignment