Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   hsc_RS01665 Genome accession   NZ_CP013136
Coordinates   377634..378767 (-) Length   377 a.a.
NCBI ID   WP_013232404.1    Uniprot ID   D8IW85
Organism   Herbaspirillum seropedicae strain AU14040     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 372634..383767
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  hsc_RS01635 (Hsc_0342) - 373245..373700 (+) 456 WP_069372861.1 NUDIX domain-containing protein -
  hsc_RS01640 (Hsc_0343) yacG 373737..373922 (-) 186 WP_013232399.1 DNA gyrase inhibitor YacG -
  hsc_RS01645 (Hsc_0344) zapD 373952..374707 (-) 756 WP_013232400.1 cell division protein ZapD -
  hsc_RS01650 (Hsc_0345) coaE 374860..375480 (-) 621 WP_069372862.1 dephospho-CoA kinase -
  hsc_RS01655 (Hsc_0346) pilD 375492..376355 (-) 864 WP_069372863.1 prepilin peptidase Machinery gene
  hsc_RS01660 (Hsc_0347) - 376400..377647 (-) 1248 WP_069372864.1 type II secretion system F family protein -
  hsc_RS01665 (Hsc_0348) pilF 377634..378767 (-) 1134 WP_013232404.1 GspE/PulE family protein Machinery gene
  hsc_RS01670 (Hsc_0349) - 378931..380235 (-) 1305 WP_069372865.1 HlyC/CorC family transporter -
  hsc_RS01675 (Hsc_0351) infA 380664..380927 (+) 264 WP_013232407.1 translation initiation factor IF-1 -
  hsc_RS01680 (Hsc_0352) - 381037..381288 (+) 252 WP_069375414.1 hypothetical protein -
  hsc_RS01690 (Hsc_0354) ispB 381515..382444 (-) 930 WP_013232409.1 octaprenyl diphosphate synthase -
  hsc_RS01695 (Hsc_0355) rplU 382812..383123 (+) 312 WP_006713215.1 50S ribosomal protein L21 -
  hsc_RS01700 (Hsc_0356) rpmA 383172..383429 (+) 258 WP_013232410.1 50S ribosomal protein L27 -

Sequence

Protein


Download         Length: 377 a.a.        Molecular weight: 40954.44 Da        Isoelectric Point: 8.7185

>NTDB_id=160201 hsc_RS01665 WP_013232404.1 377634..378767(-) (pilF) [Herbaspirillum seropedicae strain AU14040]
MQASETPLADDVPVVRLLYKLLADAVSMGASDLHFEPFEHYCRVRLRIDGILHELAQPPLSLKDKLATRLKILARLDIAE
KRLPQDGKMRLALETRTVDFRVSTLPTQFGEKIVLRILDTEQATLALEQLGYEPAQLQALQQAIARPHGMVLMTGPTGSG
KTVSLYACLQRLNRPGINIATAEDPVEINLPGINQVSINERAGLNFAVALRAFLRQDPDVLMVGEIRDLDTADIAIKAAQ
TGHLVLSTLHTNDAPATLTRLLNMGVPAYNIAASVSLIVAQRLVRRLCSCRRPARDASGSFVPHGCPACSHTGYRGRTGI
YQVMPVSATMQSLIQAQAGTQDIARQARAEGVIDLRRAGLLKALRGDTSLGEVLAST

Nucleotide


Download         Length: 1134 bp        

>NTDB_id=160201 hsc_RS01665 WP_013232404.1 377634..378767(-) (pilF) [Herbaspirillum seropedicae strain AU14040]
ATGCAAGCTTCCGAGACTCCCCTGGCCGACGACGTCCCTGTCGTGCGGCTCTTGTACAAGCTCTTGGCTGATGCCGTCAG
CATGGGCGCATCGGACCTGCATTTCGAGCCCTTCGAACATTATTGCCGGGTGCGCCTGCGCATCGACGGGATACTGCATG
AGCTGGCGCAGCCGCCGCTGAGCCTGAAGGACAAGCTGGCGACCCGGCTCAAGATCCTGGCGCGACTGGATATCGCCGAA
AAGCGCCTGCCCCAGGATGGCAAGATGCGCCTGGCCCTGGAAACCCGCACAGTGGACTTTCGCGTCTCGACCCTGCCCAC
GCAGTTCGGCGAGAAGATCGTGCTGCGCATCCTCGACACCGAGCAGGCCACCCTCGCGCTGGAACAGCTGGGCTACGAGC
CGGCCCAGCTGCAGGCGCTGCAACAGGCCATCGCACGGCCGCATGGGATGGTACTCATGACCGGCCCCACCGGCTCGGGC
AAGACGGTCTCGCTGTATGCCTGCCTGCAGCGGCTGAACCGTCCAGGCATCAACATCGCCACTGCCGAGGACCCGGTCGA
GATCAACCTGCCCGGCATCAACCAGGTCAGCATCAACGAACGCGCCGGACTGAACTTTGCGGTGGCGCTGCGCGCCTTCC
TGCGCCAGGATCCGGACGTGCTGATGGTGGGCGAGATCCGCGACCTCGACACCGCCGACATCGCCATCAAGGCCGCGCAG
ACCGGCCATCTGGTGCTCTCCACCCTGCATACCAATGACGCCCCGGCCACGCTCACGCGCCTGCTCAACATGGGCGTGCC
GGCCTACAACATCGCCGCCTCGGTCAGCCTGATCGTGGCCCAGCGGCTGGTGCGCAGGCTGTGCAGCTGCCGCCGCCCGG
CGCGCGACGCGTCGGGCAGCTTCGTGCCGCATGGCTGCCCGGCATGCAGCCATACCGGCTATCGCGGCCGCACCGGCATC
TACCAGGTCATGCCGGTCAGCGCCACGATGCAGTCGCTCATCCAGGCCCAGGCCGGCACCCAGGACATCGCCCGGCAGGC
CCGCGCCGAGGGTGTCATCGACCTGCGCCGCGCCGGCCTGCTCAAGGCCTTGCGCGGCGACACCAGCCTGGGAGAGGTCC
TTGCCAGCACCTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(20-286)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB D8IW85

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

57.436

100

0.594
  pilB Vibrio cholerae strain A1552

55.013

100

0.568
  pilB Acinetobacter baumannii D1279779

55.013

100

0.568
  pilB Vibrio campbellii strain DS40M4

55.673

100

0.56
  pilB Vibrio parahaemolyticus RIMD 2210633

55.409

100

0.557
  pilB Acinetobacter baylyi ADP1

55.118

100

0.557
  pilB Legionella pneumophila strain ERS1305867

51.163

100

0.525
  pilB/pilB1 Synechocystis sp. PCC 6803

44.472

100

0.469
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

44.162

100

0.462
  pilF Thermus thermophilus HB27

43.325

100

0.456
  pilB Haemophilus influenzae 86-028NP

44.947

99.735

0.448
  pilB Haemophilus influenzae Rd KW20

48.773

86.472

0.422
  ctsE Campylobacter jejuni subsp. jejuni 81-176

40.682

100

0.411
  pilB Glaesserella parasuis strain SC1401

46.541

84.35

0.393

Multiple sequence alignment