Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   Herbaro_RS01545 Genome accession   NZ_CP118632
Coordinates   343397..344521 (-) Length   374 a.a.
NCBI ID   WP_275013937.1    Uniprot ID   -
Organism   Herbaspirillum sp. WKF16     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 338397..349521
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Herbaro_RS01505 (Herbaro_01505) mutT 338983..339402 (+) 420 WP_275012084.1 8-oxo-dGTP diphosphatase MutT -
  Herbaro_RS01510 (Herbaro_01510) yacG 339517..339702 (-) 186 WP_275012085.1 DNA gyrase inhibitor YacG -
  Herbaro_RS01515 (Herbaro_01515) zapD 339712..340467 (-) 756 WP_275012086.1 cell division protein ZapD -
  Herbaro_RS01520 (Herbaro_01520) coaE 340672..341295 (-) 624 WP_275012087.1 dephospho-CoA kinase -
  Herbaro_RS01525 (Herbaro_01525) pilD 341304..342167 (-) 864 WP_275012088.1 A24 family peptidase Machinery gene
  Herbaro_RS01530 (Herbaro_01530) pilC 342167..342694 (-) 528 WP_275012089.1 type II secretion system F family protein Machinery gene
  Herbaro_RS01535 (Herbaro_01535) - 342850..343116 (-) 267 Protein_301 type II secretion system F family protein -
  Herbaro_RS01540 (Herbaro_01540) - 342997..343413 (+) 417 WP_275014087.1 hypothetical protein -
  Herbaro_RS01545 (Herbaro_01545) pilF 343397..344521 (-) 1125 WP_275013937.1 ATPase, T2SS/T4P/T4SS family Machinery gene
  Herbaro_RS01550 (Herbaro_01550) - 344767..346077 (-) 1311 WP_275012090.1 HlyC/CorC family transporter -
  Herbaro_RS01555 (Herbaro_01555) - 346231..347979 (-) 1749 WP_275012091.1 tannase/feruloyl esterase family alpha/beta hydrolase -
  Herbaro_RS01565 (Herbaro_01565) ispB 348296..349225 (-) 930 WP_275013938.1 octaprenyl diphosphate synthase -

Sequence

Protein


Download         Length: 374 a.a.        Molecular weight: 40750.39 Da        Isoelectric Point: 9.0915

>NTDB_id=794108 Herbaro_RS01545 WP_275013937.1 343397..344521(-) (pilF) [Herbaspirillum sp. WKF16]
MLADAIGMGASDLHFEPFEHYCRVRLRVDGVLHETAQPPLTLKDKLCTRLKILSRLDIAEKRLPQDGKMRLALEGREVDF
RVSTLPTQFGEKIVLRILDGSQANLDIAALGYEPEQRQTLLRAIRKPQGMVLMTGPTGSGKTVSLYTCLQLLNRPGVNIA
SAEDPVEISLPGINQVSINERTGLSFAVALRAFLRQDPDVLMVGEIRDLETADIAVKAAQTGHLVFSTLHTNDAPATLTR
LLNMGVPAFNIASSISLIVAQRLVRRLCACREEVRASPDTLRRAGFAAEDVGPAPSLFKPAGCPRCNRSGYRGRVGIYQV
MPVGPAMERLILAHGNAPDIARLARAEGVLDLRRAGLLKALRGETSLREVIACT

Nucleotide


Download         Length: 1125 bp        

>NTDB_id=794108 Herbaro_RS01545 WP_275013937.1 343397..344521(-) (pilF) [Herbaspirillum sp. WKF16]
ATGCTGGCCGACGCCATCGGCATGGGCGCCTCCGACCTGCACTTCGAACCCTTCGAGCACTACTGCCGCGTGCGCCTGCG
GGTGGACGGCGTGCTGCACGAGACGGCGCAGCCGCCGCTCACCCTCAAGGACAAGCTCTGCACCCGGCTCAAGATCCTCT
CGCGCCTGGACATCGCCGAGAAGCGCCTGCCCCAGGACGGCAAGATGCGGCTGGCGCTGGAGGGCCGCGAGGTCGACTTC
CGCGTCTCGACGCTGCCCACCCAGTTCGGCGAGAAGATCGTCCTGCGCATCCTCGACGGCAGCCAGGCCAACCTCGACAT
CGCCGCGCTGGGCTACGAACCGGAGCAGCGCCAGACCCTGCTGCGCGCCATCCGCAAACCGCAGGGCATGGTGCTGATGA
CCGGCCCTACCGGCTCGGGCAAGACCGTCTCGCTGTACACTTGCCTGCAACTGCTCAATCGCCCGGGCGTCAACATCGCC
AGCGCCGAGGATCCGGTCGAGATCAGCCTGCCCGGCATCAACCAGGTCAGCATCAACGAACGCACCGGCCTGTCCTTCGC
GGTGGCGCTGCGCGCCTTCCTGCGCCAGGATCCGGACGTGCTGATGGTGGGCGAGATCCGCGACCTGGAAACCGCCGACA
TCGCCGTCAAGGCGGCGCAGACGGGCCACCTGGTGTTTTCCACGCTGCACACCAACGACGCGCCGGCCACGCTCACGCGC
TTGCTCAACATGGGCGTGCCGGCCTTCAACATCGCCTCCTCGATCAGCCTGATCGTGGCGCAGCGCCTGGTGCGCCGGCT
GTGCGCCTGCCGCGAGGAGGTGCGCGCCTCGCCCGATACGCTCAGGCGCGCCGGTTTCGCCGCCGAGGATGTCGGCCCGG
CGCCCAGCCTGTTCAAACCCGCCGGCTGCCCGCGCTGCAACCGCAGCGGCTATCGCGGCCGCGTCGGCATCTACCAGGTC
ATGCCGGTCGGCCCGGCGATGGAGCGCCTGATCCTCGCGCACGGCAATGCGCCCGACATCGCGCGCCTGGCGCGCGCCGA
GGGCGTGCTCGACCTGCGCCGCGCCGGCCTGCTCAAGGCGCTGCGCGGCGAAACCAGCCTGCGGGAAGTCATTGCCTGCA
CCTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(2-266)


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

61.008

100

0.615
  pilB Acinetobacter baumannii D1279779

58.886

100

0.594
  pilB Acinetobacter baylyi ADP1

58.981

99.733

0.588
  pilB Vibrio cholerae strain A1552

58.021

100

0.58
  pilB Vibrio campbellii strain DS40M4

55.914

99.465

0.556
  pilB Legionella pneumophila strain ERS1305867

55.496

99.733

0.553
  pilB Vibrio parahaemolyticus RIMD 2210633

55.228

99.733

0.551
  pilF Thermus thermophilus HB27

46.4

100

0.465
  pilB/pilB1 Synechocystis sp. PCC 6803

44.072

100

0.457
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

45.777

98.128

0.449
  pilB Haemophilus influenzae 86-028NP

42.246

100

0.422
  pilB Haemophilus influenzae Rd KW20

42.246

100

0.422
  ctsE Campylobacter jejuni subsp. jejuni 81-176

40.054

99.465

0.398
  pilB Glaesserella parasuis strain SC1401

44.654

85.027

0.38