Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   RC54_RS01665 Genome accession   NZ_CP024996
Coordinates   375312..376448 (-) Length   378 a.a.
NCBI ID   WP_017451954.1    Uniprot ID   A0A6M3ZK36
Organism   Herbaspirillum rubrisubalbicans strain DSM 11543     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 370312..381448
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RC54_RS01635 (RC54_01635) - 370862..371275 (+) 414 WP_061789493.1 NUDIX domain-containing protein -
  RC54_RS01640 (RC54_01640) yacG 371318..371503 (-) 186 WP_058894011.1 DNA gyrase inhibitor YacG -
  RC54_RS01645 (RC54_01645) zapD 371539..372294 (-) 756 WP_017451950.1 cell division protein ZapD -
  RC54_RS01650 (RC54_01650) coaE 372520..373140 (-) 621 WP_058894012.1 dephospho-CoA kinase -
  RC54_RS01655 (RC54_01655) pilD 373154..374017 (-) 864 WP_058894013.1 A24 family peptidase Machinery gene
  RC54_RS01660 (RC54_01660) - 374072..375325 (-) 1254 WP_058894014.1 type II secretion system F family protein -
  RC54_RS01665 (RC54_01665) pilF 375312..376448 (-) 1137 WP_017451954.1 ATPase, T2SS/T4P/T4SS family Machinery gene
  RC54_RS01670 (RC54_01670) - 376578..377867 (-) 1290 WP_061789494.1 HlyC/CorC family transporter -
  RC54_RS01680 (RC54_01680) infA 378333..378596 (+) 264 WP_006713209.1 translation initiation factor IF-1 -
  RC54_RS01685 (RC54_01685) - 378671..378928 (+) 258 WP_058894017.1 hypothetical protein -
  RC54_RS01690 (RC54_01690) - 378940..379275 (-) 336 WP_306305689.1 winged helix-turn-helix domain-containing protein -
  RC54_RS01695 (RC54_01695) - 379926..381113 (+) 1188 WP_244216429.1 hypothetical protein -

Sequence

Protein


Download         Length: 378 a.a.        Molecular weight: 40726.29 Da        Isoelectric Point: 8.2654

>NTDB_id=256981 RC54_RS01665 WP_017451954.1 375312..376448(-) (pilF) [Herbaspirillum rubrisubalbicans strain DSM 11543]
MQAPDTAVADDDVPVVRLLHKLLADAVGRGASDLHFEPFESVFRVRLRVDGVLHELAQPPLSLREKLATRLKILARLDIA
EKRLPQDGKMRLALAERSVDFRVSTLPTQFGEKIVLRILDTAQATLSIAELGYEPAQQQALLHAITKPHGLVLMTGPTGS
GKTVSLYACLQRLNQPGVNIATAEDPVEINLPGVNQVSINERTGLDFALALRAFLRQDPDVLMVGEIRDLETADIAVKAS
QTGHLVLSTLHTNDAPATLTRLLNMGVPAYNIAASVSLIVAQRLVRKLCHCRRPAGGTPATFVAQGCPACNHTGFRGRTG
IYQVMPVSPAMQSLILAQAGTLELARQAQAEGIIDLRRAGLLKVLRGETSVGEILACT

Nucleotide


Download         Length: 1137 bp        

>NTDB_id=256981 RC54_RS01665 WP_017451954.1 375312..376448(-) (pilF) [Herbaspirillum rubrisubalbicans strain DSM 11543]
ATGCAAGCTCCCGATACGGCGGTAGCCGACGACGATGTCCCGGTGGTGCGCCTGCTGCACAAGCTGCTGGCCGATGCGGT
CGGTCGGGGCGCCTCGGATCTTCACTTCGAACCCTTTGAATCGGTATTCCGGGTACGCCTGCGCGTGGATGGCGTGCTGC
ACGAACTGGCGCAGCCGCCCTTGAGTCTGCGCGAGAAGCTGGCCACCCGGCTCAAGATCCTGGCGCGCCTGGACATCGCC
GAAAAACGCCTGCCCCAGGACGGCAAGATGCGCCTGGCGCTGGCCGAGCGCAGCGTGGATTTCCGCGTCTCCACGCTGCC
CACGCAGTTTGGCGAAAAGATCGTGCTGCGCATCCTCGATACCGCCCAGGCCACGCTGTCGATTGCCGAGCTGGGTTACG
AACCGGCCCAGCAGCAAGCCCTGCTGCACGCCATCACCAAGCCGCACGGGCTGGTACTGATGACCGGGCCGACCGGCTCG
GGCAAGACCGTCTCGCTGTATGCCTGCCTGCAGCGGCTCAACCAGCCGGGCGTCAATATCGCCACCGCCGAGGATCCGGT
GGAAATCAACCTGCCCGGGGTGAACCAGGTCAGCATCAATGAACGCACCGGGCTGGACTTCGCGCTGGCCCTGCGCGCCT
TCCTGCGGCAAGACCCGGATGTGCTGATGGTGGGCGAGATCCGCGACCTGGAAACCGCCGACATCGCCGTCAAGGCTTCG
CAGACCGGGCACCTGGTGCTGTCCACCCTGCATACCAACGATGCCCCGGCCACCCTGACCCGCTTGCTCAACATGGGCGT
GCCGGCCTACAACATCGCCGCTTCGGTCAGCCTGATCGTGGCCCAGCGGCTGGTGCGCAAGCTCTGTCATTGCCGCCGCC
CGGCCGGGGGCACGCCGGCCACCTTCGTCGCGCAGGGCTGCCCGGCCTGCAACCACACCGGTTTTCGTGGGCGCACCGGG
ATCTATCAGGTCATGCCGGTCAGCCCGGCCATGCAATCGCTCATCCTGGCCCAGGCCGGCACCCTGGAGCTGGCGCGCCA
GGCGCAGGCCGAGGGCATCATCGACCTGCGCCGCGCCGGCCTGCTCAAGGTCTTGCGCGGTGAAACCAGCGTGGGAGAAA
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
  AlphaFold DB A0A6M3ZK36

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

56.041

100

0.577
  pilB Acinetobacter baylyi ADP1

55.906

100

0.563
  pilB Acinetobacter baumannii D1279779

54.381

100

0.558
  pilB Vibrio campbellii strain DS40M4

54.712

100

0.553
  pilB Vibrio parahaemolyticus RIMD 2210633

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