Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   CSTERLE_RS05985 Genome accession   NZ_CP014673
Coordinates   1390413..1391540 (+) Length   375 a.a.
NCBI ID   WP_237266955.1    Uniprot ID   -
Organism   Thermoclostridium stercorarium subsp. leptospartum DSM 9219     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
IScluster/Tn 1384523..1390328 1390413..1391540 flank 85


Gene organization within MGE regions


Location: 1384523..1391540
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CSTERLE_RS05960 (CSTERLE_05960) - 1384523..1385749 (-) 1227 WP_015358103.1 IS256 family transposase -
  CSTERLE_RS05970 (CSTERLE_05970) - 1386371..1387753 (-) 1383 WP_034842377.1 MATE family efflux transporter -
  CSTERLE_RS05975 (CSTERLE_05975) - 1388081..1389124 (+) 1044 WP_237266954.1 hypothetical protein -
  CSTERLE_RS05980 (CSTERLE_05980) - 1389102..1390328 (-) 1227 WP_015358103.1 IS256 family transposase -
  CSTERLE_RS05985 (CSTERLE_05985) pilF 1390413..1391540 (+) 1128 WP_237266955.1 GspE/PulE family protein Machinery gene

Sequence

Protein


Download         Length: 375 a.a.        Molecular weight: 41778.51 Da        Isoelectric Point: 7.6827

>NTDB_id=173230 CSTERLE_RS05985 WP_237266955.1 1390413..1391540(+) (pilF) [Thermoclostridium stercorarium subsp. leptospartum DSM 9219]
MIFKSAVDKGASDIHIEAYEDCVMIRFRIDGKLTEFMRQDKKIQQILIARIKIISGLNIAEKRVPQDGRVALKINNKNYD
FRVSTLPTVFGEKVVIRILDKEGFNRTKDELGMFDDDIEKFDSILSHPHGIVLVTGPTGSGKSTTLYTALRELSKPTVNI
LTVEDPVEATIRGINQVQVNVKAGMTFASALRAFLRQDPDIIMVGEIRDRETAEIAIRAAITGHLVLSTLHTNDSVSSIT
RLMDMGIEPFLIASSLVGVLAQRLVRRLCNACKEEYVAKPHEMKILNVNEETKLYKPVGCPECNGTGYKGRIAAYEILTI
NSEMRDLISRRATNEELMHVALKNGMRTLKDSCARLVLSGVTSLEEMLSVVSIND

Nucleotide


Download         Length: 1128 bp        

>NTDB_id=173230 CSTERLE_RS05985 WP_237266955.1 1390413..1391540(+) (pilF) [Thermoclostridium stercorarium subsp. leptospartum DSM 9219]
ATGATCTTCAAAAGCGCCGTTGACAAAGGAGCCAGCGACATTCATATCGAAGCATATGAAGACTGTGTAATGATACGTTT
CAGAATCGACGGAAAACTTACCGAGTTTATGAGACAGGACAAAAAAATCCAGCAGATACTGATAGCACGCATAAAGATAA
TAAGCGGACTTAACATTGCCGAAAAGAGGGTTCCCCAGGATGGAAGAGTTGCATTGAAAATTAATAACAAGAACTATGAT
TTCCGTGTGTCGACACTTCCTACCGTTTTCGGTGAAAAAGTCGTTATCCGTATCCTCGATAAGGAAGGGTTCAACAGAAC
AAAGGACGAACTGGGAATGTTTGATGACGACATAGAGAAATTTGACAGTATTCTTTCCCATCCCCATGGGATAGTGCTTG
TTACGGGTCCGACGGGAAGCGGTAAGTCCACCACTTTGTATACTGCGTTGAGAGAGTTAAGCAAGCCAACCGTCAACATT
CTGACCGTTGAGGATCCGGTGGAAGCCACAATCAGGGGCATAAACCAGGTTCAGGTGAATGTTAAGGCGGGGATGACCTT
TGCAAGTGCGCTTCGCGCTTTCTTAAGACAGGACCCGGACATTATCATGGTGGGAGAGATACGCGACAGGGAGACTGCAG
AAATAGCAATACGCGCAGCTATTACAGGTCACCTGGTATTAAGCACGCTCCACACCAACGATTCGGTAAGTTCCATAACA
AGGCTTATGGATATGGGTATCGAACCGTTCCTTATAGCTTCATCCCTTGTCGGAGTTCTGGCCCAAAGGCTTGTAAGAAG
GCTGTGTAATGCCTGCAAGGAGGAATACGTAGCCAAACCTCACGAAATGAAAATACTGAATGTAAATGAGGAAACAAAGC
TGTACAAGCCTGTAGGATGTCCGGAATGCAACGGCACGGGATACAAGGGGCGAATTGCGGCTTACGAAATTCTGACGATA
AATTCTGAAATGCGGGATTTGATTTCGCGCCGCGCCACCAACGAAGAATTGATGCATGTGGCATTAAAAAACGGAATGCG
GACACTTAAAGACAGCTGTGCCCGCCTCGTTTTATCAGGAGTTACGTCGCTTGAAGAAATGTTAAGCGTAGTTTCAATAA
ATGATTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(2-267)


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 Thermus thermophilus HB27

50

99.2

0.496
  pilF Neisseria gonorrhoeae MS11

49.865

98.933

0.493
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

48.936

100

0.491
  pilB Vibrio cholerae strain A1552

47.781

100

0.488
  pilB Vibrio parahaemolyticus RIMD 2210633

48

100

0.48
  pilB Legionella pneumophila strain ERS1305867

47.872

100

0.48
  pilB Vibrio campbellii strain DS40M4

48.257

99.467

0.48
  pilB Acinetobacter baylyi ADP1

46.825

100

0.472
  pilB Acinetobacter baumannii D1279779

47.059

99.733

0.469
  ctsE Campylobacter jejuni subsp. jejuni 81-176

47.107

96.8

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

44.041

100

0.453
  pilB Haemophilus influenzae Rd KW20

46.154

90.133

0.416
  pilB Haemophilus influenzae 86-028NP

47.484

84.8

0.403
  pilB Glaesserella parasuis strain SC1401

45.141

85.067

0.384

Multiple sequence alignment