Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   RCF98_RS11355 Genome accession   NZ_CP133218
Coordinates   2333326..2334198 (+) Length   290 a.a.
NCBI ID   WP_028490509.1    Uniprot ID   -
Organism   Thiothrix lacustris strain MK1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2328326..2339198
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RCF98_RS11340 (RCF98_11340) tfpZ 2329334..2330101 (+) 768 WP_308893846.1 TfpX/TfpZ family type IV pilin accessory protein -
  RCF98_RS11345 (RCF98_11345) pilB 2330232..2331956 (+) 1725 WP_028490507.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RCF98_RS11350 (RCF98_11350) pilC 2332065..2333312 (+) 1248 WP_051543551.1 type II secretion system F family protein Machinery gene
  RCF98_RS11355 (RCF98_11355) pilD 2333326..2334198 (+) 873 WP_028490509.1 A24 family peptidase Machinery gene
  RCF98_RS11360 (RCF98_11360) - 2334208..2334639 (-) 432 WP_028490510.1 hypothetical protein -
  RCF98_RS11365 (RCF98_11365) ubiE 2334724..2335476 (+) 753 WP_308893848.1 bifunctional demethylmenaquinone methyltransferase/2-methoxy-6-polyprenyl-1,4-benzoquinol methylase UbiE -
  RCF98_RS11370 (RCF98_11370) opgC 2335422..2336609 (-) 1188 WP_028490512.1 OpgC domain-containing protein -
  RCF98_RS11375 (RCF98_11375) - 2336797..2338329 (+) 1533 WP_051543552.1 glucan biosynthesis protein -
  RCF98_RS11380 (RCF98_11380) - 2338397..2338810 (+) 414 WP_308893851.1 hypothetical protein -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32336.81 Da        Isoelectric Point: 7.6037

>NTDB_id=872561 RCF98_RS11355 WP_028490509.1 2333326..2334198(+) (pilD) [Thiothrix lacustris strain MK1]
MELIYLLSTSQVWLVSVVGLFSLLVGSFLNVVIYRLPIILERQWKRDCNEWLEKQAGEDTGEFNLVVPRSQCPTCGHKIT
AVENIPVLSYLFLRGKCRGCKTPISIQYPLVELATAILSMLMAVQVGFGIELLALLGFTWVLVALFMIDAKTMLLPDILT
YPLLWAGLLLNLNGMIVPLPDAVLGAAFGYLSLWSVFHLFRLITGKEGMGYGDFKLLAALGAWGGWQILPFIIFASSAFG
AVFGIVWMLVKRNRESLPMPFGPWLAMAGFVAVIWRTEILAWMTPIFMPN

Nucleotide


Download         Length: 873 bp        

>NTDB_id=872561 RCF98_RS11355 WP_028490509.1 2333326..2334198(+) (pilD) [Thiothrix lacustris strain MK1]
ATGGAACTTATTTATTTACTCAGCACCAGCCAAGTCTGGTTAGTGAGCGTGGTTGGGTTATTTTCATTGCTGGTGGGTAG
TTTCCTGAATGTGGTTATTTATCGACTGCCCATCATCCTAGAGCGCCAGTGGAAACGTGATTGCAATGAATGGTTAGAAA
AACAAGCGGGTGAGGATACCGGAGAGTTTAATCTAGTGGTGCCGCGTTCGCAGTGTCCTACTTGCGGTCATAAGATTACA
GCGGTGGAGAATATCCCCGTGCTGAGTTACTTGTTCCTGAGGGGGAAGTGTCGCGGTTGTAAAACGCCTATTTCTATCCA
ATACCCACTGGTGGAATTAGCGACGGCGATACTTTCCATGTTGATGGCAGTGCAGGTAGGCTTTGGTATTGAATTGCTGG
CTTTATTGGGTTTTACGTGGGTATTGGTTGCGCTGTTCATGATCGATGCCAAAACCATGTTGTTACCTGACATTCTCACT
TATCCGCTGTTATGGGCAGGCTTGCTGCTCAATCTGAACGGTATGATCGTGCCATTACCTGATGCGGTATTGGGTGCTGC
CTTTGGGTATTTGTCGTTGTGGTCGGTATTCCATTTGTTCCGCCTCATTACTGGGAAGGAGGGCATGGGTTATGGTGACT
TCAAATTGCTCGCAGCGCTCGGTGCATGGGGGGGCTGGCAGATATTACCGTTTATCATTTTCGCCTCATCCGCGTTTGGC
GCCGTGTTTGGCATCGTGTGGATGTTAGTCAAGCGTAACCGCGAAAGCCTACCAATGCCCTTCGGCCCATGGCTGGCAAT
GGCAGGCTTTGTGGCTGTTATCTGGCGCACCGAGATACTGGCGTGGATGACGCCTATCTTCATGCCCAACTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)

Type IV leader peptidase family (Peptidase_A24)

(138-245)


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
  pilD Vibrio cholerae strain A1552

51.579

98.276

0.507
  pilD Vibrio campbellii strain DS40M4

53.114

94.138

0.5
  pilD Neisseria gonorrhoeae MS11

49.632

93.793

0.466
  pilD Acinetobacter baumannii D1279779

47.727

91.034

0.434
  pilD Acinetobacter nosocomialis M2

47.348

91.034

0.431