Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   TBD_RS11880 Genome accession   NC_007404
Coordinates   2441941..2442792 (-) Length   283 a.a.
NCBI ID   WP_011312880.1    Uniprot ID   -
Organism   Thiobacillus denitrificans ATCC 25259     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2436941..2447792
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  TBD_RS11855 (Tbd_2363) ilvA 2438064..2439581 (-) 1518 WP_011312875.1 threonine ammonia-lyase, biosynthetic -
  TBD_RS11860 (Tbd_2364) rpiA 2439662..2440318 (+) 657 WP_011312876.1 ribose-5-phosphate isomerase RpiA -
  TBD_RS11865 (Tbd_2365) - 2440319..2440528 (-) 210 WP_011312877.1 DNA gyrase inhibitor YacG -
  TBD_RS11870 (Tbd_2366) zapD 2440525..2441280 (-) 756 WP_011312878.1 cell division protein ZapD -
  TBD_RS11875 (Tbd_2367) coaE 2441333..2441941 (-) 609 WP_011312879.1 dephospho-CoA kinase -
  TBD_RS11880 (Tbd_2368) pilD 2441941..2442792 (-) 852 WP_011312880.1 prepilin peptidase Machinery gene
  TBD_RS11885 (Tbd_2369) pilC 2442789..2444012 (-) 1224 WP_011312881.1 type II secretion system F family protein Machinery gene
  TBD_RS11890 (Tbd_2370) pilB 2444025..2445740 (-) 1716 WP_011312882.1 type IV-A pilus assembly ATPase PilB Machinery gene
  TBD_RS11895 (Tbd_2371) - 2445838..2447136 (-) 1299 WP_011312883.1 HlyC/CorC family transporter -

Sequence

Protein


Download         Length: 283 a.a.        Molecular weight: 30277.09 Da        Isoelectric Point: 7.6654

>NTDB_id=24676 TBD_RS11880 WP_011312880.1 2441941..2442792(-) (pilD) [Thiobacillus denitrificans ATCC 25259]
MTLFVAEPALFTGLVFLLGLLVGSFLNVVVHRLPKMMDAEWQAQCAELRGEPSPAGPRFNLWAPRSACPACGHAITALEN
VPLLSWLWLRGRCASCRTPISARYPLVELLAALLSAAVAWKWGPTVQAAGALLLVWMLIALAFIDLDTTLLPDSLTLPLL
WAGLLINLGGHFASLPDAVAGAAAGYLVLWSVYWMFKLVTGKEGMGYGDFKLLAAIGAWLGWQLLPVTLLLASVVGAVVG
ITMIVAVKHDRRVPIPFGPYLAGGGLVALFFGADLTQAYLAQF

Nucleotide


Download         Length: 852 bp        

>NTDB_id=24676 TBD_RS11880 WP_011312880.1 2441941..2442792(-) (pilD) [Thiobacillus denitrificans ATCC 25259]
ATGACGCTATTCGTCGCCGAACCGGCCCTCTTCACAGGGCTGGTTTTCCTGCTCGGCCTGCTCGTCGGCAGCTTTCTCAA
CGTCGTCGTCCACCGCCTGCCGAAAATGATGGACGCCGAATGGCAGGCGCAGTGCGCGGAGCTGCGCGGCGAGCCGTCGC
CGGCGGGGCCGCGTTTCAACCTGTGGGCGCCGCGCTCGGCGTGCCCGGCCTGCGGCCACGCGATCACGGCGCTCGAGAAC
GTACCGCTGCTTTCGTGGCTATGGCTTCGCGGACGGTGCGCGTCTTGCAGGACGCCGATCAGCGCGCGCTATCCGCTGGT
CGAACTGCTCGCGGCGCTGCTCTCCGCGGCGGTGGCCTGGAAGTGGGGGCCGACGGTCCAGGCCGCCGGTGCATTGCTGC
TCGTCTGGATGCTCATCGCGCTCGCCTTCATCGATCTTGACACGACGTTGTTGCCGGACAGCCTGACGCTTCCACTGCTC
TGGGCCGGCTTGCTGATCAATCTCGGCGGACATTTCGCTTCCCTTCCTGACGCGGTCGCCGGCGCGGCCGCGGGCTACCT
CGTGCTATGGTCGGTCTACTGGATGTTCAAGCTGGTGACGGGCAAGGAGGGGATGGGCTATGGTGATTTCAAGCTGCTGG
CGGCGATCGGGGCGTGGCTCGGCTGGCAGTTGCTGCCCGTCACGCTTCTGCTCGCGTCGGTCGTCGGGGCGGTGGTCGGC
ATCACGATGATCGTCGCCGTCAAGCACGACCGCCGTGTGCCGATCCCGTTCGGCCCCTACCTCGCGGGCGGGGGACTCGT
TGCCCTGTTCTTCGGTGCGGACCTGACGCAGGCCTATCTCGCGCAGTTCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(132-241)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)


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

54.93

100

0.551
  pilD Vibrio campbellii strain DS40M4

50.526

100

0.509
  pilD Acinetobacter baumannii D1279779

49.254

94.7

0.466
  pilD Acinetobacter nosocomialis M2

48.881

94.7

0.463
  pilD Neisseria gonorrhoeae MS11

50.199

88.693

0.445

Multiple sequence alignment