Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   TBD_RS11890 Genome accession   NC_007404
Coordinates   2444025..2445740 (-) Length   571 a.a.
NCBI ID   WP_011312882.1    Uniprot ID   Q3SGC7
Organism   Thiobacillus denitrificans ATCC 25259     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2439025..2450740
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  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 -
  TBD_RS11900 (Tbd_2372) ccsA 2447148..2447936 (-) 789 WP_011312884.1 cytochrome C assembly family protein -
  TBD_RS11905 (Tbd_2373) ffh 2448001..2449344 (+) 1344 WP_011312885.1 signal recognition particle protein -
  TBD_RS11910 rpsP 2449416..2449664 (+) 249 WP_041432748.1 30S ribosomal protein S16 -
  TBD_RS11915 (Tbd_2374) rimM 2449603..2450172 (+) 570 WP_011312886.1 ribosome maturation factor RimM -

Sequence

Protein


Download         Length: 571 a.a.        Molecular weight: 62452.51 Da        Isoelectric Point: 4.9236

>NTDB_id=24678 TBD_RS11890 WP_011312882.1 2444025..2445740(-) (pilB) [Thiobacillus denitrificans ATCC 25259]
MAAVTNTNNLTGLARAMVNHGWLSEQDAEGVWNRAHQSGDSFVTELIKGRRFKADQVAEFAAASFGFPYLDLNAMDAESL
PQGLLDQKLVQKRRVLALYQRGNKLYVATSDPTHLQALDEVKFQTGQAVEPVVVEDDKLGKLIEKAGEASESTMAVLNAE
DLDLDFADEESAAAVQETGGIEIDDAPVVRYLQKIMLDAINMGASDIHLEPYEKFYRIRYRRDGMLYEVAQPPMAIKDKV
ASRIKVLSRLDISEKRVPQDGRMKLVLSKNRAIDFRVSTLPTLYGEKIVMRILDPSSAQLGIEALGYEPWQKDLLMDAIR
RPYGMVLVTGPTGSGKTVSLYTCLNILNKPDVNISTAEDPAEIQLPGINQVNVNDKAGLTFSAALKSFLRQDPDVIMVGE
IRDLETADIAIKAAQTGHMVMSTLHTNDAPGTLTRLLNMGVAPFNVASSVILITAQRLGRRLCSCKQPADVPTETLLAAG
FTEDQLDGTWQPYRPVGCEICGGSGYKGRVGIYQVMPITDAMTRIILKGGNESDIADQAKREGVLDLRQAGLLKVKAGLT
SLEEVEAVTNI

Nucleotide


Download         Length: 1716 bp        

>NTDB_id=24678 TBD_RS11890 WP_011312882.1 2444025..2445740(-) (pilB) [Thiobacillus denitrificans ATCC 25259]
ATGGCCGCTGTAACGAACACGAACAACCTGACCGGGCTGGCGCGTGCGATGGTCAACCACGGCTGGCTGTCCGAGCAGGA
CGCCGAGGGGGTGTGGAATCGTGCGCACCAGTCCGGCGACTCGTTCGTGACCGAGCTGATCAAGGGGCGGCGCTTCAAGG
CCGACCAGGTCGCCGAATTCGCCGCGGCGTCCTTCGGCTTTCCCTATCTCGACCTCAACGCGATGGACGCCGAGAGCCTG
CCGCAAGGCCTGCTCGACCAGAAGCTGGTGCAGAAGCGGCGGGTGCTCGCGCTCTATCAGCGCGGCAACAAGCTGTACGT
GGCGACCTCCGACCCCACGCACCTGCAAGCGCTCGACGAGGTGAAATTCCAGACCGGGCAGGCCGTCGAACCGGTGGTCG
TCGAAGACGACAAGCTCGGCAAGCTGATCGAAAAGGCAGGCGAGGCCTCGGAAAGCACGATGGCCGTGTTGAACGCCGAA
GACCTCGACCTCGATTTCGCCGACGAAGAGAGCGCCGCCGCAGTCCAGGAGACCGGCGGAATCGAGATCGACGACGCCCC
GGTCGTGCGCTACCTGCAGAAGATCATGCTCGACGCCATCAACATGGGCGCCTCCGACATCCACTTGGAGCCCTACGAGA
AGTTCTACCGCATTCGCTACCGGCGCGACGGCATGCTGTACGAAGTTGCTCAGCCGCCGATGGCGATCAAGGACAAGGTC
GCGTCGCGCATCAAGGTGCTGTCGCGTCTCGACATTTCCGAGAAGCGCGTGCCGCAGGACGGCCGCATGAAGTTGGTGCT
GTCGAAGAACCGCGCGATCGATTTTCGCGTCAGCACCCTGCCGACGCTGTATGGCGAAAAAATCGTGATGCGTATTCTCG
ACCCGAGCAGTGCGCAGCTCGGGATCGAAGCGCTGGGTTACGAGCCCTGGCAGAAGGATCTGCTGATGGACGCAATCCGG
CGCCCCTATGGCATGGTGCTCGTCACCGGGCCGACCGGCTCCGGCAAGACCGTGTCGCTCTATACCTGCCTGAATATTCT
GAACAAGCCCGACGTCAACATTTCGACCGCCGAAGATCCGGCCGAAATCCAGTTGCCCGGAATCAACCAGGTCAACGTCA
ACGATAAGGCTGGGCTGACGTTTTCGGCGGCGCTCAAATCCTTCCTGCGGCAGGACCCCGACGTCATCATGGTCGGCGAG
ATTCGCGATCTCGAAACCGCGGACATCGCGATCAAGGCGGCGCAGACCGGACACATGGTGATGTCGACGCTGCACACCAA
CGATGCCCCCGGCACGCTGACGCGTCTGCTGAACATGGGTGTCGCGCCGTTCAACGTCGCCTCGTCGGTGATTTTGATCA
CCGCCCAGCGCCTCGGTCGACGTCTGTGCAGCTGCAAGCAGCCCGCCGACGTTCCCACGGAAACCCTGCTCGCCGCAGGC
TTCACCGAGGATCAGCTGGACGGGACGTGGCAGCCCTACCGGCCGGTCGGGTGCGAGATATGCGGCGGCAGCGGCTACAA
GGGCCGCGTCGGCATCTATCAGGTCATGCCGATCACCGACGCGATGACGCGGATCATCCTCAAGGGCGGCAACGAATCCG
ACATCGCGGACCAGGCCAAGCGCGAAGGCGTGCTCGATTTGCGCCAGGCGGGTCTGTTGAAGGTAAAAGCCGGGCTCACC
TCGCTGGAAGAGGTCGAGGCCGTTACCAACATTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(194-461)

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(18-151)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q3SGC7

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
  pilB Acinetobacter baumannii D1279779

55.594

100

0.557
  pilF Neisseria gonorrhoeae MS11

54.594

99.124

0.541
  pilB Acinetobacter baylyi ADP1

54.021

100

0.541
  pilB Legionella pneumophila strain ERS1305867

51.993

100

0.525
  pilB Vibrio cholerae strain A1552

47.285

100

0.473
  pilB Vibrio campbellii strain DS40M4

46.831

99.475

0.466
  pilB Vibrio parahaemolyticus RIMD 2210633

46.573

99.65

0.464
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.502

98.424

0.389
  pilF Thermus thermophilus HB27

38.516

99.124

0.382

Multiple sequence alignment