Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VA613_RS12615 Genome accession   NZ_CP141769
Coordinates   2525135..2526847 (-) Length   570 a.a.
NCBI ID   WP_324779366.1    Uniprot ID   -
Organism   Thiobacillus sedimenti strain SCUT-2     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2520135..2531847
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VA613_RS12585 (VA613_12585) rpiA 2520784..2521440 (+) 657 WP_324779360.1 ribose-5-phosphate isomerase RpiA -
  VA613_RS12590 (VA613_12590) - 2521444..2521638 (-) 195 WP_324779361.1 DNA gyrase inhibitor YacG -
  VA613_RS12595 (VA613_12595) zapD 2521635..2522390 (-) 756 WP_324779362.1 cell division protein ZapD -
  VA613_RS12600 (VA613_12600) coaE 2522443..2523051 (-) 609 WP_324779363.1 dephospho-CoA kinase -
  VA613_RS12605 (VA613_12605) pilD 2523051..2523902 (-) 852 WP_324779364.1 A24 family peptidase Machinery gene
  VA613_RS12610 (VA613_12610) pilC 2523902..2525125 (-) 1224 WP_324779365.1 type II secretion system F family protein Machinery gene
  VA613_RS12615 (VA613_12615) pilB 2525135..2526847 (-) 1713 WP_324779366.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VA613_RS12620 (VA613_12620) - 2526946..2528244 (-) 1299 WP_324779367.1 HlyC/CorC family transporter -
  VA613_RS12625 (VA613_12625) - 2528256..2529011 (-) 756 WP_324779368.1 cytochrome c biogenesis protein CcsA -
  VA613_RS12630 (VA613_12630) ffh 2529112..2530455 (+) 1344 WP_324779369.1 signal recognition particle protein -
  VA613_RS12635 (VA613_12635) rpsP 2530598..2530852 (+) 255 WP_324779370.1 30S ribosomal protein S16 -
  VA613_RS12640 (VA613_12640) rimM 2530889..2531389 (+) 501 WP_324779371.1 ribosome maturation factor RimM -

Sequence

Protein


Download         Length: 570 a.a.        Molecular weight: 62515.49 Da        Isoelectric Point: 4.9296

>NTDB_id=919314 VA613_RS12615 WP_324779366.1 2525135..2526847(-) (pilB) [Thiobacillus sedimenti strain SCUT-2]
MAAVTNTTNLTGLARAMVNHGWLSEDDAEGVWKRASQSGESFVTELIKGHRFKADQVAEFAAASFGFPYLDLNAMDHDSL
PQGLLDPKLVQKRRVLALYQRGNKLYVATSDPTHLQALDEVKFQTGQTVEPVVVEDDKLGKFIEKVGEANDNTLAVLNAE
DLELDFADEESAAQQDAPGIEIDDAPVVRYLQKIMLDAINIGASDIHFEPYEKFYRIRYRRDGILSEVAQPPMAIKDKIA
SRIKVLSRLDISEKRVPQDGRMKMVLSKNRAIDFRVSTLPTLYGEKIVMRILDPSSAQLGIEALGYEPWQKEALMSAIQR
PYGMVLVTGPTGSGKTVSLYTCLNLLNKPDVNISTAEDPAEIQLPGINQVNVNDKAGLTFSAALKSFLRQDPDVIMVGEI
RDLETADIAIKAAQTGHMVMSTLHTNDAPGTLTRLLNMGVAPFNVASSVILITAQRLGRRLCSCKQPADIPRETLLAAGF
TDEQLDDTWRPYKAVGCDICGGTGYKGRVGIYQVMPITDDMTRIILKGGNEADIADQARREGVLDLRQAGLLKVKAGLTS
LEEVEAVTNI

Nucleotide


Download         Length: 1713 bp        

>NTDB_id=919314 VA613_RS12615 WP_324779366.1 2525135..2526847(-) (pilB) [Thiobacillus sedimenti strain SCUT-2]
ATGGCAGCTGTGACAAACACCACCAACCTTACCGGACTGGCGCGTGCCATGGTCAACCATGGCTGGCTCTCCGAGGACGA
CGCCGAGGGGGTCTGGAAACGGGCGAGCCAGTCCGGCGAGTCCTTTGTGACCGAACTGATCAAGGGGCACCGCTTCAAGG
CTGACCAGGTGGCCGAGTTCGCGGCGGCCTCGTTCGGCTTTCCGTATCTCGATCTGAACGCCATGGATCATGACAGCCTG
CCGCAGGGGCTGCTCGACCCGAAGCTTGTCCAGAAGCGGCGCGTGCTGGCCTTGTATCAGCGCGGCAACAAGCTGTACGT
CGCGACCTCCGACCCGACTCACCTGCAGGCGCTGGACGAGGTGAAGTTCCAGACCGGCCAGACGGTGGAGCCTGTGGTCG
TGGAGGACGACAAGCTCGGCAAGTTCATCGAGAAGGTTGGCGAGGCGAACGACAATACCCTCGCCGTGCTGAACGCGGAA
GACCTTGAACTCGATTTTGCCGACGAGGAAAGCGCGGCCCAGCAGGATGCGCCGGGCATCGAGATCGACGATGCACCGGT
GGTGCGCTATCTGCAGAAGATCATGCTGGACGCGATCAACATCGGCGCCTCCGACATCCACTTCGAGCCCTACGAGAAGT
TCTACCGGATTCGCTACCGCCGCGACGGCATTCTCTCCGAGGTCGCGCAGCCGCCGATGGCGATCAAGGACAAGATCGCA
TCGCGCATCAAGGTGCTGTCGAGGCTGGACATCTCGGAAAAGCGGGTGCCGCAGGACGGGCGCATGAAGATGGTGCTGTC
GAAGAACCGGGCGATCGACTTCCGGGTCAGCACGCTGCCGACGCTGTATGGTGAAAAGATCGTCATGCGGATTCTCGATC
CGTCCAGTGCCCAACTCGGGATCGAGGCGCTGGGGTACGAGCCGTGGCAGAAGGAGGCGCTGATGAGCGCCATCCAGCGT
CCTTACGGGATGGTGCTGGTAACCGGTCCGACCGGTTCGGGCAAAACCGTGTCGCTCTATACCTGCCTCAACCTCCTGAA
CAAGCCCGACGTCAACATCTCGACTGCCGAGGATCCGGCGGAAATCCAGTTGCCCGGCATCAACCAGGTCAACGTCAACG
ACAAGGCGGGCCTGACCTTTTCGGCGGCACTGAAGTCCTTCCTGCGCCAGGACCCCGACGTGATCATGGTCGGCGAAATC
CGCGACCTGGAAACCGCCGATATCGCCATCAAGGCGGCACAGACCGGCCACATGGTGATGTCGACCCTGCACACCAACGA
TGCCCCCGGCACGCTCACGCGCCTCCTCAACATGGGCGTGGCGCCGTTCAACGTCGCTTCCTCCGTGATCCTGATCACGG
CGCAGCGCCTCGGGCGGCGTCTCTGCTCGTGCAAGCAGCCTGCCGACATTCCCCGGGAAACGCTGCTGGCGGCGGGGTTC
ACCGATGAGCAGCTCGACGACACCTGGCGGCCCTACAAGGCCGTAGGATGCGACATCTGCGGCGGTACTGGCTACAAGGG
GCGGGTCGGCATCTACCAGGTGATGCCGATCACCGACGACATGACGCGCATCATCCTCAAGGGCGGCAATGAGGCCGACA
TCGCCGACCAGGCGCGCCGCGAAGGGGTGCTCGACCTGCGGCAGGCGGGACTGTTGAAAGTGAAAGCCGGCCTCACCTCG
CTGGAAGAGGTCGAGGCGGTCACCAATATCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(193-460)

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

(18-147)


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
  pilB Acinetobacter baumannii D1279779

54.704

100

0.551
  pilF Neisseria gonorrhoeae MS11

54.69

99.123

0.542
  pilB Acinetobacter baylyi ADP1

52.787

100

0.532
  pilB Legionella pneumophila strain ERS1305867

52.439

100

0.528
  pilB Vibrio cholerae strain A1552

47.35

99.298

0.47
  pilB Vibrio campbellii strain DS40M4

46.597

100

0.468
  pilB Vibrio parahaemolyticus RIMD 2210633

46.384

99.474

0.461
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.894

98.947

0.395
  pilF Thermus thermophilus HB27

38.584

99.123

0.382